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Conserved domains on  [gi|332003924|gb|AED91307|]
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peroxisome 1 [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 852-1009 4.67e-103

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


:

Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 320.92  E-value: 4.67e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLC 1009
Cdd:cd19526    81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVYC 158
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 585-1117 3.06e-100

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 333.80  E-value: 3.06e-100
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   585 FSKFKIPSPGHILIYGPPGSGKTILARAAAKyfeeqkDLLAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHAPSVIIL 664
Cdd:TIGR01243  204 FEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN------EAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFI 277

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   665 DDLDSIISSSSDTEG-TQASVGVTMLTkfLTDVIDdygeyrnsscGIGPLAFVASVQSLEQIPQTLSSSGRFDFHVQLAA 743
Cdd:TIGR01243  278 DEIDAIAPKREEVTGeVEKRVVAQLLT--LMDGLK----------GRGRVIVIGATNRPDALDPALRRPGRFDREIVIRV 345

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   744 PATSERGAILKHEIQKRLLdcSEDILLN-LAAKCEGYDAYDLEILVDRAVHAAIGRHLP-----LESN------ISKYNL 811
Cdd:TIGR01243  346 PDKRARKEILKVHTRNMPL--AEDVDLDkLAEVTHGFVGADLAALAKEAAMAALRRFIRegkinFEAEeipaevLKELKV 423

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   812 VKEDFTRAMHDFVPVAMRDITKSASEggrLGWEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGK 891
Cdd:TIGR01243  424 TMKDFMEALKMVEPSAIREVLVEVPN---VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGK 500

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   892 THIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHD-NTGVTDRVVNQFLT 970
Cdd:TIGR01243  501 TLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLT 580

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   971 ELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGAD 1050
Cdd:TIGR01243  581 EMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGAD 660

                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  1051 LQALLSDAQLAAVHEYLNR--EDKPETGTTPIITDPLLK-----SIASKTKPSVSEtekqklYDI--YSQFLDSRK 1117
Cdd:TIGR01243  661 IEAVCREAAMAALRESIGSpaKEKLEVGEEEFLKDLKVEmrhflEALKKVKPSVSK------EDMlrYERLAKELK 730
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 109-182 5.97e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


:

Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.45  E-value: 5.97e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 332003924   109 VTVEPETEDDWEVLELNAELAEAAILSQVRILHETMKFPLWLHDRTVIRFSVVSTFPSK-GVVQLVPGTEVAVAP 182
Cdd:pfam09262    3 VEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPANsPFARLSPDTEVIVAP 77
 
Name Accession Description Interval E-value
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 852-1009 4.67e-103

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 320.92  E-value: 4.67e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLC 1009
Cdd:cd19526    81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVYC 158
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 585-1117 3.06e-100

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 333.80  E-value: 3.06e-100
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   585 FSKFKIPSPGHILIYGPPGSGKTILARAAAKyfeeqkDLLAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHAPSVIIL 664
Cdd:TIGR01243  204 FEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN------EAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFI 277

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   665 DDLDSIISSSSDTEG-TQASVGVTMLTkfLTDVIDdygeyrnsscGIGPLAFVASVQSLEQIPQTLSSSGRFDFHVQLAA 743
Cdd:TIGR01243  278 DEIDAIAPKREEVTGeVEKRVVAQLLT--LMDGLK----------GRGRVIVIGATNRPDALDPALRRPGRFDREIVIRV 345

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   744 PATSERGAILKHEIQKRLLdcSEDILLN-LAAKCEGYDAYDLEILVDRAVHAAIGRHLP-----LESN------ISKYNL 811
Cdd:TIGR01243  346 PDKRARKEILKVHTRNMPL--AEDVDLDkLAEVTHGFVGADLAALAKEAAMAALRRFIRegkinFEAEeipaevLKELKV 423

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   812 VKEDFTRAMHDFVPVAMRDITKSASEggrLGWEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGK 891
Cdd:TIGR01243  424 TMKDFMEALKMVEPSAIREVLVEVPN---VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGK 500

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   892 THIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHD-NTGVTDRVVNQFLT 970
Cdd:TIGR01243  501 TLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLT 580

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   971 ELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGAD 1050
Cdd:TIGR01243  581 EMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGAD 660

                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  1051 LQALLSDAQLAAVHEYLNR--EDKPETGTTPIITDPLLK-----SIASKTKPSVSEtekqklYDI--YSQFLDSRK 1117
Cdd:TIGR01243  661 IEAVCREAAMAALRESIGSpaKEKLEVGEEEFLKDLKVEmrhflEALKKVKPSVSK------EDMlrYERLAKELK 730
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 783-1099 3.10e-90

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 293.07  E-value: 3.10e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  783 DLEILVDRAVHAAIGRHLPLESNISKYnlVKEDFTRAMHDFVPVAMRDITKSASEGGRLGWEDVGGVTDIKNAIKEMIEL 862
Cdd:COG1222    19 DALQERLGVELALLLQPVKALELLEEA--PALLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVEL 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  863 PSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILF 942
Cdd:COG1222    97 PLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIF 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  943 FDEFDSIAPKRGHDNT-GVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLCDFPSPPERLEIL 1021
Cdd:COG1222   177 IDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREEIL 256

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924 1022 TVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVheylnREDKPEtgttpIITDPLLKSIaSKTKPSVSE 1099
Cdd:COG1222   257 KIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAI-----REGRDT-----VTMEDLEKAI-EKVKKKTET 323
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 843-1065 8.28e-76

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 255.99  E-value: 8.28e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:COG0464   156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGET 235

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEvlTGVFVFAATSRPDLLDPALLRpgR 1002
Cdd:COG0464   236 EKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRVVNTLLTEMEELR--SDVVVIAATNRPDLLDPALLR--R 311

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332003924 1003 LDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHE 1065
Cdd:COG0464   312 FDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRL 374
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 843-1071 4.75e-64

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 222.79  E-value: 4.75e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:PRK03992  130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEG 209

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGvTDRVVN----QFLTELDGVEVLTGVFVFAATSRPDLLDPALL 998
Cdd:PRK03992  210 ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTS-GDREVQrtlmQLLAEMDGFDPRGNVKIIAATNRIDILDPAIL 288

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  999 RPGRLDRLLlcDFPSPPE--RLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAV---HEYLNRED 1071
Cdd:PRK03992  289 RPGRFDRII--EVPLPDEegRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIrddRTEVTMED 364
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 843-1068 1.21e-59

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 219.01  E-value: 1.21e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:TIGR01243  177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGES 256

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGR 1002
Cdd:TIGR01243  257 EERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGR 336

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  1003 LDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHEYLN 1068
Cdd:TIGR01243  337 FDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIR 402
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 881-1010 2.64e-46

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 162.38  E-value: 2.64e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   881 VLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGV 960
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 332003924   961 TDRVVNQFLTELDGVEVLTG-VFVFAATSRPDLLDPALLrpGRLDRLLLCD 1010
Cdd:pfam00004   81 SRRVVNQLLTELDGFTSSNSkVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
cell_div_CdvC NF041006
cell division protein CdvC;
837-1107 2.35e-41

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 156.43  E-value: 2.35e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  837 EGGRLGWEDVGGVTDIKNAIKEMIELPSKFPKIFaksPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLN 916
Cdd:NF041006   96 EKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF---PLGWPRGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMS 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  917 KYIGASEQAVRDIFSKAAAAA-----PCILFFDEFDSIAPKRGHDNTGVTdRVVNQFLTELDGV----EVLTgVFVFAAT 987
Cdd:NF041006  173 KWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLGVYSSEVGGEV-RVRNQFLKEMDGLqdksENYH-VYVIGAT 250

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  988 SRPDLLDPALLRpgRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHE-Y 1066
Cdd:NF041006  251 NKPWRLDEPFLR--RFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRDIVQAAHMRVVKEmF 328

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 332003924 1067 LNREDKPEtgttPIITDPLLKSIASKtKPSVSEtEKQKLYD 1107
Cdd:NF041006  329 EKGLGEPR----PITMEDFKEVLKIR-KPSVNQ-EMLKAYE 363
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 109-182 5.97e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.45  E-value: 5.97e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 332003924   109 VTVEPETEDDWEVLELNAELAEAAILSQVRILHETMKFPLWLHDRTVIRFSVVSTFPSK-GVVQLVPGTEVAVAP 182
Cdd:pfam09262    3 VEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPANsPFARLSPDTEVIVAP 77
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 878-1007 5.96e-14

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 70.48  E-value: 5.96e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924    878 RSNVLLYGPPGCGKTHIVGAAAAAC---SLRFISVKGPELL--------------NKYIGASEQAVRDIFSKAAAAAPCI 940
Cdd:smart00382    2 GEVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILeevldqllliivggKKASGSGELRLRLALALARKLKPDV 81

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924    941 LFFDEFDSIAPKRGHDntgvtDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPgRLDRLL 1007
Cdd:smart00382   82 LILDEITSLLDAEQEA-----LLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRI 142
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 1033-1068 8.11e-09

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 52.16  E-value: 8.11e-09
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 332003924  1033 DIDLEPIALMTEGFSGADLQALLSDAQLAAVHEYLN 1068
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLE 36
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 589-635 1.79e-07

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 51.76  E-value: 1.79e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 332003924  589 KIPSPGHILIYGPPGSGKTILARAAAKYFEEQKdllAHVILVSCSTL 635
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTLARAIANELFRPG---APFLYLNASDL 58
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 592-658 5.80e-06

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 47.37  E-value: 5.80e-06
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924    592 SPGHILIYGPPGSGKTILARAAAKYFEEQKdllAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHA 658
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPG---GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGE 64
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 875-917 2.66e-05

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 46.70  E-value: 2.66e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 332003924  875 LRLRSNVLLYGPPGCGKTHIVGA-AAAAC----SLRFISVkgPELLNK 917
Cdd:NF038214   87 IERAENVLLLGPPGTGKTHLAIAlGYAACrqgyRVRFTTA--ADLVEQ 132
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 585-614 1.14e-03

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 42.51  E-value: 1.14e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:PRK03992  157 FEEVGIEPPKGVLLYGPPGTGKTLLAKAVA 186
 
Name Accession Description Interval E-value
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 852-1009 4.67e-103

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 320.92  E-value: 4.67e-103
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19526     1 VKKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLC 1009
Cdd:cd19526    81 RAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLVYC 158
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 585-1117 3.06e-100

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 333.80  E-value: 3.06e-100
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   585 FSKFKIPSPGHILIYGPPGSGKTILARAAAKyfeeqkDLLAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHAPSVIIL 664
Cdd:TIGR01243  204 FEHLGIEPPKGVLLYGPPGTGKTLLAKAVAN------EAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFI 277

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   665 DDLDSIISSSSDTEG-TQASVGVTMLTkfLTDVIDdygeyrnsscGIGPLAFVASVQSLEQIPQTLSSSGRFDFHVQLAA 743
Cdd:TIGR01243  278 DEIDAIAPKREEVTGeVEKRVVAQLLT--LMDGLK----------GRGRVIVIGATNRPDALDPALRRPGRFDREIVIRV 345

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   744 PATSERGAILKHEIQKRLLdcSEDILLN-LAAKCEGYDAYDLEILVDRAVHAAIGRHLP-----LESN------ISKYNL 811
Cdd:TIGR01243  346 PDKRARKEILKVHTRNMPL--AEDVDLDkLAEVTHGFVGADLAALAKEAAMAALRRFIRegkinFEAEeipaevLKELKV 423

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   812 VKEDFTRAMHDFVPVAMRDITKSASEggrLGWEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGK 891
Cdd:TIGR01243  424 TMKDFMEALKMVEPSAIREVLVEVPN---VRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGK 500

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   892 THIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHD-NTGVTDRVVNQFLT 970
Cdd:TIGR01243  501 TLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARfDTSVTDRIVNQLLT 580

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   971 ELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGAD 1050
Cdd:TIGR01243  581 EMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGAD 660

                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  1051 LQALLSDAQLAAVHEYLNR--EDKPETGTTPIITDPLLK-----SIASKTKPSVSEtekqklYDI--YSQFLDSRK 1117
Cdd:TIGR01243  661 IEAVCREAAMAALRESIGSpaKEKLEVGEEEFLKDLKVEmrhflEALKKVKPSVSK------EDMlrYERLAKELK 730
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 783-1099 3.10e-90

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 293.07  E-value: 3.10e-90
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  783 DLEILVDRAVHAAIGRHLPLESNISKYnlVKEDFTRAMHDFVPVAMRDITKSASEGGRLGWEDVGGVTDIKNAIKEMIEL 862
Cdd:COG1222    19 DALQERLGVELALLLQPVKALELLEEA--PALLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVEL 96

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  863 PSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILF 942
Cdd:COG1222    97 PLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIF 176

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  943 FDEFDSIAPKRGHDNT-GVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLCDFPSPPERLEIL 1021
Cdd:COG1222   177 IDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREEIL 256

                         250       260       270       280       290       300       310
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924 1022 TVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVheylnREDKPEtgttpIITDPLLKSIaSKTKPSVSE 1099
Cdd:COG1222   257 KIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAI-----REGRDT-----VTMEDLEKAI-EKVKKKTET 323
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 852-1009 1.85e-78

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 254.13  E-value: 1.85e-78
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19511     1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGHDN-TGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLLC 1009
Cdd:cd19511    81 KARQAAPCIIFFDEIDSLAPRRGQSDsSGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKLIYV 159
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 843-1065 8.28e-76

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 255.99  E-value: 8.28e-76
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:COG0464   156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGET 235

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEvlTGVFVFAATSRPDLLDPALLRpgR 1002
Cdd:COG0464   236 EKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRVVNTLLTEMEELR--SDVVVIAATNRPDLLDPALLR--R 311

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 332003924 1003 LDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHE 1065
Cdd:COG0464   312 FDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRL 374
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 852-1008 2.72e-65

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 217.36  E-value: 2.72e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19529     1 VKQELKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGHD-NTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLL 1008
Cdd:cd19529    81 KARQVAPCVIFFDEIDSIAPRRGTTgDSGVTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDRLIY 158
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 843-1071 4.75e-64

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 222.79  E-value: 4.75e-64
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:PRK03992  130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKFIGEG 209

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGvTDRVVN----QFLTELDGVEVLTGVFVFAATSRPDLLDPALL 998
Cdd:PRK03992  210 ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTS-GDREVQrtlmQLLAEMDGFDPRGNVKIIAATNRIDILDPAIL 288

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  999 RPGRLDRLLlcDFPSPPE--RLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAV---HEYLNRED 1071
Cdd:PRK03992  289 RPGRFDRII--EVPLPDEegRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAICTEAGMFAIrddRTEVTMED 364
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 851-1008 6.95e-63

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 210.81  E-value: 6.95e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  851 DIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIF 930
Cdd:cd19530     3 HVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQVF 82

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924  931 SKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLLL 1008
Cdd:cd19530    83 QRARASAPCVIFFDEVDALVPKRGDGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRLDKTLY 160
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 852-1007 2.41e-61

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 206.21  E-value: 2.41e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19528     1 VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFD 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRG---HDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLL 1007
Cdd:cd19528    81 KARAAAPCVLFFDELDSIAKARGgniGDAGGAADRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQLI 159
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 845-1005 1.04e-60

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 204.83  E-value: 1.04e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQ 924
Cdd:cd19503     1 DIGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  925 AVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLD 1004
Cdd:cd19503    81 NLREIFEEARSHAPSIIFIDEIDALAPKREEDQREVERRVVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRRPGRFD 160


                  .
gi 332003924 1005 R 1005
Cdd:cd19503   161 R 161
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 852-1007 1.08e-60

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 204.67  E-value: 1.08e-60
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSpLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19527     1 VKKEILDTIQLPLEHPELFSSG-LRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQ 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRGH--DNTGVTDRVVNQFLTELDGVE-VLTGVFVFAATSRPDLLDPALLRPGRLDRLL 1007
Cdd:cd19527    80 KARDAKPCVIFFDELDSLAPSRGNsgDSGGVMDRVVSQLLAELDGMSsSGQDVFVIGATNRPDLLDPALLRPGRFDKLL 158
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 843-1068 1.21e-59

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 219.01  E-value: 1.21e-59
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:TIGR01243  177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGES 256

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGR 1002
Cdd:TIGR01243  257 EERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGR 336

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  1003 LDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHEYLN 1068
Cdd:TIGR01243  337 FDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRRFIR 402
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 845-1104 2.68e-57

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 206.37  E-value: 2.68e-57
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   845 DVGGVTDIKNAIKEMIEL---PSKFPKIFAKSPlrlrSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGA 921
Cdd:TIGR01241   56 DVAGIDEAKEELMEIVDFlknPSKFTKLGAKIP----KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGV 131

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   922 SEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRG------HDntgVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDP 995
Cdd:TIGR01241  132 GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGaglgggND---EREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDP 208

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   996 ALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVheylnREDKPET 1075
Cdd:TIGR01241  209 ALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAA-----RKNKTEI 283

                          250       260
                   ....*....|....*....|....*....
gi 332003924  1076 gTTPIITDPLLKSIASKTKPSVSETEKQK 1104
Cdd:TIGR01241  284 -TMNDIEEAIDRVIAGPEKKSRVISEKEK 311
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 852-1007 9.92e-53

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 181.71  E-value: 9.92e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  852 IKNAIKEMIELPSKFPKIFAKSpLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFS 931
Cdd:cd19481     1 LKASLREAVEAPRRGSRLRRYG-LGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFE 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  932 KAAAAAPCILFFDEFDSIAPKRG-HDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDRLL 1007
Cdd:cd19481    80 RARRLAPCILFIDEIDAIGRKRDsSGESGELRRVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGRFDEVI 156
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 845-1005 8.88e-51

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 176.47  E-value: 8.88e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQ 924
Cdd:cd19519     1 DIGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  925 AVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLD 1004
Cdd:cd19519    81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFD 160


                  .
gi 332003924 1005 R 1005
Cdd:cd19519   161 R 161
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 843-1007 9.59e-50

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 173.68  E-value: 9.59e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:cd19502     2 YEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEG 81

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGvTDRVVN----QFLTELDGVEVLTGVFVFAATSRPDLLDPALL 998
Cdd:cd19502    82 ARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTG-GDREVQrtmlELLNQLDGFDPRGNIKVIMATNRPDILDPALL 160


                  ....*....
gi 332003924  999 RPGRLDRLL 1007
Cdd:cd19502   161 RPGRFDRKI 169
ftsH CHL00176
cell division protein; Validated
 844-1063 1.20e-49

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 187.56  E-value: 1.20e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  844 EDVGGVTDIKNAIKEMIEL---PSKFPKIFAKSPlrlrSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIG 920
Cdd:CHL00176  183 RDIAGIEEAKEEFEEVVSFlkkPERFTAVGAKIP----KGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  921 ASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGhdnTGV------TDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLD 994
Cdd:CHL00176  259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG---AGIgggndeREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILD 335

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  995 PALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAV 1063
Cdd:CHL00176  336 AALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTA 404
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 834-1069 2.19e-48

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 177.65  E-value: 2.19e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  834 SASEGGRLGWEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPE 913
Cdd:PTZ00454  135 QMSEKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSE 214

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  914 LLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGvTDRVVNQFLTEL----DGVEVLTGVFVFAATSR 989
Cdd:PTZ00454  215 FVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTG-ADREVQRILLELlnqmDGFDQTTNVKVIMATNR 293

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  990 PDLLDPALLRPGRLDRLLlcDFPSPPERLE--ILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHEyl 1067
Cdd:PTZ00454  294 ADTLDPALLRPGRLDRKI--EFPLPDRRQKrlIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK-- 369


                  ..
gi 332003924 1068 NR 1069
Cdd:PTZ00454  370 NR 371
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
844-1074 7.83e-48

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 181.00  E-value: 7.83e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  844 EDVGGVTDIKNAIKEMIE-L--PSKFPKIFAKSPlrlrSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKY-- 918
Cdd:COG0465   142 DDVAGVDEAKEELQEIVDfLkdPEKFTRLGAKIP----KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFvg 217

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  919 IGASEqaVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTD---RVVNQFLTELDGVEVLTGVFVFAATSRPDLLDP 995
Cdd:COG0465   218 VGASR--VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGHDereQTLNQLLVEMDGFEGNEGVIVIAATNRPDVLDP 295

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  996 ALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVheylnREDKPE 1074
Cdd:COG0465   296 ALLRPGRFDRQVVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSGADLANLVNEAALLAA-----RRNKKA 369
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
845-1062 9.11e-48

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 181.77  E-value: 9.11e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIEL---PSKFPKIFAKSPlrlrSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGA 921
Cdd:PRK10733  153 DVAGCDEAKEEVAELVEYlrePSRFQKLGGKIP----KGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGV 228

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  922 SEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRG------HDNTgvtDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDP 995
Cdd:PRK10733  229 GASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGaglgggHDER---EQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDP 305

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  996 ALLRPGRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAA 1062
Cdd:PRK10733  306 ALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFA 372
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 845-1005 4.74e-47

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 165.87  E-value: 4.74e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIEL---PSKFPKIFAKSPlrlrSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGA 921
Cdd:cd19501     5 DVAGCEEAKEELKEVVEFlknPEKFTKLGAKIP----KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  922 SEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTD---RVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALL 998
Cdd:cd19501    81 GASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHDereQTLNQLLVEMDGFESNTGVIVIAATNRPDVLDPALL 160


                  ....*..
gi 332003924  999 RPGRLDR 1005
Cdd:cd19501   161 RPGRFDR 167
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
843-1071 1.24e-46

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 167.75  E-value: 1.24e-46
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIE--LPSKFPKIFAKSPLRlrsNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIG 920
Cdd:COG1223     1 LDDVVGQEEAKKKLKLIIKelRRRENLRKFGLWPPR---KILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLG 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  921 ASEQAVRDIFSKaAAAAPCILFFDEFDSIAPKRGHDN-TGVTDRVVNQFLTELDGVEvlTGVFVFAATSRPDLLDPALLR 999
Cdd:COG1223    78 ETARNLRKLFDF-ARRAPCVIFFDEFDAIAKDRGDQNdVGEVKRVVNALLQELDGLP--SGSVVIAATNHPELLDSALWR 154

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 332003924 1000 pgRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAV---HEYLNRED 1071
Cdd:COG1223   155 --RFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAIledREKVTKED 227
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 881-1010 2.64e-46

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 162.38  E-value: 2.64e-46
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   881 VLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGV 960
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|.
gi 332003924   961 TDRVVNQFLTELDGVEVLTG-VFVFAATSRPDLLDPALLrpGRLDRLLLCD 1010
Cdd:pfam00004   81 SRRVVNQLLTELDGFTSSNSkVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 842-1004 1.00e-45

proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 172.97  E-value: 1.00e-45
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   842 GWEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLR----------FISVKG 911
Cdd:TIGR03689  180 TYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVANSLAARigaegggksyFLNIKG 259

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   912 PELLNKYIGASEQAVRDIFSKAAAAA----PCILFFDEFDSIAPKRGhdnTGVTD----RVVNQFLTELDGVEVLTGVFV 983
Cdd:TIGR03689  260 PELLNKYVGETERQIRLIFQRAREKAsegrPVIVFFDEMDSLFRTRG---SGVSSdvetTVVPQLLAEIDGVESLDNVIV 336

                          170       180
                   ....*....|....*....|.
gi 332003924   984 FAATSRPDLLDPALLRPGRLD 1004
Cdd:TIGR03689  337 IGASNREDMIDPAILRPGRLD 357
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 845-1005 2.24e-42

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 152.56  E-value: 2.24e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQ 924
Cdd:cd19518     1 DIGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEE 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  925 AVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLT----GVFVFAATSRPDLLDPALLRP 1000
Cdd:cd19518    81 KIRELFDQAISNAPCIVFIDEIDAITPKRESAQREMERRIVSQLLTCMDELNNEKtaggPVLVIGATNRPDSLDPALRRA 160


                  ....*
gi 332003924 1001 GRLDR 1005
Cdd:cd19518   161 GRFDR 165
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 843-1065 2.00e-41

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 158.40  E-value: 2.00e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:PTZ00361  182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDG 261

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVT---DRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLR 999
Cdd:PTZ00361  262 PKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEkeiQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIR 341

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924 1000 PGRLDRLLlcDFPSPPERLE--ILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHE 1065
Cdd:PTZ00361  342 PGRIDRKI--EFPNPDEKTKrrIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRE 407
cell_div_CdvC NF041006
cell division protein CdvC;
837-1107 2.35e-41

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 156.43  E-value: 2.35e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  837 EGGRLGWEDVGGVTDIKNAIKEMIELPSKFPKIFaksPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLN 916
Cdd:NF041006   96 EKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF---PLGWPRGILLYGPPGCGKTMLAAAVANEIDSEFIHVDAASIMS 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  917 KYIGASEQAVRDIFSKAAAAA-----PCILFFDEFDSIAPKRGHDNTGVTdRVVNQFLTELDGV----EVLTgVFVFAAT 987
Cdd:NF041006  173 KWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLGVYSSEVGGEV-RVRNQFLKEMDGLqdksENYH-VYVIGAT 250

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  988 SRPDLLDPALLRpgRLDRLLLCDFPSPPERLEILTVLSRKLLMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHE-Y 1066
Cdd:NF041006  251 NKPWRLDEPFLR--RFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAEMTEGYTASDIRDIVQAAHMRVVKEmF 328

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|.
gi 332003924 1067 LNREDKPEtgttPIITDPLLKSIASKtKPSVSEtEKQKLYD 1107
Cdd:NF041006  329 EKGLGEPR----PITMEDFKEVLKIR-KPSVNQ-EMLKAYE 363
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 846-999 7.49e-40

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 145.19  E-value: 7.49e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  846 VGGVTDIKNAIKEMIELPSKFPKIFAKSPlRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQA 925
Cdd:cd19509     1 IAGLDDAKEALKEAVILPSLRPDLFPGLR-GPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKI 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  926 VRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVE--VLTGVFVFAATSRPDLLDPALLR 999
Cdd:cd19509    80 VRALFALARELQPSIIFIDEIDSLLSERGSGEHEASRRVKTEFLVQMDGVLnkPEDRVLVLGATNRPWELDEAFLR 155
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 845-1005 1.65e-37

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 138.80  E-value: 1.65e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACS-----LRFISVKGPELLNKYI 919
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSkggqkVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  920 GASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLR 999
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRR 160


                  ....*.
gi 332003924 1000 PGRLDR 1005
Cdd:cd19517   161 PGRFDR 166
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 881-1004 1.82e-34

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 130.30  E-value: 1.82e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  881 VLLYGPPGCGKTHI---VGAAAAACSLRFisVKGPELLNKYIGASEQAVRDIFSKA--------AAAAPCILFFDEFDSI 949
Cdd:cd19504    38 ILLYGPPGTGKTLMarqIGKMLNAREPKI--VNGPEILNKYVGESEANIRKLFADAeeeqrrlgANSGLHIIIFDEIDAI 115

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  950 APKRGH--DNTGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLD 1004
Cdd:cd19504   116 CKQRGSmaGSTGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLE 172
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 845-1003 2.29e-31

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 120.99  E-value: 2.29e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSPL-RLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASE 923
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLlQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  924 QAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGveVLTG----VFVFAATSRPDLLDPALLR 999
Cdd:cd19520    81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAMMKAEFMSLWDG--LSTDgncrVIVMGATNRPQDLDEAILR 158


                  ....*.
gi 332003924 1000 --PGRL 1003
Cdd:cd19520   159 rmPKRF 164
PEX-1N pfam09262
Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi ...
 109-182 5.97e-31

Peroxisome biogenesis factor 1, N-terminal; Members of this family adopt a double psi beta-barrel fold, similar in structure to the Cdc48 N-terminal domain. It has been suggested that this domain may be involved in interactions with ubiquitin, ubiquitin-like protein modifiers, or ubiquitin-like domains, such as Ubx. Furthermore, the domain may possess a putative adaptor or substrate binding site, allowing for peroxisomal biogenesis, membrane fusion and protein translocation.


Pssm-ID: 462729  Cd Length: 77  Bit Score: 116.45  E-value: 5.97e-31
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 332003924   109 VTVEPETEDDWEVLELNAELAEAAILSQVRILHETMKFPLWLHDRTVIRFSVVSTFPSK-GVVQLVPGTEVAVAP 182
Cdd:pfam09262    3 VEVEPLTSDDWEILELHAEFLEDNLLSQVRVVSPGQILPVWVSGTTVARFRVTSIEPANsPFARLSPDTEVIVAP 77
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 836-999 8.88e-31

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 120.09  E-value: 8.88e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  836 SEGGRLGWEDVGGVTDIKNAIKEMIELPSKFPKIFA--KSPLRlrsNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPE 913
Cdd:cd19525    14 DHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTglRGPPK---GILLFGPPGTGKTLIGKCIASQSGATFFSISASS 90

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  914 LLNKYIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTG--VFVFAATSRPD 991
Cdd:cd19525    91 LTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSRRIKTEFLVQLDGATTSSEdrILVVGATNRPQ 170


                  ....*...
gi 332003924  992 LLDPALLR 999
Cdd:cd19525   171 EIDEAARR 178
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 843-1005 1.86e-30

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 118.43  E-value: 1.86e-30
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  843 WEDVGGVTDIKNAIKEMIELPSKFPKIFA--KSPLRlrsNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIG 920
Cdd:cd19521     6 WEDVAGLEGAKEALKEAVILPVKFPHLFTgnRKPWS---GILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMG 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  921 ASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLT-GVFVFAATSRPDLLDPALLR 999
Cdd:cd19521    83 ESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGNDSqGVLVLGATNIPWQLDSAIRR 162


                  ....*.
gi 332003924 1000 pgRLDR 1005
Cdd:cd19521   163 --RFEK 166
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 845-999 2.14e-27

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 109.55  E-value: 2.14e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFA--KSPLRlrsNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGAS 922
Cdd:cd19524     1 DIAGQDLAKQALQEMVILPSLRPELFTglRAPAR---GLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEG 77

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  923 EQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTDRVVNQFLTELDGVEVLTG--VFVFAATSRPDLLDPALLR 999
Cdd:cd19524    78 EKLVRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASRRLKTEFLIEFDGVQSNGDdrVLVMGATNRPQELDDAVLR 156
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 845-1005 1.04e-25

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 104.68  E-value: 1.04e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFaKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQ 924
Cdd:cd19522     1 DIADLEEAKKLLEEAVVLPMWMPEFF-KGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEK 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  925 AVRDIFSKAAAAAPCILFFDEFDSIAPKRG-HDNTGVTDRVVNQFLTELDGV-------EVLTGVFVFAATSRPDLLDPA 996
Cdd:cd19522    80 LVRLLFEMARFYAPTTIFIDEIDSICSRRGtSEEHEASRRVKSELLVQMDGVggasendDPSKMVMVLAATNFPWDIDEA 159


                  ....*....
gi 332003924  997 LLRpgRLDR 1005
Cdd:cd19522   160 LRR--RLEK 166
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 847-1007 9.42e-24

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 98.37  E-value: 9.42e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  847 GGVTDIKNAIKEMIELPSKfpkifaksplrlrSNVLLYGPPGCGKTHI---VGAAAAACSLRFISVKGPELLNKYIGASE 923
Cdd:cd00009     1 VGQEEAIEALREALELPPP-------------KNLLLYGPPGTGKTTLaraIANELFRPGAPFLYLNASDLLEGLVVAEL 67

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  924 Q---AVRDIFSKAAAAAPCILFFDEFDSIAPkrghdntGVTDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRP 1000
Cdd:cd00009    68 FghfLVRLLFELAEKAKPGVLFIDEIDSLSR-------GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALY 140


                  ....*..
gi 332003924 1001 GRLDRLL 1007
Cdd:cd00009   141 DRLDIRI 147
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 845-1005 1.36e-18

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 83.96  E-value: 1.36e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVtdikNAIKEMIELPSK-FPKIFAKSPLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASE 923
Cdd:cd19507     1 DVGGL----DNLKDWLKKRKAaFSKQASAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  924 QAVRDIFSKAAAAAPCILFFDEFDS-IAPKRGHDNTGVTDRVVNQFLTELDgvEVLTGVFVFAATSRPDLLDPALLRPGR 1002
Cdd:cd19507    77 SRLRQMIQTAEAIAPCVLWIDEIEKgFSNADSKGDSGTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQSLPPELLRKGR 154


                  ...
gi 332003924 1003 LDR 1005
Cdd:cd19507   155 FDE 157
ycf46 CHL00195
Ycf46; Provisional
 844-1070 1.44e-16

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 83.92  E-value: 1.44e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  844 EDVGGVTDIKNAIKemielpsKFPKIFAKSP----LRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYI 919
Cdd:CHL00195  228 SDIGGLDNLKDWLK-------KRSTSFSKQAsnygLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGGIV 300

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  920 GASEQAVRDIFSKAAAAAPCILFFDEFD-SIAPKRGHDNTGVTDRVVNQFLTELDgvEVLTGVFVFAATSRPDLLDPALL 998
Cdd:CHL00195  301 GESESRMRQMIRIAEALSPCILWIDEIDkAFSNSESKGDSGTTNRVLATFITWLS--EKKSPVFVVATANNIDLLPLEIL 378

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 332003924  999 RPGRLDRLLLCDFPSPPERLEILTVLSRKL--LMADDIDLEPIALMTEGFSGADLQALLSDAQLAAVHEylNRE 1070
Cdd:CHL00195  379 RKGRFDEIFFLDLPSLEEREKIFKIHLQKFrpKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIAFYE--KRE 450
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 845-999 4.56e-15

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 74.15  E-value: 4.56e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  845 DVGGVTDIKNAIKEMIELPSKFPKIFAKSpLRLRSNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPELLNKYIGASEQ 924
Cdd:cd19523     1 DIAGLGALKAAIKEEVLWPLLRPDAFSGL-LRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEK 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  925 AVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNTGVTdRVVNQFLTELDGV--EVLTGVFVFAATSRPDLLDPALLR 999
Cdd:cd19523    80 ILQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG-RLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEIDESLRR 155
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 878-1007 5.96e-14

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 70.48  E-value: 5.96e-14
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924    878 RSNVLLYGPPGCGKTHIVGAAAAAC---SLRFISVKGPELL--------------NKYIGASEQAVRDIFSKAAAAAPCI 940
Cdd:smart00382    2 GEVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILeevldqllliivggKKASGSGELRLRLALALARKLKPDV 81

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924    941 LFFDEFDSIAPKRGHDntgvtDRVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPgRLDRLL 1007
Cdd:smart00382   82 LILDEITSLLDAEQEA-----LLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRI 142
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 585-796 1.28e-11

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 68.01  E-value: 1.28e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAAKYFEeqkdllAHVILVSCSTLALEKV----QHIHHVLSSviAEGLEH--- 657
Cdd:COG0464   183 REEYGLPPPRGLLLYGPPGTGKTLLARALAGELG------LPLIEVDLSDLVSKYVgeteKNLREVFDK--ARGLAPcvl 254

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  658 --------APSviilddldsiissssdTEGTQASVGVTMLTKFLTdVIDDYGEyrnsscgigPLAFVASVQSLEQIPQTL 729
Cdd:COG0464   255 fideadalAGK----------------RGEVGDGVGRRVVNTLLT-EMEELRS---------DVVVIAATNRPDLLDPAL 308

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  730 SSsgRFDFHVQLAAPATSERGAILKHEIQKRLLDCSEDiLLNLAAKCEGYDAYDLEILVDRAVHAAI 796
Cdd:COG0464   309 LR--RFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVD-LEELAEATEGLSGADIRNVVRRAALQAL 372
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 882-1005 1.36e-09

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 57.75  E-value: 1.36e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  882 LLYGPPGCGKTHIVGAAAA-----ACSLRFISVK-GPELLNKYIGASEQA----VRDIfskaaaaaPCILFFDEFDSIAP 951
Cdd:cd19510    27 LLYGPPGTGKSSFIAALAGeldydICDLNLSEVVlTDDRLNHLLNTAPKQsiilLEDI--------DAAFESREHNKKNP 98

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....
gi 332003924  952 KRGHDNTGVTdrvVNQFLTELDGVEVLTGVFVFAATSRPDLLDPALLRPGRLDR 1005
Cdd:cd19510    99 SAYGGLSRVT---FSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDM 149
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 1033-1068 8.11e-09

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 52.16  E-value: 8.11e-09
                           10        20        30
                   ....*....|....*....|....*....|....*.
gi 332003924  1033 DIDLEPIALMTEGFSGADLQALLSDAQLAAVHEYLN 1068
Cdd:pfam17862    1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLE 36
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 585-799 5.86e-08

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 55.78  E-value: 5.86e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAAKYFEeqkdllAHVILVSCSTLalekvqhihhvLSSVIAEG---------- 654
Cdd:COG1222   104 FRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELG------APFIRVRGSEL-----------VSKYIGEGarnvrevfel 166

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  655 -LEHAPSVIilddldsiissssdtegtqasvgvtmltkFLtDVIDDYGEYRNSSCGIGP--------LAFVASVQSLEQI 725
Cdd:COG1222   167 aREKAPSII-----------------------------FI-DEIDAIAARRTDDGTSGEvqrtvnqlLAELDGFESRGDV 216

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  726 --------PQTLSS----SGRFDFHVQLAAPATSERGAILKHEIQKRLLDcsEDILLN-LAAKCEGYDAYDLEILVDRAV 792
Cdd:COG1222   217 liiaatnrPDLLDPallrPGRFDRVIEVPLPDEEAREEILKIHLRDMPLA--DDVDLDkLAKLTEGFSGADLKAIVTEAG 294


                  ....*..
gi 332003924  793 HAAIGRH 799
Cdd:COG1222   295 MFAIREG 301
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 589-635 1.79e-07

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 51.76  E-value: 1.79e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 332003924  589 KIPSPGHILIYGPPGSGKTILARAAAKYFEEQKdllAHVILVSCSTL 635
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTLARAIANELFRPG---APFLYLNASDL 58
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
587-796 2.83e-07

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 52.96  E-value: 2.83e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  587 KFKIPSPGHILIYGPPGSGKTILARAAAkyfeeqKDLLAHVILVSCSTLALEKV----QHIHHVLS------SVI----- 651
Cdd:COG1223    29 KFGLWPPRKILFYGPPGTGKTMLAEALA------GELKLPLLTVRLDSLIGSYLgetaRNLRKLFDfarrapCVIffdef 102

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  652 -AEGLEhapsviilddldsiissssdtEGTQASVG-----VTMLTKFLTdviddygEYRNSSCgigplaFVASVQSLEQI 725
Cdd:COG1223   103 dAIAKD---------------------RGDQNDVGevkrvVNALLQELD-------GLPSGSV------VIAATNHPELL 148

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 332003924  726 PQTLSSsgRFDFHVQLAAPATSERGAILKHEIQKRLLDCSEDiLLNLAAKCEGYDAYDLEILVDRAVHAAI 796
Cdd:COG1223   149 DSALWR--RFDEVIEFPLPDKEERKEILELNLKKFPLPFELD-LKKLAKKLEGLSGADIEKVLKTALKKAI 216
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 881-997 8.24e-07

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 50.91  E-value: 8.24e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  881 VLLYGPPGCGKTHIVGAAAAACSLR---------FISVKGPELLNKYIGASEQAVRDIFSKAA--AAAPCILFF---DEF 946
Cdd:cd19508    55 VLLHGPPGTGKTSLCKALAQKLSIRlssryrygqLIEINSHSLFSKWFSESGKLVTKMFQKIQelIDDKDALVFvliDEV 134

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 332003924  947 DSIAPKRGHDNTGV--TD--RVVNQFLTELDGVEVLTGVFVFAATSRPDLLDPAL 997
Cdd:cd19508   135 ESLAAARSASSSGTepSDaiRVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAF 189
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 585-661 8.75e-07

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 49.98  E-value: 8.75e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAAkyfeeqKDLLAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHAPSV 661
Cdd:cd19503    26 FRALGLKPPRGVLLHGPPGTGKTLLARAVA------NEAGANFLSISGPSIVSKYLGESEKNLREIFEEARSHAPSI 96
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 566-661 5.41e-06

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 47.66  E-value: 5.41e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  566 VSDVIKRMTVLlsPAAGMWFSKFKIPSPGHILIYGPPGSGKTILARAAAkyfeeqKDLLAHVILVSCSTLALEKVQHIHH 645
Cdd:cd19481     1 LKASLREAVEA--PRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALA------GELGLPLIVVKLSSLLSKYVGESEK 72

                          90
                  ....*....|....*.
gi 332003924  646 VLSSVIAEGLEHAPSV 661
Cdd:cd19481    73 NLRKIFERARRLAPCI 88
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 592-658 5.80e-06

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 47.37  E-value: 5.80e-06
                            10        20        30        40        50        60
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 332003924    592 SPGHILIYGPPGSGKTILARAAAKYFEEQKdllAHVILVSCSTLALEKVQHIHHVLSSVIAEGLEHA 658
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPG---GGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGE 64
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 596-661 1.81e-05

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 45.28  E-value: 1.81e-05
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   596 ILIYGPPGSGKTILARAAAKYFEeqkdllAHVILVSCSTL----ALEKVQHIHHVLSsvIAEglEHAPSV 661
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELG------APFIEISGSELvskyVGESEKRLRELFE--AAK--KLAPCV 60
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 585-615 2.29e-05

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 45.74  E-value: 2.29e-05
                          10        20        30
                  ....*....|....*....|....*....|.
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAAK 615
Cdd:cd19511    19 FKRLGIRPPKGVLLYGPPGCGKTLLAKALAS 49
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 875-917 2.66e-05

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 46.70  E-value: 2.66e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*...
gi 332003924  875 LRLRSNVLLYGPPGCGKTHIVGA-AAAAC----SLRFISVkgPELLNK 917
Cdd:NF038214   87 IERAENVLLLGPPGTGKTHLAIAlGYAACrqgyRVRFTTA--ADLVEQ 132
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
880-917 4.75e-05

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 46.31  E-value: 4.75e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 332003924  880 NVLLYGPPGCGKTHIVGA-AAAAC----SLRFISVkgPELLNK 917
Cdd:COG1484   101 NLILLGPPGTGKTHLAIAlGHEACragyRVRFTTA--PDLVNE 141
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 568-614 9.14e-05

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 44.42  E-value: 9.14e-05
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 332003924  568 DVIKRMTV--LLSPAAgmwFSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19517    10 NQLKEMVFfpLLYPEV---FAKFKITPPRGVLFHGPPGTGKTLMARALA 55
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 585-614 1.13e-04

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 43.87  E-value: 1.13e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19502    29 FEELGIEPPKGVLLYGPPGTGKTLLAKAVA 58
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 585-614 1.38e-04

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 43.58  E-value: 1.38e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19519    26 FKAIGIKPPRGILLYGPPGTGKTLIARAVA 55
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 585-614 2.40e-04

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 42.87  E-value: 2.40e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19529    19 FKRLGIRPPKGILLYGPPGTGKTLLAKAVA 48
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 873-945 2.88e-04

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 44.66  E-value: 2.88e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  873 SPLRLR------SNVLLYGPPGCGKTHIVGAAAAACSLRFISvkgpelLNkyigaseqAV-------RDIFSKAAAAA-- 937
Cdd:COG2256    38 KPLRRAieagrlSSMILWGPPGTGKTTLARLIANATDAEFVA------LS--------AVtsgvkdiREVIEEARERRay 103

                          90
                  ....*....|
gi 332003924  938 --PCILFFDE 945
Cdd:COG2256   104 grRTILFVDE 113
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
568-632 3.89e-04

Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 44.07  E-value: 3.89e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 332003924  568 DVIKRMTVLLSPAA-GMwfskfkipSPGHILIYGPPGSGKTILARAAAKYFEE---QKDLLAHVILVSC 632
Cdd:COG1474    33 EEIEELASALRPALrGE--------RPSNVLIYGPTGTGKTAVAKYVLEELEEeaeERGVDVRVVYVNC 93
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 585-614 4.35e-04

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 42.09  E-value: 4.35e-04
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19530    22 YKALGIDLPTGVLLYGPPGCGKTLLAKAVA 51
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 585-614 4.89e-04

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 42.11  E-value: 4.89e-04
                          10        20        30
                  ....*....|....*....|....*....|.
gi 332003924  585 FSKFKI-PSPGhILIYGPPGSGKTILARAAA 614
Cdd:cd19528    19 FLKFGMtPSKG-VLFYGPPGCGKTLLAKAIA 48
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 880-999 5.50e-04

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 41.12  E-value: 5.50e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   880 NVLLYGPPGCGKTHIVGAAAAA---CSLRFIsvkgpeLLNKYIGASE-------QAVRDIFS----KAAAAAPCILFFDE 945
Cdd:pfam07728    1 GVLLVGPPGTGKTELAERLAAAlsnRPVFYV------QLTRDTTEEDlfgrrniDPGGASWVdgplVRAAREGEIAVLDE 74

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 332003924   946 FDsiapkRGHDNTGVT------DRVvnqfLTELDGVEV----LTGVFVFAATSRPDL----LDPALLR 999
Cdd:pfam07728   75 IN-----RANPDVLNSllslldERR----LLLPDGGELvkaaPDGFRLIATMNPLDRglneLSPALRS 133
FtsK_SpoIIIE pfam01580
FtsK/SpoIIIE family; FtsK has extensive sequence similarity to wide variety of proteins from ...
 590-658 8.04e-04

FtsK/SpoIIIE family; FtsK has extensive sequence similarity to wide variety of proteins from prokaryotes and plasmids, termed the FtsK/SpoIIIE family. This domain contains a putative ATP binding P-loop motif. It is found in the FtsK cell division protein from E. coli and the stage III sporulation protein E SpoIIIE, which has roles in regulation of prespore specific gene expression in B. subtilis. A mutation in FtsK causes a temperature sensitive block in cell division and it is involved in peptidoglycan synthesis or modification. The SpoIIIE protein is implicated in intercellular chromosomal DNA transfer.


Pssm-ID: 279863 [Multi-domain]  Cd Length: 219  Bit Score: 42.36  E-value: 8.04e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 332003924   590 IPSPGHILIYGPPGSGK-----TILARAAAKYFEEQKDLlahvILVSCSTLALEKVQHIHHVLSSVIAEGLEHA 658
Cdd:pfam01580   35 KKMPVHLLIAGATGSGKsvalnTLILSLAYMHTPEEVQL----YCIDPKMGELSAYEDIPHLLSVPVATDPKRA 104
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 874-1027 1.05e-03

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 42.91  E-value: 1.05e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   874 PLRLRSN-VLLYGPPGCGKTHIVGAAAAA-CSL------RFISVKGPELLNKYIGASEQAVRDIFSKAAAAapcILFFDE 945
Cdd:TIGR03922  307 PVAQTSNhMLFAGPPGTGKTTIARVVAKIyCGLgvlrkpLVREVSRADLIGQYIGESEAKTNEIIDSALGG---VLFLDE 383

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924   946 FDSIAPKRGHDNTGVTDRVVNQFLTELdgvEVLTGVFVFAATSRPDLLDPAL-----LRpGRLDRLLlcDFPS--PPERL 1018
Cdd:TIGR03922  384 AYTLVETGYGQKDPFGLEAIDTLLARM---ENDRDRLVVIGAGYRKDLDKFLevnegLR-SRFTRVI--EFPSysPDELV 457


                   ....*....
gi 332003924  1019 EILTVLSRK 1027
Cdd:TIGR03922  458 EIARRMATE 466
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 585-614 1.14e-03

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 42.51  E-value: 1.14e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:PRK03992  157 FEEVGIEPPKGVLLYGPPGTGKTLLAKAVA 186
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 593-615 1.56e-03

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 40.49  E-value: 1.56e-03
                          10        20
                  ....*....|....*....|...
gi 332003924  593 PGHILIYGPPGSGKTILARAAAK 615
Cdd:cd19520    35 PKGVLLYGPPGCGKTMLAKATAK 57
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 592-625 2.62e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 41.13  E-value: 2.62e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*.
gi 332003924   592 SPGHILIYGPPGSGKTILAR------------AAAKYFEEQKDLLA 625
Cdd:TIGR00635   29 ALDHLLLYGPPGLGKTTLAHiianemgvnlkiTSGPALEKPGDLAA 74
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 879-945 2.65e-03

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 41.61  E-value: 2.65e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 332003924  879 SNVLLYGPPGCGKTHIVGAAAAACSLRFISVKGPEllnkyigASEQAVRDIFSKAAAAA----PCILFFDE 945
Cdd:PRK13342   37 SSMILWGPPGTGKTTLARIIAGATDAPFEALSAVT-------SGVKDLREVIEEARQRRsagrRTILFIDE 100
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 778-895 2.66e-03

5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB [Defense mechanisms];


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 41.68  E-value: 2.66e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  778 GYDAYDLEILVDRAVHAAIGRHLPLESNISKYNLVKEDFTRAMHDFVPVAMRDITKSASEGGRLGWEDVGGVTDIKNAIK 857
Cdd:COG1401   117 GLLLELAERSDALEALERARLLLELADLEERAALETEVLEALEAELEELLAAPEDLSADALAAELSAAEELYSEDLESED 196

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|...
gi 332003924  858 EMI-----ELPSKFPKIFAKSpLRLRSNVLLYGPPGCGKTHIV 895
Cdd:COG1401   197 DYLkdllrEKFEETLEAFLAA-LKTKKNVILAGPPGTGKTYLA 238
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 591-621 2.72e-03

AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 433025 [Multi-domain]  Cd Length: 167  Bit Score: 39.79  E-value: 2.72e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 332003924   591 PSPGHILIYGPPGSGKTILARAAAKYFEEQK 621
Cdd:pfam13191   22 GRPPSVLLTGEAGTGKTTLLRELLRALERDG 52
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 593-615 3.84e-03

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 39.26  E-value: 3.84e-03
                          10        20
                  ....*....|....*....|...
gi 332003924  593 PGHILIYGPPGSGKTILARAAAK 615
Cdd:cd19509    32 PRGILLYGPPGTGKTLLARAVAS 54
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 593-618 3.97e-03

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 40.84  E-value: 3.97e-03
                          10        20
                  ....*....|....*....|....*.
gi 332003924  593 PGHILIYGPPGSGKTILARAAAKYFE 618
Cdd:PRK13342   36 LSSMILWGPPGTGKTTLARIIAGATD 61
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 585-614 4.55e-03

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 38.95  E-value: 4.55e-03
                          10        20        30
                  ....*....|....*....|....*....|
gi 332003924  585 FSKFKIPSPGHILIYGPPGSGKTILARAAA 614
Cdd:cd19526    19 FASSPLRLRSGILLYGPPGCGKTLLASAIA 48
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 593-614 4.89e-03

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 39.14  E-value: 4.89e-03
                          10        20
                  ....*....|....*....|..
gi 332003924  593 PGHILIYGPPGSGKTILARAAA 614
Cdd:cd19501    37 PKGVLLVGPPGTGKTLLAKAVA 58
NACHT COG5635
Predicted NTPase, NACHT family domain [Signal transduction mechanisms];
855-1011 5.72e-03

Predicted NTPase, NACHT family domain [Signal transduction mechanisms];


Pssm-ID: 444362 [Multi-domain]  Cd Length: 935  Bit Score: 40.94  E-value: 5.72e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  855 AIKEMIELPSKFPKIFAKSPlrlrsNVLLYGPPGCGKT----HIVGAAAAAC-----------SLRFISVKGP--ELLNK 917
Cdd:COG5635   162 NLLERIESLKRLELLEAKKK-----RLLILGEPGSGKTtllrYLALELAERYldaedpipiliELRDLAEEASleDLLAE 236

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 332003924  918 YIGASEQAVRDIFSKAAAAAPCILFFDEFDSIAPKRGHDNtgVTDRvVNQFLTELDGVEVLtgvfvfaATSRPDLLDPAL 997
Cdd:COG5635   237 ALEKRGGEPEDALERLLRNGRLLLLLDGLDEVPDEADRDE--VLNQ-LRRFLERYPKARVI-------ITSRPEGYDSSE 306

                         170
                  ....*....|....
gi 332003924  998 LRpgRLDRLLLCDF 1011
Cdd:COG5635   307 LE--GFEVLELAPL 318
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
592-610 6.59e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 40.11  E-value: 6.59e-03
                          10
                  ....*....|....*....
gi 332003924  592 SPGHILIYGPPGSGKTILA 610
Cdd:PRK00080   50 ALDHVLLYGPPGLGKTTLA 68
PRK04195 PRK04195
replication factor C large subunit; Provisional
 844-899 8.36e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 39.90  E-value: 8.36e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 332003924  844 EDVGGVTDIKNAIKEMIElpsKFPKIFAKSPlrlrsnVLLYGPPGCGKTHIVGAAA 899
Cdd:PRK04195   14 SDVVGNEKAKEQLREWIE---SWLKGKPKKA------LLLYGPPGVGKTSLAHALA 60
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
589-614 9.80e-03

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 40.02  E-value: 9.80e-03
                          10        20
                  ....*....|....*....|....*.
gi 332003924  589 KIPSpGhILIYGPPGSGKTILARAAA 614
Cdd:COG0465   173 KIPK-G-VLLVGPPGTGKTLLAKAVA 196
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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