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Conserved domains on  [gi|224014608|ref|XP_002296966|]
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predicted protein [Thalassiosira pseudonana CCMP1335]

Protein Classification

ATP-binding protein( domain architecture ID 1000207)

ATP-binding protein with an AAA (ATPases Associated with various cellular Activities) domain may function as an ATPase

CATH:  3.40.50.300
Gene Ontology:  GO:0005524
PubMed:  15037234|18466635|16689629
SCOP:  3002019

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RPT1 super family cl34191
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 486-786 3.40e-61

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


The actual alignment was detected with superfamily member COG1222:

Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 209.48  E-value: 3.40e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 486 ELALLGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVGGSERLVRELFydaeaELAAcngdatK 564
Cdd:COG1222  103 LFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAG--ELGAPFIrVRGSELVSKYIGEGARNVREVF-----ELAR------E 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 565 SALHVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLP 644
Cdd:COG1222  170 KAPSIIFIDEIDAIAARRTDDGTSGEVQR--TVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLP 247

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 645 DREGRREILQIHfeaLRNRgrlshplccaidgvapsyskdstveqsissPLAEDdsnqtrgrkrralkratnnifdyLSP 724
Cdd:COG1222  248 DEEAREEILKIH---LRDM------------------------------PLADD-----------------------VDL 271

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 224014608 725 GKkgvfdLAADevTGGYSGAELAGLVRCAGSIALSRARKDgagveallITLDDIEQALTEVK 786
Cdd:COG1222  272 DK-----LAKL--TEGFSGADLKAIVTEAGMFAIREGRDT--------VTMEDLEKAIEKVK 318
 
Name Accession Description Interval E-value
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 486-786 3.40e-61

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 209.48  E-value: 3.40e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 486 ELALLGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVGGSERLVRELFydaeaELAAcngdatK 564
Cdd:COG1222  103 LFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAG--ELGAPFIrVRGSELVSKYIGEGARNVREVF-----ELAR------E 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 565 SALHVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLP 644
Cdd:COG1222  170 KAPSIIFIDEIDAIAARRTDDGTSGEVQR--TVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLP 247

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 645 DREGRREILQIHfeaLRNRgrlshplccaidgvapsyskdstveqsissPLAEDdsnqtrgrkrralkratnnifdyLSP 724
Cdd:COG1222  248 DEEAREEILKIH---LRDM------------------------------PLADD-----------------------VDL 271

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 224014608 725 GKkgvfdLAADevTGGYSGAELAGLVRCAGSIALSRARKDgagveallITLDDIEQALTEVK 786
Cdd:COG1222  272 DK-----LAKL--TEGFSGADLKAIVTEAGMFAIREGRDT--------VTMEDLEKAIEKVK 318
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 421-641 4.19e-61

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: 203.88  E-value: 4.19e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 421 VGGLGPQIDSIVRRVLDGRVIRPAEVDEsgemlsykeaisqtksqdgfamdgaskqlslaaleaselalLGLNPVKGCLL 500
Cdd:cd19504    2 IGGLDKEFSDIFRRAFASRVFPPEIVEQ-----------------------------------------LGCKHVKGILL 40

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 501 YGPPGCGKTALAREIARALKARAPKIVSAPELLDRWVGGSERLVRELFYDAEAELAACNGDatkSALHVIVIDEIDAVFR 580
Cdd:cd19504   41 YGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGESEANIRKLFADAEEEQRRLGAN---SGLHIIIFDEIDAICK 117

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 224014608 581 KRSSAEDsGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19504  118 QRGSMAG-STGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEI 177
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 483-656 1.37e-43

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 162.31  E-value: 1.37e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELAL--------LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIVsAPELLDRWVGGSERLVRELFydaeaE 554
Cdd:PRK03992 145 EAVELPLkkpelfeeVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGARLVRELF-----E 218

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 555 LAAcngdatKSALHVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:PRK03992 219 LAR------EKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGR 292

                        170       180
                 ....*....|....*....|..
gi 224014608 635 LEVQIEIPLPDREGRREILQIH 656
Cdd:PRK03992 293 FDRIIEVPLPDEEGRLEILKIH 314
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 491-656 4.94e-40

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: 154.87  E-value: 4.94e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  491 GLNPVKGCLLYGPPGCGKTALAREIARALKARAPKI---------VSAPELLDRWVGGSERLVRELFYDAEaELAAcngd 561
Cdd:TIGR03689 212 GLKPPKGVLLYGPPGCGKTLIAKAVANSLAARIGAEgggksyflnIKGPELLNKYVGETERQIRLIFQRAR-EKAS---- 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  562 atkSALHVIV-IDEIDAVFRKRSSAEDSGEATrsSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIE 640
Cdd:TIGR03689 287 ---EGRPVIVfFDEMDSLFRTRGSGVSSDVET--TVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIR 361

                         170
                  ....*....|....*.
gi 224014608  641 IPLPDREGRREILQIH 656
Cdd:TIGR03689 362 IERPDAEAAADIFAKY 377
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 499-643 1.46e-37

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: 136.57  E-value: 1.46e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  499 LLYGPPGCGKTALAREIARALKARaPKIVSAPELLDRWVGGSERLVRELFYDAEaelaacngdatKSALHVIVIDEIDAV 578
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAP-FIEISGSELVSKYVGESEKRLRELFEAAK-----------KLAPCVIFIDEIDAL 69

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 224014608  579 FRKRSSaedSGEATRSSTVNQILAKLDGVES-IPNVLLIGMTNRRELLDEALLrpGRLEVQIEIPL 643
Cdd:pfam00004  70 AGSRGS---GGDSESRRVVNQLLTELDGFTSsNSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
cell_div_CdvC NF041006
cell division protein CdvC;
496-661 1.66e-21

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 97.11  E-value: 1.66e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 496 KGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEaELAACNGDATksalhVIVIDEI 575
Cdd:NF041006 135 RGILLYGPPGCGKTMLAAAVANEIDSEFIH-VDAASIMSKWLGEAEKNVAKIFKKAR-EKSKEEGKPA-----IIFIDEI 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 576 DAVFRKRSSaEDSGEAtrsSTVNQILAKLDGVE---SIPNVLLIGMTNRRELLDEALLRpgRLEVQIEIPLPDREGRREI 652
Cdd:NF041006 208 DALLGVYSS-EVGGEV---RVRNQFLKEMDGLQdksENYHVYVIGATNKPWRLDEPFLR--RFQKRIYIPLPDREQRLEL 281


                 ....*....
gi 224014608 653 LQIHFEALR 661
Cdd:NF041006 282 LKYYTSKIK 290
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 496-645 6.32e-13

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: 67.01  E-value: 6.32e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608   496 KGCLLYGPPGCGKTALAREIARALKARAPKIVS-APELLDRWVGGSERLVRELFYDAEAELAACNGDATKSALH----VI 570
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYiDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKlkpdVL 82

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 224014608   571 VIDEIDAVFRKRSSAEdsgeatrsSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPgRLEVQIEIPLPD 645
Cdd:smart00382  83 ILDEITSLLDAEQEAL--------LLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
 
Name Accession Description Interval E-value
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 486-786 3.40e-61

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 209.48  E-value: 3.40e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 486 ELALLGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVGGSERLVRELFydaeaELAAcngdatK 564
Cdd:COG1222  103 LFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAG--ELGAPFIrVRGSELVSKYIGEGARNVREVF-----ELAR------E 169

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 565 SALHVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLP 644
Cdd:COG1222  170 KAPSIIFIDEIDAIAARRTDDGTSGEVQR--TVNQLLAELDGFESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLP 247

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 645 DREGRREILQIHfeaLRNRgrlshplccaidgvapsyskdstveqsissPLAEDdsnqtrgrkrralkratnnifdyLSP 724
Cdd:COG1222  248 DEEAREEILKIH---LRDM------------------------------PLADD-----------------------VDL 271

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 224014608 725 GKkgvfdLAADevTGGYSGAELAGLVRCAGSIALSRARKDgagveallITLDDIEQALTEVK 786
Cdd:COG1222  272 DK-----LAKL--TEGFSGADLKAIVTEAGMFAIREGRDT--------VTMEDLEKAIEKVK 318
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 421-641 4.19e-61

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: 203.88  E-value: 4.19e-61
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 421 VGGLGPQIDSIVRRVLDGRVIRPAEVDEsgemlsykeaisqtksqdgfamdgaskqlslaaleaselalLGLNPVKGCLL 500
Cdd:cd19504    2 IGGLDKEFSDIFRRAFASRVFPPEIVEQ-----------------------------------------LGCKHVKGILL 40

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 501 YGPPGCGKTALAREIARALKARAPKIVSAPELLDRWVGGSERLVRELFYDAEAELAACNGDatkSALHVIVIDEIDAVFR 580
Cdd:cd19504   41 YGPPGTGKTLMARQIGKMLNAREPKIVNGPEILNKYVGESEANIRKLFADAEEEQRRLGAN---SGLHIIIFDEIDAICK 117

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 224014608 581 KRSSAEDsGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19504  118 QRGSMAG-STGVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLEVQMEI 177
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 483-656 1.37e-43

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 162.31  E-value: 1.37e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELAL--------LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIVsAPELLDRWVGGSERLVRELFydaeaE 554
Cdd:PRK03992 145 EAVELPLkkpelfeeVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVV-GSELVQKFIGEGARLVRELF-----E 218

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 555 LAAcngdatKSALHVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:PRK03992 219 LAR------EKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGR 292

                        170       180
                 ....*....|....*....|..
gi 224014608 635 LEVQIEIPLPDREGRREILQIH 656
Cdd:PRK03992 293 FDRIIEVPLPDEEGRLEILKIH 314
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 475-641 2.01e-42

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: 151.28  E-value: 2.01e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 475 KQLSLAALEASELALLGLNPVKGCLLYGPPGCGKTALAREIARALKArAPKIVSAPELLDRWVGGSERLVRELFYDAEae 554
Cdd:cd19481    6 REAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGL-PLIVVKLSSLLSKYVGESEKNLRKIFERAR-- 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 555 laacngdatKSALHVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:cd19481   83 ---------RLAPCILFIDEIDAIGRKRDSSGESGELRR--VLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGR 151


                 ....*..
gi 224014608 635 LEVQIEI 641
Cdd:cd19481  152 FDEVIEF 158
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 475-636 1.18e-40

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: 146.66  E-value: 1.18e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 475 KQLSLAALEASEL-ALLGLNPVKGCLLYGPPGCGKTALAREIARAlkARAPKI-VSAPELLDRWVGGSERLVRELFYDAE 552
Cdd:cd19511    6 KEAVEWPLKHPDAfKRLGIRPPKGVLLYGPPGCGKTLLAKALASE--AGLNFIsVKGPELFSKYVGESERAVREIFQKAR 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 553 AelaacngdatkSALHVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRP 632
Cdd:cd19511   84 Q-----------AAPCIIFFDEIDSLAPRRGQSDSSGVTDR--VVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRP 150


                 ....
gi 224014608 633 GRLE 636
Cdd:cd19511  151 GRLD 154
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 491-656 4.94e-40

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: 154.87  E-value: 4.94e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  491 GLNPVKGCLLYGPPGCGKTALAREIARALKARAPKI---------VSAPELLDRWVGGSERLVRELFYDAEaELAAcngd 561
Cdd:TIGR03689 212 GLKPPKGVLLYGPPGCGKTLIAKAVANSLAARIGAEgggksyflnIKGPELLNKYVGETERQIRLIFQRAR-EKAS---- 286

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  562 atkSALHVIV-IDEIDAVFRKRSSAEDSGEATrsSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIE 640
Cdd:TIGR03689 287 ---EGRPVIVfFDEMDSLFRTRGSGVSSDVET--TVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIR 361

                         170
                  ....*....|....*.
gi 224014608  641 IPLPDREGRREILQIH 656
Cdd:TIGR03689 362 IERPDAEAAADIFAKY 377
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 475-787 1.35e-39

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: 151.22  E-value: 1.35e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 475 KQLSLAALEASEL-ALLGLNPVKGCLLYGPPGCGKTALAREIARALKarAPKI-VSAPELLDRWVGGSERLVRELFYDAE 552
Cdd:COG0464  170 RELVALPLKRPELrEEYGLPPPRGLLLYGPPGTGKTLLARALAGELG--LPLIeVDLSDLVSKYVGETEKNLREVFDKAR 247

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 553 AeLAACngdatksalhVIVIDEIDAVFRKRSSAEDSGEatrSSTVNQILAKLDGVESipNVLLIGMTNRRELLDEALLRp 632
Cdd:COG0464  248 G-LAPC----------VLFIDEADALAGKRGEVGDGVG---RRVVNTLLTEMEELRS--DVVVIAATNRPDLLDPALLR- 310

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 633 gRLEVQIEIPLPDREGRREILQIHFEALrnrgrlshplccaidgvapsyskdstveqsissPLAEDdsnqtrgrkrralk 712
Cdd:COG0464  311 -RFDEIIFFPLPDAEERLEIFRIHLRKR---------------------------------PLDED-------------- 342

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 224014608 713 ratnnifdylspgkkgvFDLAA-DEVTGGYSGAELAGLVRCAGSIALSRARKDgagveallITLDDIEQALTEVKV 787
Cdd:COG0464  343 -----------------VDLEElAEATEGLSGADIRNVVRRAALQALRLGREP--------VTTEDLLEALEREDI 393
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 499-643 1.46e-37

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: 136.57  E-value: 1.46e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  499 LLYGPPGCGKTALAREIARALKARaPKIVSAPELLDRWVGGSERLVRELFYDAEaelaacngdatKSALHVIVIDEIDAV 578
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAP-FIEISGSELVSKYVGESEKRLRELFEAAK-----------KLAPCVIFIDEIDAL 69

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 224014608  579 FRKRSSaedSGEATRSSTVNQILAKLDGVES-IPNVLLIGMTNRRELLDEALLrpGRLEVQIEIPL 643
Cdd:pfam00004  70 AGSRGS---GGDSESRRVVNQLLTELDGFTSsNSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 483-641 1.08e-36

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: 135.32  E-value: 1.08e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELALL--------GLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVGGSERLVRELFYDAEa 553
Cdd:cd19529    7 EAVEWPLLkpevfkrlGIRPPKGILLYGPPGTGKTLLAKAVAT--ESNANFIsVKGPELLSKWVGESEKAIREIFRKAR- 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 554 ELAACngdatksalhVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPG 633
Cdd:cd19529   84 QVAPC----------VIFFDEIDSIAPRRGTTGDSGVTER--VVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAG 151


                 ....*...
gi 224014608 634 RLEVQIEI 641
Cdd:cd19529  152 RFDRLIYI 159
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 491-641 6.70e-36

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: 133.02  E-value: 6.70e-36
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 491 GLNPVKGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEAElAACngdatksalhVI 570
Cdd:cd19528   23 GMTPSKGVLFYGPPGCGKTLLAKAIANECQANFIS-VKGPELLTMWFGESEANVRDIFDKARAA-APC----------VL 90

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 224014608 571 VIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19528   91 FFDELDSIAKARGGNIGDAGGAADRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 161
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 490-656 7.70e-36

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: 145.05  E-value: 7.70e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  490 LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEaelaacngdatKSALHV 569
Cdd:TIGR01243 482 MGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA-VRGPEILSKWVGESEKAIREIFRKAR-----------QAAPAI 549

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  570 IVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDREGR 649
Cdd:TIGR01243 550 IFFDEIDAIAPARGARFDTSVTDR--IVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR 627


                  ....*..
gi 224014608  650 REILQIH 656
Cdd:TIGR01243 628 KEIFKIH 634
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 490-785 8.48e-36

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: 142.04  E-value: 8.48e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  490 LGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVG-GSERlVRELFYDAEaELAACngdatksal 567
Cdd:TIGR01241  83 LGAKIPKGVLLVGPPGTGKTLLAKAVAG--EAGVPFFsISGSDFVEMFVGvGASR-VRDLFEQAK-KNAPC--------- 149

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  568 hVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDRE 647
Cdd:TIGR01241 150 -IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIK 228

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  648 GRREILQIHfeaLRNRgrlshplccaidgvapsyskdstveqsissPLAEDDSNQTRGRKrralkratnnifdylspgkk 727
Cdd:TIGR01241 229 GREEILKVH---AKNK------------------------------KLAPDVDLKAVARR-------------------- 255

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 224014608  728 gvfdlaadevTGGYSGAELAGLVRCAgsiALSRARKDGAGveallITLDDIEQALTEV 785
Cdd:TIGR01241 256 ----------TPGFSGADLANLLNEA---ALLAARKNKTE-----ITMNDIEEAIDRV 295
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 490-641 1.02e-35

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: 132.80  E-value: 1.02e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 490 LGLNPVKGCLLYGPPGCGKTALAREIARALKARApKIVSAPELLDRWVGGSERLVRELFYDAEaELAACngdatksalhV 569
Cdd:cd19503   29 LGLKPPRGVLLHGPPGTGKTLLARAVANEAGANF-LSISGPSIVSKYLGESEKNLREIFEEAR-SHAPS----------I 96

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 224014608 570 IVIDEIDAVFRKRssAEDSGEATRSsTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19503   97 IFIDEIDALAPKR--EEDQREVERR-VVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRRPGRFDREVEI 165
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 483-641 1.86e-35

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: 132.08  E-value: 1.86e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELAL--------LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEaE 554
Cdd:cd19502   17 EVVELPLkhpelfeeLGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIR-VVGSELVQKYIGEGARLVRELFEMAR-E 94

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 555 LAACngdatksalhVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:cd19502   95 KAPS----------IIFIDEIDAIGAKRFDSGTGGDREVQRTMLELLNQLDGFDPRGNIKVIMATNRPDILDPALLRPGR 164


                 ....*..
gi 224014608 635 LEVQIEI 641
Cdd:cd19502  165 FDRKIEF 171
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 490-786 3.52e-35

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: 143.12  E-value: 3.52e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  490 LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFYDAEaelaacngdatKSALHV 569
Cdd:TIGR01243 207 LGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISI-NGPEIMSKYYGESEERLREIFKEAE-----------ENAPSI 274

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  570 IVIDEIDAVFRKRSsaEDSGEATRSsTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDREGR 649
Cdd:TIGR01243 275 IFIDEIDAIAPKRE--EVTGEVEKR-VVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRAR 351

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  650 REILQIHfeaLRNRgrlshplccaidgvapsyskdstveqsissPLAEDdsnqtrgrkrralkratnNIFDYLSpgkkgv 729
Cdd:TIGR01243 352 KEILKVH---TRNM------------------------------PLAED------------------VDLDKLA------ 374

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 224014608  730 fdlaadEVTGGYSGAELAGLVRCAGSIALSRARKDGA-----------GVEALLITLDDIEQALTEVK 786
Cdd:TIGR01243 375 ------EVTHGFVGADLAALAKEAAMAALRRFIREGKinfeaeeipaeVLKELKVTMKDFMEALKMVE 436
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
468-654 5.65e-35

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 133.47  E-value: 5.65e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 468 FAMDGASKQLSLAALE---ASELALLGLNPVKGCLLYGPPGCGKTALAREIARALKARApKIVSAPELLDRWVGGSERLV 544
Cdd:COG1223    5 VGQEEAKKKLKLIIKElrrRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPL-LTVRLDSLIGSYLGETARNL 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 545 RELFydAEAELAACngdatksalhVIVIDEIDAVFRKRSSAEDSGEATRssTVNQILAKLDGVESipNVLLIGMTNRREL 624
Cdd:COG1223   84 RKLF--DFARRAPC----------VIFFDEFDAIAKDRGDQNDVGEVKR--VVNALLQELDGLPS--GSVVIAATNHPEL 147

                        170       180       190
                 ....*....|....*....|....*....|
gi 224014608 625 LDEALLRpgRLEVQIEIPLPDREGRREILQ 654
Cdd:COG1223  148 LDSALWR--RFDEVIEFPLPDKEERKEILE 175
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 490-641 7.28e-35

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: 130.43  E-value: 7.28e-35
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 490 LGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVG-GSERlVRELFYDAEaELAACngdatksal 567
Cdd:cd19501   32 LGAKIPKGVLLVGPPGTGKTLLAKAVAG--EAGVPFFsISGSDFVEMFVGvGASR-VRDLFEQAK-KNAPC--------- 98

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 224014608 568 hVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19501   99 -IVFIDEIDAVGRKRGAGLGGGHDEREQTLNQLLVEMDGFESNTGVIVIAATNRPDVLDPALLRPGRFDRQVYV 171
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 483-656 1.66e-33

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 134.13  E-value: 1.66e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELAL--------LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIVSApELLDRWVGGSERLVRELFYDAEae 554
Cdd:PTZ00361 197 EAVELPLthpelyddIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGS-ELIQKYLGDGPKLVRELFRVAE-- 273

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 555 laacngdatKSALHVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:PTZ00361 274 ---------ENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGR 344

                        170       180
                 ....*....|....*....|..
gi 224014608 635 LEVQIEIPLPDREGRREILQIH 656
Cdd:PTZ00361 345 IDRKIEFPNPDEKTKRRIFEIH 366
ftsH CHL00176
cell division protein; Validated
 489-663 4.26e-33

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 135.95  E-value: 4.26e-33
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 489 LLGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVG-GSERlVRELFYDAEaELAACngdatksa 566
Cdd:CHL00176 210 AVGAKIPKGVLLVGPPGTGKTLLAKAIAG--EAEVPFFsISGSEFVEMFVGvGAAR-VRDLFKKAK-ENSPC-------- 277

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 567 lhVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDR 646
Cdd:CHL00176 278 --IVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDR 355

                        170
                 ....*....|....*..
gi 224014608 647 EGRREILQIHfeaLRNR 663
Cdd:CHL00176 356 EGRLDILKVH---ARNK 369
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 441-655 4.17e-32

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 129.11  E-value: 4.17e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 441 IRPAEVDESGEMLSYKEAISQTKSQDGfAMDGASKQLSlaalEASELAL--------LGLNPVKGCLLYGPPGCGKTALA 512
Cdd:PTZ00454 122 ILPPEADSSIQLLQMSEKPDVTYSDIG-GLDIQKQEIR----EAVELPLtcpelyeqIGIDPPRGVLLYGPPGTGKTMLA 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 513 REIARALKARAPKIVSApELLDRWVGGSERLVRELFydaeaELAACNGDAtksalhVIVIDEIDAVFRKRSSAEDSGEAT 592
Cdd:PTZ00454 197 KAVAHHTTATFIRVVGS-EFVQKYLGEGPRMVRDVF-----RLARENAPS------IIFIDEVDSIATKRFDAQTGADRE 264

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 224014608 593 RSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDREGRREILQI 655
Cdd:PTZ00454 265 VQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQT 327
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 470-636 1.03e-30

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: 118.36  E-value: 1.03e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 470 MDGASKQLSLAALE----ASELALLGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVR 545
Cdd:cd19530    1 LDHVREELTMSILRpikrPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFIS-VKGPELLNKYVGESERAVR 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 546 ELFYDAEAelaacngdatkSALHVIVIDEIDAVFRKRSsaeDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELL 625
Cdd:cd19530   80 QVFQRARA-----------SAPCVIFFDEVDALVPKRG---DGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDII 145

                        170
                 ....*....|.
gi 224014608 626 DEALLRPGRLE 636
Cdd:cd19530  146 DPAMLRPGRLD 156
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
496-656 1.93e-30

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 127.08  E-value: 1.93e-30
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 496 KGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVG-GSERlVRELFydAEA-ELAACngdatksalhVIVI 572
Cdd:COG0465  176 KGVLLVGPPGTGKTLLAKAVAG--EAGVPFFsISGSDFVEMFVGvGASR-VRDLF--EQAkKNAPC----------IIFI 240

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 573 DEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPLPDREGRREI 652
Cdd:COG0465  241 DEIDAVGRQRGAGLGGGHDEREQTLNQLLVEMDGFEGNEGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDVKGREAI 320


                 ....
gi 224014608 653 LQIH 656
Cdd:COG0465  321 LKVH 324
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
483-656 1.59e-29

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 124.76  E-value: 1.59e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 483 EASELALLGLNPVKGCLLYGPPGCGKTALAREIARalKARAPKI-VSAPELLDRWVGGSERLVRELFYDAEaelaacngd 561
Cdd:PRK10733 173 EPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG--EAKVPFFtISGSDFVEMFVGVGASRVRDMFEQAK--------- 241

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 562 atKSALHVIVIDEIDAVFRKRSSAEDSGEATRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:PRK10733 242 --KAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVV 319

                        170
                 ....*....|....*
gi 224014608 642 PLPDREGRREILQIH 656
Cdd:PRK10733 320 GLPDVRGREQILKVH 334
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 490-642 5.38e-28

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: 110.60  E-value: 5.38e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 490 LGLNPVKGCLLYGPPGCGKTALAREIARALKARApKIVSAPELLDRWVGGSERLVRELFYDAEaelaacngdatKSALHV 569
Cdd:cd19519   29 IGIKPPRGILLYGPPGTGKTLIARAVANETGAFF-FLINGPEIMSKLAGESESNLRKAFEEAE-----------KNAPAI 96

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 224014608 570 IVIDEIDAVFRKRSsaEDSGEATRSsTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIP 642
Cdd:cd19519   97 IFIDEIDAIAPKRE--KTHGEVERR-IVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREIDIG 166
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 470-641 6.36e-28

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: 110.52  E-value: 6.36e-28
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 470 MDGASKQLSLAAL---EASELALLGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRE 546
Cdd:cd19509    4 LDDAKEALKEAVIlpsLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSI-SASSLVSKWVGESEKIVRA 82

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 547 LFydaeaELAACNGDAtksalhVIVIDEIDAVFRKRSSAEDSGEATRSstvNQILAKLDGVESIPN--VLLIGMTNRREL 624
Cdd:cd19509   83 LF-----ALARELQPS------IIFIDEIDSLLSERGSGEHEASRRVK---TEFLVQMDGVLNKPEdrVLVLGATNRPWE 148

                        170
                 ....*....|....*..
gi 224014608 625 LDEALLRpgRLEVQIEI 641
Cdd:cd19509  149 LDEAFLR--RFEKRIYI 163
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 496-636 1.16e-27

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: 109.44  E-value: 1.16e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 496 KGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEAElAACngdatksalhVIVIDEI 575
Cdd:cd19526   28 SGILLYGPPGCGKTLLASAIASECGLNFIS-VKGPELLNKYIGASEQNVRDLFSRAQSA-KPC----------ILFFDEF 95

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 224014608 576 DAVFRKRssAEDSGEATrSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLE 636
Cdd:cd19526   96 DSIAPKR--GHDSTGVT-DRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLD 153
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 490-639 5.46e-26

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: 105.18  E-value: 5.46e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 490 LGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFYDAEAeLAACngdatksalhV 569
Cdd:cd19518   29 LGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKI-SATEIVSGVSGESEEKIRELFDQAIS-NAPC----------I 96

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 224014608 570 IVIDEIDAVFRKRSSAEDSGEatrSSTVNQILAKLDGVESIPN----VLLIGMTNRRELLDEALLRPGRLEVQI 639
Cdd:cd19518   97 VFIDEIDAITPKRESAQREME---RRIVSQLLTCMDELNNEKTaggpVLVIGATNRPDSLDPALRRAGRFDREI 167
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 482-636 2.10e-25

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: 102.98  E-value: 2.10e-25
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 482 LEASELALLGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEAElAACngd 561
Cdd:cd19527   13 LEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLS-VKGPELINMYIGESEANVREVFQKARDA-KPC--- 87

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 224014608 562 atksalhVIVIDEIDAVFRKRSSAEDSGeATRSSTVNQILAKLDGVESIP-NVLLIGMTNRRELLDEALLRPGRLE 636
Cdd:cd19527   88 -------VIFFDELDSLAPSRGNSGDSG-GVMDRVVSQLLAELDGMSSSGqDVFVIGATNRPDLLDPALLRPGRFD 155
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 492-636 8.63e-24

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: 98.74  E-value: 8.63e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 492 LNPVKGCLLYGPPGCGKTALAREIARALKARAPKIV----SAPELLDRWVGGSERLVRELFYDAEAELAAcngdatksal 567
Cdd:cd19517   31 ITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSffmrKGADCLSKWVGEAERQLRLLFEEAYRMQPS---------- 100

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 224014608 568 hVIVIDEIDAVFRKRSSAEDSgeaTRSSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLE 636
Cdd:cd19517  101 -IIFFDEIDGLAPVRSSKQEQ---IHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRRPGRFD 165
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 492-637 7.80e-23

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: 95.95  E-value: 7.80e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 492 LNPVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFydaeaelaacnGDATKSALHVIV 571
Cdd:cd19520   32 LQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINL-QVSSLTDKWYGESQKLVAAVF-----------SLASKLQPSIIF 99

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 572 IDEIDAVFRKRSSAEDsgEATRSSTvNQILAKLDGVESIPN--VLLIGMTNRRELLDEALLR--PGRLEV 637
Cdd:cd19520  100 IDEIDSFLRQRSSTDH--EATAMMK-AEFMSLWDGLSTDGNcrVIVMGATNRPQDLDEAILRrmPKRFHI 166
cell_div_CdvC NF041006
cell division protein CdvC;
496-661 1.66e-21

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 97.11  E-value: 1.66e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 496 KGCLLYGPPGCGKTALAREIARALKARAPKiVSAPELLDRWVGGSERLVRELFYDAEaELAACNGDATksalhVIVIDEI 575
Cdd:NF041006 135 RGILLYGPPGCGKTMLAAAVANEIDSEFIH-VDAASIMSKWLGEAEKNVAKIFKKAR-EKSKEEGKPA-----IIFIDEI 207

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 576 DAVFRKRSSaEDSGEAtrsSTVNQILAKLDGVE---SIPNVLLIGMTNRRELLDEALLRpgRLEVQIEIPLPDREGRREI 652
Cdd:NF041006 208 DALLGVYSS-EVGGEV---RVRNQFLKEMDGLQdksENYHVYVIGATNKPWRLDEPFLR--RFQKRIYIPLPDREQRLEL 281


                 ....*....
gi 224014608 653 LQIHFEALR 661
Cdd:NF041006 282 LKYYTSKIK 290
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 494-631 5.12e-21

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: 91.20  E-value: 5.12e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 494 PVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFYDAEAELAAcngdatksalhVIVID 573
Cdd:cd19525   54 PPKGILLFGPPGTGKTLIGKCIASQSGATFFSI-SASSLTSKWVGEGEKMVRALFSVARCKQPA-----------VIFID 121

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 574 EIDAVFRKRSSAEDsgEATRsSTVNQILAKLDGVESIPN--VLLIGMTNRRELLDEALLR 631
Cdd:cd19525  122 EIDSLLSQRGEGEH--ESSR-RIKTEFLVQLDGATTSSEdrILVVGATNRPQEIDEAARR 178
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 487-643 2.05e-20

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: 88.36  E-value: 2.05e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 487 LALLGLNPVKGCLLYGPPGCGKTALAREIARALKARAPKI--VSAPELLDRWVGGSERLVRELFydAEAELAAcngdatK 564
Cdd:cd00009   11 REALELPPPKNLLLYGPPGTGKTTLARAIANELFRPGAPFlyLNASDLLEGLVVAELFGHFLVR--LLFELAE------K 82

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 224014608 565 SALHVIVIDEIDAVFRKRSSAEdsgeatrsstVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPL 643
Cdd:cd00009   83 AKPGVLFIDEIDSLSRGAQNAL----------LRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 494-631 7.47e-20

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: 87.21  E-value: 7.47e-20
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 494 PVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFydaeaelaacnGDATKSALHVIVID 573
Cdd:cd19524   32 PARGLLLFGPPGNGKTMLAKAVAAESNATFFNI-SAASLTSKYVGEGEKLVRALF-----------AVARELQPSIIFID 99

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 574 EIDAVFRKRSSAEDsgEATRSSTvNQILAKLDGVESIPN--VLLIGMTNRRELLDEALLR 631
Cdd:cd19524  100 EVDSLLSERSEGEH--EASRRLK-TEFLIEFDGVQSNGDdrVLVMGATNRPQELDDAVLR 156
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 494-641 1.03e-16

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: 78.49  E-value: 1.03e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 494 PVKGCLLYGPPGCGKTALAREIARALKARAPKIVSApELLDRWVGGSERLVRELFydaeaELAACNGDATksalhvIVID 573
Cdd:cd19522   32 PWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSS-TLTSKYRGESEKLVRLLF-----EMARFYAPTT------IFID 99

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 224014608 574 EIDAVFRKRSSAEDSgEATRsSTVNQILAKLDGV-------ESIPNVLLIGMTNRRELLDEALLRpgRLEVQIEI 641
Cdd:cd19522  100 EIDSICSRRGTSEEH-EASR-RVKSELLVQMDGVggasendDPSKMVMVLAATNFPWDIDEALRR--RLEKRIYI 170
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 494-641 8.05e-16

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: 76.05  E-value: 8.05e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 494 PVKGCLLYGPPGCGKTALAReiARALKARAPKI-VSAPELLDRWVGGSERLVRELFydaeaELaacngdATKSALHVIVI 572
Cdd:cd19521   39 PWSGILLYGPPGTGKSYLAK--AVATEANSTFFsVSSSDLVSKWMGESEKLVKQLF-----AM------ARENKPSIIFI 105

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 573 DEIDAVFRKRSSAEdSGEATRSSTvnQILAKLDGV-ESIPNVLLIGMTNRRELLDEALLRpgRLEVQIEI 641
Cdd:cd19521  106 DEVDSLCGTRGEGE-SEASRRIKT--ELLVQMNGVgNDSQGVLVLGATNIPWQLDSAIRR--RFEKRIYI 170
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 496-641 1.74e-14

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: 71.61  E-value: 1.74e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 496 KGCLLYGPPGCGKTALAREIARALKARapkiVSAPELLDRwVGGSERLVRELfydaeaelaacngdATKSALHVIVIDEI 575
Cdd:cd19510   24 RGYLLYGPPGTGKSSFIAALAGELDYD----ICDLNLSEV-VLTDDRLNHLL--------------NTAPKQSIILLEDI 84

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 224014608 576 DAVFRKRSSAEDSGEATRSS---TVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEI 641
Cdd:cd19510   85 DAAFESREHNKKNPSAYGGLsrvTFSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 496-645 6.32e-13

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: 67.01  E-value: 6.32e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608   496 KGCLLYGPPGCGKTALAREIARALKARAPKIVS-APELLDRWVGGSERLVRELFYDAEAELAACNGDATKSALH----VI 570
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYiDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALARKlkpdVL 82

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 224014608   571 VIDEIDAVFRKRSSAEdsgeatrsSTVNQILAKLDGVESIPNVLLIGMTNRRELLDEALLRPgRLEVQIEIPLPD 645
Cdd:smart00382  83 ILDEITSLLDAEQEAL--------LLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 499-629 1.04e-11

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: 64.78  E-value: 1.04e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 499 LLYGPPGCGKTALAREIARALKARAPKI--------VSAPELLDRWVGGSERLVRELFYDAEaELAacngdATKSALHVI 570
Cdd:cd19508   56 LLHGPPGTGKTSLCKALAQKLSIRLSSRyrygqlieINSHSLFSKWFSESGKLVTKMFQKIQ-ELI-----DDKDALVFV 129

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 571 VIDEIDAVFRKRSSAEDSGEATRS-STVNQILAKLDGVESIPNVLLIGMTNRRELLDEAL 629
Cdd:cd19508  130 LIDEVESLAAARSASSSGTEPSDAiRVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAF 189
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 492-631 1.76e-11

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: 62.98  E-value: 1.76e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 492 LNPVKGCLLYGPPGCGKTALAREIARALKARAPKIvSAPELLDRWVGGSERLVRELFYdaeaeLAACNGDAtksalhVIV 571
Cdd:cd19523   30 LRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRL-RGSTLVAKWAGEGEKILQASFL-----AARCRQPS------VLF 97

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 224014608 572 IDEIDAVFrkrsSAEDSGEATRSSTVNQILAKLDGVESIP--NVLLIGMTNRRELLDEALLR 631
Cdd:cd19523   98 ISDLDALL----SSQDDEASPVGRLQVELLAQLDGVLGSGedGVLVVCTTSKPEEIDESLRR 155
ycf46 CHL00195
Ycf46; Provisional
 491-661 9.15e-11

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 65.04  E-value: 9.15e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 491 GLNPVKGCLLYGPPGCGKTALAREIARA-----LKARAPKIVSApelldrWVGGSERLVRELFYDAEAeLAACngdatks 565
Cdd:CHL00195 255 GLPTPRGLLLVGIQGTGKSLTAKAIANDwqlplLRLDVGKLFGG------IVGESESRMRQMIRIAEA-LSPC------- 320

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 566 alhVIVIDEIDAVFRKRSSAEDSGeatrssTVNQILAKLDG--VESIPNVLLIGMTNRRELLDEALLRPGRLEVQIEIPL 643
Cdd:CHL00195 321 ---ILWIDEIDKAFSNSESKGDSG------TTNRVLATFITwlSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDL 391

                        170
                 ....*....|....*...
gi 224014608 644 PDREGRREILQIHFEALR 661
Cdd:CHL00195 392 PSLEEREKIFKIHLQKFR 409
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 491-634 5.36e-09

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: 55.84  E-value: 5.36e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 491 GLNPVKGCLLYGPPGCGKTALAREIARALkaRAPKI-VSAPELLDRWVGGSERLVRELFYDAEAeLAACngdatksalhV 569
Cdd:cd19507   27 GLPTPKGLLLVGIQGTGKSLTAKAIAGVW--QLPLLrLDMGRLFGGLVGESESRLRQMIQTAEA-IAPC----------V 93

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 224014608 570 IVIDEIDAVFRKRSSAEDSGEATRS-STVNQILAkldgvESIPNVLLIGMTNRRELLDEALLRPGR 634
Cdd:cd19507   94 LWIDEIEKGFSNADSKGDSGTSSRVlGTFLTWLQ-----EKKKPVFVVATANNVQSLPPELLRKGR 154
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 499-631 1.19e-06

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


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 51.69  E-value: 1.19e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 499 LLYGPPGCGKTALAREIARALKARAPKIV---------SAPELL----DRWVGGSERLVRELFYDAeAELAACNGDATks 565
Cdd:COG1401  225 ILAGPPGTGKTYLARRLAEALGGEDNGRIefvqfhpswSYEDFLlgyrPSLDEGKYEPTPGIFLRF-CLKAEKNPDKP-- 301

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 566 alHVIVIDEI-----DAVF---------RKRSSaEDSGEATRSSTVNQIlakldgveSIP-NVLLIGMTNRRE----LLD 626
Cdd:COG1401  302 --YVLIIDEInranvEKYFgellsllesDKRGE-ELSIELPYSGEGEEF--------SIPpNLYIIGTMNTDDrslaLSD 370


                 ....*
gi 224014608 627 EALLR 631
Cdd:COG1401  371 KALRR 375
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 499-631 4.11e-06

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: 46.90  E-value: 4.11e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  499 LLYGPPGCGKTALAREIARALKARAPKIV------SAPELLDRW---VGGSErlvrelFYDAEAELAACNGdatksalHV 569
Cdd:pfam07728   3 LLVGPPGTGKTELAERLAAALSNRPVFYVqltrdtTEEDLFGRRnidPGGAS------WVDGPLVRAAREG-------EI 69

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  570 IVIDEID----AVFRKRSSAEDSGEATRSSTVNQILAKLDgvesipNVLLIGMTNRREL----LDEALLR 631
Cdd:pfam07728  70 AVLDEINranpDVLNSLLSLLDERRLLLPDGGELVKAAPD------GFRLIATMNPLDRglneLSPALRS 133
AAA_22 pfam13401
AAA domain;
499-625 1.07e-05

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 45.41  E-value: 1.07e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608  499 LLYGPPGCGKTALAREIARALKARAPKIV-------SAPELLDRWV-------GGSERLVRELFYDAEAELAACngdatk 564
Cdd:pfam13401   9 VLTGESGTGKTTLLRRLLEQLPEVRDSVVfvdlpsgTSPKDLLRALlralglpLSGRLSKEELLAALQQLLLAL------ 82

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 224014608  565 SALHVIVIDEIDAVfrkrssaedSGEAtrsstVNQILAKLDGVESIPNVLLIGMTNRRELL 625
Cdd:pfam13401  83 AVAVVLIIDEAQHL---------SLEA-----LEELRDLLNLSSKLLQLILVGTPELRELL 129
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 498-522 3.45e-05

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 47.00  E-value: 3.45e-05
                         10        20
                 ....*....|....*....|....*
gi 224014608 498 CLLYGPPGCGKTALAREIARALKAR 522
Cdd:PRK13342  39 MILWGPPGTGKTTLARIIAGATDAP 63
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 499-522 6.41e-05

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 46.20  E-value: 6.41e-05
                         10        20
                 ....*....|....*....|....
gi 224014608 499 LLYGPPGCGKTALAREIARALKAR 522
Cdd:COG2256   53 ILWGPPGTGKTTLARLIANATDAE 76
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 498-532 3.48e-04

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: 43.44  E-value: 3.48e-04
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 224014608  498 CLLYGPPGCGKTALAREIARALKARApKIVSAPEL 532
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIANEMGVNL-KITSGPAL 66
Lon COG0466
ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, ...
 487-519 4.11e-04

ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440234 [Multi-domain]  Cd Length: 785  Bit Score: 43.85  E-value: 4.11e-04
                         10        20        30
                 ....*....|....*....|....*....|....*..
gi 224014608 487 LALLGLNP-VKG---CLlYGPPGCGKTALAREIARAL 519
Cdd:COG0466  341 LAVRKLKKkLKGpilCL-VGPPGVGKTSLGKSIARAL 376
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
498-532 4.42e-04

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 43.20  E-value: 4.42e-04
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 224014608 498 CLLYGPPGCGKTALAREIARALKARApKIVSAPEL 532
Cdd:PRK00080  54 VLLYGPPGLGKTTLANIIANEMGVNI-RITSGPAL 87
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 499-532 4.56e-04

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 41.33  E-value: 4.56e-04
                          10        20        30
                  ....*....|....*....|....*....|....
gi 224014608  499 LLYGPPGCGKTALAREIARALKARApKIVSAPEL 532
Cdd:pfam05496  37 LLYGPPGLGKTTLANIIANEMGVNI-RITSGPAI 69
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 487-519 1.13e-03

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain 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: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 40.62  E-value: 1.13e-03
                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 224014608 487 LALLGLNP-VKG--CLLYGPPGCGKTALAREIARAL 519
Cdd:cd19500   26 LAVRKLKGsMKGpiLCLVGPPGVGKTSLGKSIARAL 61
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 498-519 1.59e-03

RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.


Pssm-ID: 459992  Cd Length: 102  Bit Score: 38.74  E-value: 1.59e-03
                          10        20
                  ....*....|....*....|..
gi 224014608  498 CLLYGPPGCGKTALAREIARAL 519
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARAL 22
PRK08116 PRK08116
hypothetical protein; Validated
 497-535 2.10e-03

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 40.77  E-value: 2.10e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|.
gi 224014608 497 GCLLYGPPGCGKTALAREIARAL-KARAP-KIVSAPELLDR 535
Cdd:PRK08116 116 GLLLWGSVGTGKTYLAACIANELiEKGVPvIFVNFPQLLNR 156
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 498-529 2.63e-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: 39.41  E-value: 2.63e-03
                          10        20        30
                  ....*....|....*....|....*....|..
gi 224014608  498 CLLYGPPGCGKTALAREIARALKARAPKIVSA 529
Cdd:pfam13191  27 VLLTGEAGTGKTTLLRELLRALERDGGYFLRG 58
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
496-547 2.85e-03

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 41.11  E-value: 2.85e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 224014608 496 KGCLLYGPPGCGKTALAREIARALKARAP-KIVSAPELLDRWVGGSERLVREL 547
Cdd:COG1224   65 KGILIVGPPGTGKTALAVAIARELGEDTPfVAISGSEIYSAELKKTEFLMQAL 117
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
499-519 3.17e-03

DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];


Pssm-ID: 442061 [Multi-domain]  Cd Length: 340  Bit Score: 40.56  E-value: 3.17e-03
                         10        20
                 ....*....|....*....|.
gi 224014608 499 LLYGPPGCGKTALAREIARAL 519
Cdd:COG2812   36 LFTGPRGVGKTTLARILAKAL 56
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 498-530 3.25e-03

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 40.45  E-value: 3.25e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 224014608 498 CLLYGPPGCGKTALAREIARALKARApKIVSAP 530
Cdd:COG2255   57 VLLYGPPGLGKTTLAHIIANEMGVNI-RITSGP 88
PRK04195 PRK04195
replication factor C large subunit; Provisional
 493-517 3.31e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 40.67  E-value: 3.31e-03
                         10        20
                 ....*....|....*....|....*
gi 224014608 493 NPVKGCLLYGPPGCGKTALAREIAR 517
Cdd:PRK04195  37 KPKKALLLYGPPGVGKTSLAHALAN 61
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
499-519 3.84e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 39.96  E-value: 3.84e-03
                         10        20
                 ....*....|....*....|.
gi 224014608 499 LLYGPPGCGKTALAREIARAL 519
Cdd:COG0470   22 LLHGPPGIGKTTLALALARDL 42
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
476-575 4.72e-03

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 39.38  E-value: 4.72e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 476 QLSLAALEASELALLG-LNPVKGCLLYGPPGCGKT----ALAREIARA-LKARapkIVSAPELLDRWV-----GGSERLV 544
Cdd:COG1484   79 QPGLDRRQILELATLDfIERGENLILLGPPGTGKThlaiALGHEACRAgYRVR---FTTAPDLVNELKearadGRLERLL 155

                         90       100       110
                 ....*....|....*....|....*....|.
gi 224014608 545 RELfydaeaelaacngdatkSALHVIVIDEI 575
Cdd:COG1484  156 KRL-----------------AKVDLLILDEL 169
Zot COG4128
Zona occludens toxin, predicted ATPase [General function prediction only];
498-585 4.78e-03

Zona occludens toxin, predicted ATPase [General function prediction only];


Pssm-ID: 443304 [Multi-domain]  Cd Length: 276  Bit Score: 39.70  E-value: 4.78e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 498 CLLYGPPGCGKT--ALAREIARALKARAPKIVSAPELLDRwvggsERLVRELFY--DAEAELAACNGDATKSALH----- 568
Cdd:COG4128    4 TLITGVPGSGKSyeAVWFLIIPALKKGRRVITNIPGLKIL-----ERIAEHLGLavPDTAELINVDTDDPDGLEKmarwf 78

                         90       100
                 ....*....|....*....|....
gi 224014608 569 -------VIVIDEIDAVFRKRSSA 585
Cdd:COG4128   79 hwapdgaLIVIDEAQRVWPPRGKG 102
SpoIIIAA COG3854
Stage III sporulation protein SpoIIIAA [Cell cycle control, cell division, chromosome ...
 499-519 5.22e-03

Stage III sporulation protein SpoIIIAA [Cell cycle control, cell division, chromosome partitioning];


Pssm-ID: 443063  Cd Length: 309  Bit Score: 39.75  E-value: 5.22e-03
                         10        20
                 ....*....|....*....|.
gi 224014608 499 LLYGPPGCGKTALAREIARAL 519
Cdd:COG3854  144 LIISPPGCGKTTLLRDIARVL 164
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 499-594 6.23e-03

RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 37.48  E-value: 6.23e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 499 LLYGPPGCGKTALAREIARALKARAPKIVSAPeLLDRwvggserlVRELFYDAeaelaacngdATKSALHVIVIDEIDAV 578
Cdd:cd01120    2 LITGPPGSGKTTLLLQFAEQALLSDEPVIFIS-FLDT--------ILEAIEDL----------IEEKKLDIIIIDSLSSL 62

                         90
                 ....*....|....*.
gi 224014608 579 FRKRSSAEDSGEATRS 594
Cdd:cd01120   63 ARASQGDRSSELLEDL 78
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
498-581 6.49e-03

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


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 39.83  E-value: 6.49e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 498 CLLYGPPGCGKTALAREIARALKARAPKIVSAPEL--LDRWVGGSE-----RLVRELFYDAE--------AEL--AACNG 560
Cdd:COG1474   54 VLIYGPTGTGKTAVAKYVLEELEEEAEERGVDVRVvyVNCRQASTRyrvlsRILEELGSGEDipstglstDELfdRLYEA 133

                         90       100
                 ....*....|....*....|.
gi 224014608 561 DATKSALHVIVIDEIDAVFRK 581
Cdd:COG1474  134 LDERDGVLVVVLDEIDYLVDD 154
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 736-780 7.10e-03

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: 35.21  E-value: 7.10e-03
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*
gi 224014608  736 EVTGGYSGAELAGLVRCAGSIALSRARKDgagveallITLDDIEQ 780
Cdd:pfam17862   9 ERTEGFSGADLEALCREAALAALRRGLEA--------VTQEDLEE 45
DnaA COG0593
Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];
472-659 8.08e-03

Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];


Pssm-ID: 440358 [Multi-domain]  Cd Length: 303  Bit Score: 39.02  E-value: 8.08e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 472 GASKQLSLAALEA-SELALLGLNPVkgcLLYGPPGCGKTALAREIARALKARAP--KIVSAPelldrwvggSERLVRElF 548
Cdd:COG0593   13 GPSNRLAHAAALAvAEWPGKAYNPL---FLYGGVGLGKTHLLHAIGNEALENNPgaRVVYLT---------AEEFTND-F 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 224014608 549 YDAeaeLAACNGDATKSALH---VIVIDEIDAVFRKRSSAE----------DSGeatrsstvNQILakldgvesipnvll 615
Cdd:COG0593   80 INA---IRNNTIEEFKEKYRsvdVLLIDDIQFLAGKEATQEeffhtfnalrEAG--------KQIV-------------- 134

                        170       180       190       200       210
                 ....*....|....*....|....*....|....*....|....*....|.
gi 224014608 616 igMTNRR-----ELLDEALLRpgRLE--VQIEIPLPDREGRREILQIHFEA 659
Cdd:COG0593  135 --LTSDRppkelPGLEERLRS--RLEwgLVVDIQPPDLETRIAILRKKAAD 181
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 480-519 9.99e-03

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 38.61  E-value: 9.99e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|
gi 224014608 480 AALEASELALLGLNPVkgcLLYGPPGCGKTALAREIARAL 519
Cdd:COG0714   19 ELIELVLIALLAGGHL---LLEGVPGVGKTTLAKALARAL 55
 
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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