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Conserved domains on  [gi|2053596993|gb|KAG7015979|]
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Ribulose bisphosphate carboxylase/oxygenase activase 1, chloroplastic [Cucurbita argyrosperma subsp. argyrosperma]

Protein Classification

ribulose bisphosphate carboxylase/oxygenase activase( domain architecture ID 10010577)

chloroplastic ribulose bisphosphate carboxylase/oxygenase (RuBisCO) activase regulates the activity of RuBisCO, the enzyme that initiates photosynthetic carbon metabolism by combining atmospheric CO2 with RuBP to form 3-phosphoglyceric acid; involves the ATP-dependent carboxylation of the epsilon-amino group of lysine leading to a carbamate structure

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PLN00020 PLN00020
ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
 8-427 0e+00

ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional


:

Pssm-ID: 215031 [Multi-domain]  Cd Length: 413  Bit Score: 739.99  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993   8 AGATNGVSLSLNGAIAGASVQNSAFLGSSLKKanfrnPNSKVSSGRSLMKVVAVAEDIDEKKQTDKDRWKGLAYDISDDQ 87
Cdd:PLN00020    1 VGAVNRASLSLSAVASGASSPPSSAFLGSKVK-----VSSRRTSSARKSKSSVPVSEEDESKQSEQSSWRGLAQDISGDD 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993  88 QDITRGKGMVDSLFQAPTGAGTHDPVLSSYEYLsagLRQYNLDNTVDGFYIAPAFMDKLVVHISKNFMKLPNIKVPLILG 167
Cdd:PLN00020   76 YDITRGKGMVDSLFQGPFGLGTDSDIASSYDYL---QRTRSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADII-KKGKMCVLFINDLDAGAGRLGgTT 246
Cdd:PLN00020  153 IWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIkKKGKMSCLFINDLDAGAGRFG-TT 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 247 QYTVNNQMVNATLMNIADNPTNVQLPGMY-NKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCSGIF 325
Cdd:PLN00020  232 QYTVNNQMVNGTLMNIADNPTNVSLGGDWrEKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVVHGIF 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 326 RTDNVPKEDIIKLVDTFPGQSIDFFGALRARVYDDEVRKWAASVRVENISKRLVNSKEGPPTFEQPKMTLQKLLEYGNML 405
Cdd:PLN00020  312 RDDGVSREDVVKLVDTFPGQPLDFFGALRARVYDDEVRKWIAEVGVENLGKKLVNSKKGPPTFEPPKMTLEKLLEYGNML 391

                         410       420
                  ....*....|....*....|..
gi 2053596993 406 VQEQENVKRVQLADKYLSEAAL 427
Cdd:PLN00020  392 VREQENVKRVQLSDEYLKNAAL 413
MPEG1_P2 super family cl45569
P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; ...
 455-476 1.04e-03

P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; Macrophage-expressed gene 1 protein (MPEG1), also called perforin-2 (P-2) or macrophage gene 1 protein (Mpg-1), is a pore-forming, antibacterial protein with broad-spectrum activity. It is a major antibacterial effector protein of the innate immune system in phagocytic as well as tissue forming cells. It plays an essential role in intracellular defense of parenchymal cells and phagocytes against pathogenic bacteria by inserting into the bacterial surface to form pores. This model corresponds to a unique membrane bound P2 domain of MPEG1, which helps to stabilize the pre-pore state by swapping between monomers and enables MPEG1 to bind its targeted membrane.


The actual alignment was detected with superfamily member cd22579:

Pssm-ID: 439345  Cd Length: 287  Bit Score: 41.09  E-value: 1.04e-03
                          10        20
                  ....*....|....*....|..
gi 2053596993 455 GCTDPNAENYDPTARSDDGSCN 476
Cdd:cd22579     3 GCTDPDSPNFNFQANVDDGSCE 24
 
Name Accession Description Interval E-value
PLN00020 PLN00020
ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
 8-427 0e+00

ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional


Pssm-ID: 215031 [Multi-domain]  Cd Length: 413  Bit Score: 739.99  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993   8 AGATNGVSLSLNGAIAGASVQNSAFLGSSLKKanfrnPNSKVSSGRSLMKVVAVAEDIDEKKQTDKDRWKGLAYDISDDQ 87
Cdd:PLN00020    1 VGAVNRASLSLSAVASGASSPPSSAFLGSKVK-----VSSRRTSSARKSKSSVPVSEEDESKQSEQSSWRGLAQDISGDD 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993  88 QDITRGKGMVDSLFQAPTGAGTHDPVLSSYEYLsagLRQYNLDNTVDGFYIAPAFMDKLVVHISKNFMKLPNIKVPLILG 167
Cdd:PLN00020   76 YDITRGKGMVDSLFQGPFGLGTDSDIASSYDYL---QRTRSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADII-KKGKMCVLFINDLDAGAGRLGgTT 246
Cdd:PLN00020  153 IWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIkKKGKMSCLFINDLDAGAGRFG-TT 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 247 QYTVNNQMVNATLMNIADNPTNVQLPGMY-NKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCSGIF 325
Cdd:PLN00020  232 QYTVNNQMVNGTLMNIADNPTNVSLGGDWrEKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVVHGIF 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 326 RTDNVPKEDIIKLVDTFPGQSIDFFGALRARVYDDEVRKWAASVRVENISKRLVNSKEGPPTFEQPKMTLQKLLEYGNML 405
Cdd:PLN00020  312 RDDGVSREDVVKLVDTFPGQPLDFFGALRARVYDDEVRKWIAEVGVENLGKKLVNSKKGPPTFEPPKMTLEKLLEYGNML 391

                         410       420
                  ....*....|....*....|..
gi 2053596993 406 VQEQENVKRVQLADKYLSEAAL 427
Cdd:PLN00020  392 VREQENVKRVQLSDEYLKNAAL 413
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 168-312 8.91e-19

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: 82.26  E-value: 8.91e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAGAGRLGGTTQ 247
Cdd:pfam00004   3 LYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAA----KKLAPCVIFIDEIDALAGSRGSGGD 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2053596993 248 YTVnnQMVNATLMNIADNPTNVqlpgmynkeeNPRVPIIVTGNDFSTLYAPLIrdGRMEKFYWAP 312
Cdd:pfam00004  79 SES--RRVVNQLLTELDGFTSS----------NSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 159-307 3.45e-08

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: 52.88  E-value: 3.45e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 159 NIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAG 238
Cdd:cd19529    23 GIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFRKA----RQVAPCVIFFDEIDSI 98

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2053596993 239 AGRLGGTTQYTVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19529    99 APRRGTTGDSGVTERVVNQLL---------TELDGL---EEMNGVVVIAATNRPDIIDPALLRAGRFDR 155
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 152-312 1.53e-06

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: 50.68  E-value: 1.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 152 KNFMKLpNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLF 231
Cdd:TIGR01243 477 EIFEKM-GIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKA----RQAAPAIIF 551

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 232 INDLDAGAGRLGGTTQYTVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWA 311
Cdd:TIGR01243 552 FDEIDAIAPARGARFDTSVTDRIVNQLL---------TEMDGI---QELSNVVVIAATNRPDILDPALLRPGRFDRLILV 619


                  .
gi 2053596993 312 P 312
Cdd:TIGR01243 620 P 620
MPEG1_P2 cd22579
P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; ...
 455-476 1.04e-03

P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; Macrophage-expressed gene 1 protein (MPEG1), also called perforin-2 (P-2) or macrophage gene 1 protein (Mpg-1), is a pore-forming, antibacterial protein with broad-spectrum activity. It is a major antibacterial effector protein of the innate immune system in phagocytic as well as tissue forming cells. It plays an essential role in intracellular defense of parenchymal cells and phagocytes against pathogenic bacteria by inserting into the bacterial surface to form pores. This model corresponds to a unique membrane bound P2 domain of MPEG1, which helps to stabilize the pre-pore state by swapping between monomers and enables MPEG1 to bind its targeted membrane.


Pssm-ID: 439345  Cd Length: 287  Bit Score: 41.09  E-value: 1.04e-03
                          10        20
                  ....*....|....*....|..
gi 2053596993 455 GCTDPNAENYDPTARSDDGSCN 476
Cdd:cd22579     3 GCTDPDSPNFNFQANVDDGSCE 24
 
Name Accession Description Interval E-value
PLN00020 PLN00020
ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional
 8-427 0e+00

ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional


Pssm-ID: 215031 [Multi-domain]  Cd Length: 413  Bit Score: 739.99  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993   8 AGATNGVSLSLNGAIAGASVQNSAFLGSSLKKanfrnPNSKVSSGRSLMKVVAVAEDIDEKKQTDKDRWKGLAYDISDDQ 87
Cdd:PLN00020    1 VGAVNRASLSLSAVASGASSPPSSAFLGSKVK-----VSSRRTSSARKSKSSVPVSEEDESKQSEQSSWRGLAQDISGDD 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993  88 QDITRGKGMVDSLFQAPTGAGTHDPVLSSYEYLsagLRQYNLDNTVDGFYIAPAFMDKLVVHISKNFMKLPNIKVPLILG 167
Cdd:PLN00020   76 YDITRGKGMVDSLFQGPFGLGTDSDIASSYDYL---QRTRSFDNLVGGYYIAPAFMDKVAVHIAKNFLALPNIKVPLILG 152

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADII-KKGKMCVLFINDLDAGAGRLGgTT 246
Cdd:PLN00020  153 IWGGKGQGKSFQCELVFKKMGIEPIVMSAGELESENAGEPGKLIRQRYREAADIIkKKGKMSCLFINDLDAGAGRFG-TT 231

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 247 QYTVNNQMVNATLMNIADNPTNVQLPGMY-NKEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCSGIF 325
Cdd:PLN00020  232 QYTVNNQMVNGTLMNIADNPTNVSLGGDWrEKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVVHGIF 311

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 326 RTDNVPKEDIIKLVDTFPGQSIDFFGALRARVYDDEVRKWAASVRVENISKRLVNSKEGPPTFEQPKMTLQKLLEYGNML 405
Cdd:PLN00020  312 RDDGVSREDVVKLVDTFPGQPLDFFGALRARVYDDEVRKWIAEVGVENLGKKLVNSKKGPPTFEPPKMTLEKLLEYGNML 391

                         410       420
                  ....*....|....*....|..
gi 2053596993 406 VQEQENVKRVQLADKYLSEAAL 427
Cdd:PLN00020  392 VREQENVKRVQLSDEYLKNAAL 413
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 168-312 8.91e-19

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: 82.26  E-value: 8.91e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAGAGRLGGTTQ 247
Cdd:pfam00004   3 LYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAA----KKLAPCVIFIDEIDALAGSRGSGGD 78

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2053596993 248 YTVnnQMVNATLMNIADNPTNVqlpgmynkeeNPRVPIIVTGNDFSTLYAPLIrdGRMEKFYWAP 312
Cdd:pfam00004  79 SES--RRVVNQLLTELDGFTSS----------NSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 159-307 3.45e-08

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: 52.88  E-value: 3.45e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 159 NIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAG 238
Cdd:cd19529    23 GIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFRKA----RQVAPCVIFFDEIDSI 98

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2053596993 239 AGRLGGTTQYTVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19529    99 APRRGTTGDSGVTERVVNQLL---------TELDGL---EEMNGVVVIAATNRPDIIDPALLRAGRFDR 155
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 152-312 1.53e-06

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: 50.68  E-value: 1.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 152 KNFMKLpNIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLF 231
Cdd:TIGR01243 477 EIFEKM-GIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKA----RQAAPAIIF 551

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 232 INDLDAGAGRLGGTTQYTVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEKFYWA 311
Cdd:TIGR01243 552 FDEIDAIAPARGARFDTSVTDRIVNQLL---------TEMDGI---QELSNVVVIAATNRPDILDPALLRPGRFDRLILV 619


                  .
gi 2053596993 312 P 312
Cdd:TIGR01243 620 P 620
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 168-307 5.13e-05

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


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 43.43  E-value: 5.13e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAGAGRLGGTTQ 247
Cdd:cd19511    32 LYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQKA----RQAAPCIIFFDEIDSLAPRRGQSDS 107

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 248 YTVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19511   108 SGVTDRVVSQLL---------TELDGI---ESLKGVVVIAATNRPDMIDPALLRPGRLDK 155
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 159-307 9.84e-05

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: 42.66  E-value: 9.84e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 159 NIKVPLILGIWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAG 238
Cdd:cd19503    30 GLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEKNLREIFEEA----RSHAPSIIFIDEIDAL 105

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2053596993 239 AGRLgGTTQYTVNNQMVnATLMNIADnptnvqlpGMYNKeenPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19503   106 APKR-EEDQREVERRVV-AQLLTLMD--------GMSSR---GKVVVIAATNRPDAIDPALRRPGRFDR 161
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 170-307 1.41e-04

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: 42.39  E-value: 1.41e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 170 GGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAGAGRLgGTTQYT 249
Cdd:cd19518    41 GPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEEKIRELFDQA----ISNAPCIVFIDEIDAITPKR-ESAQRE 115

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2053596993 250 VNNQMVnATLMNIADNPTNvqlpgmyNKEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19518   116 MERRIV-SQLLTCMDELNN-------EKTAGGPVLVIGATNRPDSLDPALRRAGRFDR 165
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 157-309 1.55e-04

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: 42.36  E-value: 1.55e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 157 LPNIKVPLILGIWGGkgqGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKlirqRYREAADIIKKGKMCVLFINDLD 236
Cdd:cd19507    28 LPTPKGLLLVGIQGT---GKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESES----RLRQMIQTAEAIAPCVLWIDEIE 100

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2053596993 237 AGAGRLGGTTQYTVNNQMVNATLMNIAdnptnvqlpgmynkEENPRVPIIVTGNDFSTLYAPLIRDGRM-EKFY 309
Cdd:cd19507   101 KGFSNADSKGDSGTSSRVLGTFLTWLQ--------------EKKKPVFVVATANNVQSLPPELLRKGRFdEIFF 160
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 173-307 2.12e-04

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: 41.88  E-value: 2.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 173 GQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDAGAGRLGGTTQYTVNN 252
Cdd:cd19481    36 GTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFERA----RRLAPCILFIDEIDAIGRKRDSSGESGELR 111

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2053596993 253 QMVNATLMNIADnptnvqlpgmynKEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19481   112 RVLNQLLTELDG------------VNSRSKVLVIAATNRPDLLDPALLRPGRFDE 154
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 168-308 3.17e-04

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


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 41.55  E-value: 3.17e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAadiiKKGKMCVLFINDLDA-GAGRLGGTT 246
Cdd:cd19502    42 LYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEGARLVRELFEMA----REKAPSIIFIDEIDAiGAKRFDSGT 117

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2053596993 247 QytvNNQMVNATLMNIADnptnvQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEKF 308
Cdd:cd19502   118 G---GDREVQRTMLELLN-----QLDGF---DPRGNIKVIMATNRPDILDPALLRPGRFDRK 168
MPEG1_P2 cd22579
P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; ...
 455-476 1.04e-03

P2 domain of macrophage-expressed gene 1 protein (MPEG1) and similar proteins; Macrophage-expressed gene 1 protein (MPEG1), also called perforin-2 (P-2) or macrophage gene 1 protein (Mpg-1), is a pore-forming, antibacterial protein with broad-spectrum activity. It is a major antibacterial effector protein of the innate immune system in phagocytic as well as tissue forming cells. It plays an essential role in intracellular defense of parenchymal cells and phagocytes against pathogenic bacteria by inserting into the bacterial surface to form pores. This model corresponds to a unique membrane bound P2 domain of MPEG1, which helps to stabilize the pre-pore state by swapping between monomers and enables MPEG1 to bind its targeted membrane.


Pssm-ID: 439345  Cd Length: 287  Bit Score: 41.09  E-value: 1.04e-03
                          10        20
                  ....*....|....*....|..
gi 2053596993 455 GCTDPNAENYDPTARSDDGSCN 476
Cdd:cd22579     3 GCTDPDSPNFNFQANVDDGSCE 24
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 168-307 4.44e-03

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: 37.85  E-value: 4.44e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 168 IWGGKGQGKSFQCELVFAKMGINPIMMSAGELESGNAGEPAKLIRQRYREAADiikkGKMCVLFINDLDAGAGRLGGTTQ 247
Cdd:cd19530    35 LYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQVFQRARA----SAPCVIFFDEVDALVPKRGDGGS 110

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2053596993 248 YtVNNQMVNATLmniadnptnVQLPGMynkEENPRVPIIVTGNDFSTLYAPLIRDGRMEK 307
Cdd:cd19530   111 W-ASERVVNQLL---------TEMDGL---EERSNVFVIAATNRPDIIDPAMLRPGRLDK 157
 
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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