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Conserved domains on  [gi|2462574476|ref|XP_054198608|]
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ATPase family AAA domain-containing protein 2B isoform X22 [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 401-570 1.66e-121

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: 356.82  E-value: 1.66e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFFMRKGADCLSKWV 480
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 481 GESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRR 560
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRR 160

                         170
                  ....*....|
gi 2462574476 561 PGRFDREFLF 570
Cdd:cd19517   161 PGRFDREFYF 170
 
Name Accession Description Interval E-value
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 401-570 1.66e-121

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: 356.82  E-value: 1.66e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFFMRKGADCLSKWV 480
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 481 GESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRR 560
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRR 160

                         170
                  ....*....|
gi 2462574476 561 PGRFDREFLF 570
Cdd:cd19517   161 PGRFDREFYF 170
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 396-616 3.75e-84

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 266.49  E-value: 3.75e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 396 SVRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADC 475
Cdd:COG1222    74 DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGEL-----GAPFIRVRGSEL 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 476 LSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQD-QIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSI 554
Cdd:COG1222   149 VSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLL 228

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462574476 555 DPALRRPGRFDREFLFNLPDQKARKHILQIHTRDwNPKLSDAFLGELAEKCVGTSISEAASL 616
Cdd:COG1222   229 DPALLRPGRFDRVIEVPLPDEEAREEILKIHLRD-MPLADDVDLDKLAKLTEGFSGADLKAI 289
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 397-617 1.42e-67

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: 234.03  E-value: 1.42e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 397 VRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCL 476
Cdd:TIGR01243 175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG-----AYFISINGPEIM 249

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 477 SKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDP 556
Cdd:TIGR01243 250 SKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDP 329

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462574476 557 ALRRPGRFDREFLFNLPDQKARKHILQIHTRDwNPKLSDAFLGELAEKCVGTSISEAASLS 617
Cdd:TIGR01243 330 ALRRPGRFDREIVIRVPDKRARKEILKVHTRN-MPLAEDVDLDKLAEVTHGFVGADLAALA 389
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 370-609 5.77e-61

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 207.76  E-value: 5.77e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 370 LASGILRERVKVGASLA---------DV-----DP----MNIDKS--VRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKF 429
Cdd:PRK03992   81 VSPFIDREKLKPGARVAlnqqslaivEVlpsekDPrvqaMEVIESpnVTYEDIGGLEEQIREVREAVELPLKKPELFEEV 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 430 KIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkvAFFMR-KGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEID 508
Cdd:PRK03992  161 GIEPPKGVLLYGPPGTGKTLLAKAVAHETN------ATFIRvVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEID 234

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 509 GLApvrSSRQDQIHS---SIVST---LLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHIL 582
Cdd:PRK03992  235 AIA---AKRTDSGTSgdrEVQRTlmqLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEIL 311

                         250       260
                  ....*....|....*....|....*..
gi 2462574476 583 QIHTRDWNPKlSDAFLGELAEKCVGTS 609
Cdd:PRK03992  312 KIHTRKMNLA-DDVDLEELAELTEGAS 337
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 438-572 1.09e-47

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: 163.15  E-value: 1.09e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSR 517
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKEL-----GAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSG 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 518 QDQIHSSIVSTLLALMDGLDNR-GEIVVIGATNRLDSIDPALRrpGRFDREFLFNL 572
Cdd:pfam00004  77 GDSESRRVVNQLLTELDGFTSSnSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 433-574 5.93e-19

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: 83.96  E-value: 5.93e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476  433 PPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFF------------MRKGADCLSKWVGESERQLRLLFDQAYLMRPS 500
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIdgedileevldqLLLIIVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462574476  501 IIFFDEIDGLAPVRSSRQDQihssiVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPgRFDREFLFNLPD 574
Cdd:smart00382  81 VLILDEITSLLDAEQEALLL-----LLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 437-513 6.00e-04

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 41.69  E-value: 6.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 437 CLFYGPPGTGKTLVARALANE-CSQGdKKVAFFmrKGADCLSKWvGESERQLRL--LFDQayLMRPSIIFFDEIdGLAPV 513
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAaCRQG-YRVRFT--TAADLVEQL-AQARADGRLgrLLRR--LARYDLLIIDEL-GYLPF 165
 
Name Accession Description Interval E-value
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 401-570 1.66e-121

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: 356.82  E-value: 1.66e-121
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFFMRKGADCLSKWV 480
Cdd:cd19517     1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSKGGQKVSFFMRKGADCLSKWV 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 481 GESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRR 560
Cdd:cd19517    81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALDPALRR 160

                         170
                  ....*....|
gi 2462574476 561 PGRFDREFLF 570
Cdd:cd19517   161 PGRFDREFYF 170
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 396-616 3.75e-84

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 266.49  E-value: 3.75e-84
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 396 SVRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADC 475
Cdd:COG1222    74 DVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGEL-----GAPFIRVRGSEL 148

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 476 LSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQD-QIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSI 554
Cdd:COG1222   149 VSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTsGEVQRTVNQLLAELDGFESRGDVLIIAATNRPDLL 228

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462574476 555 DPALRRPGRFDREFLFNLPDQKARKHILQIHTRDwNPKLSDAFLGELAEKCVGTSISEAASL 616
Cdd:COG1222   229 DPALLRPGRFDRVIEVPLPDEEAREEILKIHLRD-MPLADDVDLDKLAKLTEGFSGADLKAI 289
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 401-570 2.95e-81

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: 252.98  E-value: 2.95e-81
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWV 480
Cdd:cd19503     1 DIGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEA-----GANFLSISGPSIVSKYL 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 481 GESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRR 560
Cdd:cd19503    76 GESEKNLREIFEEARSHAPSIIFIDEIDALAPKREEDQREVERRVVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRR 155

                         170
                  ....*....|
gi 2462574476 561 PGRFDREFLF 570
Cdd:cd19503   156 PGRFDREVEI 165
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 397-617 1.42e-67

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: 234.03  E-value: 1.42e-67
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 397 VRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCL 476
Cdd:TIGR01243 175 VTYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAG-----AYFISINGPEIM 249

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 477 SKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDP 556
Cdd:TIGR01243 250 SKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDP 329

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462574476 557 ALRRPGRFDREFLFNLPDQKARKHILQIHTRDwNPKLSDAFLGELAEKCVGTSISEAASLS 617
Cdd:TIGR01243 330 ALRRPGRFDREIVIRVPDKRARKEILKVHTRN-MPLAEDVDLDKLAEVTHGFVGADLAALA 389
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 366-616 1.02e-66

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: 223.25  E-value: 1.02e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 366 RAEDLASGILRERVKVGASLADVDPMNIDKSVRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGT 445
Cdd:COG0464   123 RESAEALALAAPLVTYEDIGGLEEELLELREAILDDLGGLEEVKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGT 202

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 446 GKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSI 525
Cdd:COG0464   203 GKTLLARALAGEL-----GLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGRRV 277

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 526 VSTLLALMDGLdnRGEIVVIGATNRLDSIDPALRRpgRFDREFLFNLPDQKARKHILQIHTRDwNPKLSDAFLGELAEKC 605
Cdd:COG0464   278 VNTLLTEMEEL--RSDVVVIAATNRPDLLDPALLR--RFDEIIFFPLPDAEERLEIFRIHLRK-RPLDEDVDLEELAEAT 352

                         250
                  ....*....|.
gi 2462574476 606 VGTSISEAASL 616
Cdd:COG0464   353 EGLSGADIRNV 363
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 349-616 9.39e-66

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: 229.02  E-value: 9.39e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 349 KSKSMARARnRCLP---MNFRAEDLASGILRErVKVGA-----SLADVDPMNIDK------SVRFDSIGGLSHHIHALKE 414
Cdd:TIGR01243 390 KEAAMAALR-RFIRegkINFEAEEIPAEVLKE-LKVTMkdfmeALKMVEPSAIREvlvevpNVRWSDIGGLEEVKQELRE 467

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 415 MVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGdkkvaFFMRKGADCLSKWVGESERQLRLLFDQA 494
Cdd:TIGR01243 468 AVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGAN-----FIAVRGPEILSKWVGESEKAIREIFRKA 542

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 495 YLMRPSIIFFDEIDGLAPVRSSRQDQ-IHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLP 573
Cdd:TIGR01243 543 RQAAPAIIFFDEIDAIAPARGARFDTsVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPP 622

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 2462574476 574 DQKARKHILQIHTRDWnPKLSDAFLGELAEKCVGTSISEAASL 616
Cdd:TIGR01243 623 DEEARKEIFKIHTRSM-PLAEDVDLEELAEMTEGYTGADIEAV 664
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 402-567 1.67e-63

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: 206.52  E-value: 1.67e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 402 IGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVG 481
Cdd:cd19519     2 IGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETG-----AFFFLINGPEIMSKLAG 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 482 ESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRP 561
Cdd:cd19519    77 ESESNLRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRF 156


                  ....*.
gi 2462574476 562 GRFDRE 567
Cdd:cd19519   157 GRFDRE 162
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 411-566 2.82e-62

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: 203.28  E-value: 2.82e-62
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 411 ALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLL 490
Cdd:cd19511     4 ELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEA-----GLNFISVKGPELFSKYVGESERAVREI 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462574476 491 FDQAYLMRPSIIFFDEIDGLAPVRSSRQD-QIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19511    79 FQKARQAAPCIIFFDEIDSLAPRRGQSDSsGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDK 155
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 370-609 5.77e-61

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 207.76  E-value: 5.77e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 370 LASGILRERVKVGASLA---------DV-----DP----MNIDKS--VRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKF 429
Cdd:PRK03992   81 VSPFIDREKLKPGARVAlnqqslaivEVlpsekDPrvqaMEVIESpnVTYEDIGGLEEQIREVREAVELPLKKPELFEEV 160

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 430 KIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkvAFFMR-KGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEID 508
Cdd:PRK03992  161 GIEPPKGVLLYGPPGTGKTLLAKAVAHETN------ATFIRvVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEID 234

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 509 GLApvrSSRQDQIHS---SIVST---LLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHIL 582
Cdd:PRK03992  235 AIA---AKRTDSGTSgdrEVQRTlmqLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEIL 311

                         250       260
                  ....*....|....*....|....*..
gi 2462574476 583 QIHTRDWNPKlSDAFLGELAEKCVGTS 609
Cdd:PRK03992  312 KIHTRKMNLA-DDVDLEELAELTEGAS 337
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 412-566 4.52e-56

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: 186.93  E-value: 4.52e-56
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 412 LKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGdkkvaFFMRKGADCLSKWVGESERQLRLLF 491
Cdd:cd19529     5 LKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNAN-----FISVKGPELLSKWVGESEKAIREIF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 492 DQAYLMRPSIIFFDEIDGLAPVRSSRQDQ-IHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19529    80 RKARQVAPCVIFFDEIDSIAPRRGTTGDSgVTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDR 155
26Sp45 TIGR01242
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ...
 369-610 1.45e-55

26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an internal


Pssm-ID: 130309 [Multi-domain]  Cd Length: 364  Bit Score: 192.32  E-value: 1.45e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 369 DLASGILRERVKVGASLA---------DVDPMNID-----------KSVRFDSIGGLSHHIHALKEMVVFPLLYPEIFEK 428
Cdd:TIGR01242  71 NVSAFIDRKSLKPGARVAlnqqtltivDVLPTSKDplvkgmeveerPNVSYEDIGGLEEQIREIREAVELPLKHPELFEE 150

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 429 FKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkvAFFMR-KGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEI 507
Cdd:TIGR01242 151 VGIEPPKGVLLYGPPGTGKTLLAKAVAHETN------ATFIRvVGSELVRKYIGEGARLVREIFELAKEKAPSIIFIDEI 224

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 508 DGLAPVR---SSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQI 584
Cdd:TIGR01242 225 DAIAAKRtdsGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKI 304

                         250       260
                  ....*....|....*....|....*...
gi 2462574476 585 HTRDWN--PKLSDAFLGELAEKCVGTSI 610
Cdd:TIGR01242 305 HTRKMKlaEDVDLEAIAKMTEGASGADL 332
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 399-566 5.48e-53

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: 179.07  E-value: 5.48e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 399 FDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkvAFFMR-KGADCLS 477
Cdd:cd19502     2 YEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTD------ATFIRvVGSELVQ 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 478 KWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLAL---MDGLDNRGEIVVIGATNRLDSI 554
Cdd:cd19502    76 KYIGEGARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDREVQRTMLELlnqLDGFDPRGNIKVIMATNRPDIL 155

                         170
                  ....*....|..
gi 2462574476 555 DPALRRPGRFDR 566
Cdd:cd19502   156 DPALLRPGRFDR 167
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 381-586 2.48e-52

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 185.74  E-value: 2.48e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 381 VGASLADVDP----MNIDKSV--RFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARAL 454
Cdd:PTZ00361  158 VGILLDEVDPlvsvMKVDKAPleSYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAV 237

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 455 ANECSqgdkkvAFFMR-KGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLAL- 532
Cdd:PTZ00361  238 ANETS------ATFLRvVGSELIQKYLGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELl 311

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 533 --MDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHT 586
Cdd:PTZ00361  312 nqLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHT 367
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 412-566 2.13e-51

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: 174.24  E-value: 2.13e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 412 LKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLF 491
Cdd:cd19528     5 LQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANEC-----QANFISVKGPELLTMWFGESEANVRDIF 79

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2462574476 492 DQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSS---IVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19528    80 DKARAAAPCVLFFDELDSIAKARGGNIGDAGGAadrVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQ 157
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 370-603 2.19e-51

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: 184.91  E-value: 2.19e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 370 LASGILRERVKVGASLAdVDPMN------IDKS------------VRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKI 431
Cdd:TIGR03689 135 LAGALADEGLRPGDTLL-VDPRAgyafeaIPRTevedlvleevpdVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGL 213

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 432 QPPRGCLFYGPPGTGKTLVARALANECSQ-----GDKKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLM----RPSII 502
Cdd:TIGR03689 214 KPPKGVLLYGPPGCGKTLIAKAVANSLAArigaeGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKasegRPVIV 293

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 503 FFDEIDGLAPVRSS-RQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHI 581
Cdd:TIGR03689 294 FFDEMDSLFRTRGSgVSSDVETTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADI 373

                         250       260
                  ....*....|....*....|....
gi 2462574476 582 LQIHTRDWNPKLSD--AFLGELAE 603
Cdd:TIGR03689 374 FAKYLTDDLPLPEDlaAHDGDREA 397
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 401-567 3.48e-51

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: 174.13  E-value: 3.48e-51
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWV 480
Cdd:cd19518     1 DIGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGEL-----KVPFLKISATEIVSGVS 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 481 GESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGL----DNRGEIVVIGATNRLDSIDP 556
Cdd:cd19518    76 GESEEKIRELFDQAISNAPCIVFIDEIDAITPKRESAQREMERRIVSQLLTCMDELnnekTAGGPVLVIGATNRPDSLDP 155

                         170
                  ....*....|.
gi 2462574476 557 ALRRPGRFDRE 567
Cdd:cd19518   156 ALRRAGRFDRE 166
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 394-616 3.68e-48

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: 175.94  E-value: 3.68e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 394 DKSVRFDSIGGLSHHIHALKEMVVFpLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALAnecsqGDKKVAFFMRKGA 473
Cdd:TIGR01241  49 KPKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVA-----GEAGVPFFSISGS 122

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 474 DCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGlapVRSSRQDQI---HSSIVSTL---LALMDGLDNRGEIVVIGA 547
Cdd:TIGR01241 123 DFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDA---VGRQRGAGLgggNDEREQTLnqlLVEMDGFGTNTGVIVIAA 199

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462574476 548 TNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRdwNPKLS-DAFLGELAEKCVGTS-------ISEAASL 616
Cdd:TIGR01241 200 TNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAK--NKKLApDVDLKAVARRTPGFSgadlanlLNEAALL 274
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 412-570 1.06e-47

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: 164.38  E-value: 1.06e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 412 LKEMVVFPLLYPEiFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLF 491
Cdd:cd19481     5 LREAVEAPRRGSR-LRRYGLGLPKGILLYGPPGTGKTLLAKALAGEL-----GLPLIVVKLSSLLSKYVGESEKNLRKIF 78

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 492 DQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSS-IVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLF 570
Cdd:cd19481    79 ERARRLAPCILFIDEIDAIGRKRDSSGESGELRrVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 438-572 1.09e-47

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: 163.15  E-value: 1.09e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSR 517
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKEL-----GAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSG 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 518 QDQIHSSIVSTLLALMDGLDNR-GEIVVIGATNRLDSIDPALRrpGRFDREFLFNL 572
Cdd:pfam00004  77 GDSESRRVVNQLLTELDGFTSSnSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 405-566 3.47e-47

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: 163.04  E-value: 3.47e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 405 LSHHIHALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESE 484
Cdd:cd19530     1 LDHVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANES-----GANFISVKGPELLNKYVGESE 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 485 RQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRF 564
Cdd:cd19530    76 RAVRQVFQRARASAPCVIFFDEVDALVPKRGDGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRL 155


                  ..
gi 2462574476 565 DR 566
Cdd:cd19530   156 DK 157
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 402-569 1.65e-45

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: 158.67  E-value: 1.65e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 402 IGGLSHHIHALKEMVVFPLLYPEIFeKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVG 481
Cdd:cd19509     1 IAGLDDAKEALKEAVILPSLRPDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESG-----STFFSISASSLVSKWVG 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 482 ESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGE--IVVIGATNRLDSIDPALR 559
Cdd:cd19509    75 ESEKIVRALFALARELQPSIIFIDEIDSLLSERGSGEHEASRRVKTEFLVQMDGVLNKPEdrVLVLGATNRPWELDEAFL 154

                         170
                  ....*....|
gi 2462574476 560 RpgRFDREFL 569
Cdd:cd19509   155 R--RFEKRIY 162
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 397-567 6.24e-45

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: 157.39  E-value: 6.24e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 397 VRFDSIGGLSHHIHALKEMVVFpLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCL 476
Cdd:cd19501     1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA-----GVPFFSISGSDFV 74

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 477 SKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTL---LALMDGLDNRGEIVVIGATNRLDS 553
Cdd:cd19501    75 EMFVGVGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHDEREQTLnqlLVEMDGFESNTGVIVIAATNRPDV 154

                         170
                  ....*....|....
gi 2462574476 554 IDPALRRPGRFDRE 567
Cdd:cd19501   155 LDPALLRPGRFDRQ 168
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
424-614 8.61e-45

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 159.66  E-value: 8.61e-45
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 424 EIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLmRPSIIF 503
Cdd:COG1223    25 ENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGEL-----KLPLLTVRLDSLIGSYLGETARNLRKLFDFARR-APCVIF 98

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 504 FDEIDGLAPVRSSRQD--QIHsSIVSTLLALMDGLdnRGEIVVIGATNRLDSIDPALRRpgRFDREFLFNLPDQKARKHI 581
Cdd:COG1223    99 FDEFDAIAKDRGDQNDvgEVK-RVVNALLQELDGL--PSGSVVIAATNHPELLDSALWR--RFDEVIEFPLPDKEERKEI 173

                         170       180       190
                  ....*....|....*....|....*....|...
gi 2462574476 582 LQIHTRDWNPKLSDAfLGELAEKCVGTSISEAA 614
Cdd:COG1223   174 LELNLKKFPLPFELD-LKKLAKKLEGLSGADIE 205
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 372-595 1.70e-44

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 163.40  E-value: 1.70e-44
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 372 SGILRERVKVGASLA---------DVDPMNIDKSVR-----------FDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKI 431
Cdd:PTZ00454   97 STLNRELLKPNASVAlhrhshavvDILPPEADSSIQllqmsekpdvtYSDIGGLDIQKQEIREAVELPLTCPELYEQIGI 176

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 432 QPPRGCLFYGPPGTGKTLVARALANEcsqgdKKVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLA 511
Cdd:PTZ00454  177 DPPRGVLLYGPPGTGKTMLAKAVAHH-----TTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIA 251

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 512 PVRSSRQ---DQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRD 588
Cdd:PTZ00454  252 TKRFDAQtgaDREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSK 331


                  ....*..
gi 2462574476 589 WNpkLSD 595
Cdd:PTZ00454  332 MN--LSE 336
ftsH CHL00176
cell division protein; Validated
 366-616 2.46e-42

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 161.76  E-value: 2.46e-42
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 366 RAEDLASGILRERVKVGASLADVDpMNIDKSVRFDSIGGlshhIHALK---EMVVFPLLYPEIFEKFKIQPPRGCLFYGP 442
Cdd:CHL00176  150 RSSNFKGGPGQNLMNFGKSKARFQ-MEADTGITFRDIAG----IEEAKeefEEVVSFLKKPERFTAVGAKIPKGVLLVGP 224

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 443 PGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSR----Q 518
Cdd:CHL00176  225 PGTGKTLLAKAIAGEAE-----VPFFSISGSEFVEMFVGVGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGigggN 299

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 519 DQiHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRdwNPKL-SDAF 597
Cdd:CHL00176  300 DE-REQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHAR--NKKLsPDVS 376

                         250
                  ....*....|....*....
gi 2462574476 598 LGELAEKCVGTSISEAASL 616
Cdd:CHL00176  377 LELIARRTPGFSGADLANL 395
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 414-566 2.63e-41

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: 147.27  E-value: 2.63e-41
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 414 EMVVFPLLYPEIFEKfKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVGESERQLRLLFDQ 493
Cdd:cd19527     7 DTIQLPLEHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAIATECS-----LNFLSVKGPELINMYIGESEANVREVFQK 80

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 494 AYLMRPSIIFFDEIDGLAPVRSSRQDQ--IHSSIVSTLLALMDGLDNRGE-IVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19527    81 ARDAKPCVIFFDELDSLAPSRGNSGDSggVMDRVVSQLLAELDGMSSSGQdVFVIGATNRPDLLDPALLRPGRFDK 156
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 411-566 1.05e-40

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: 145.26  E-value: 1.05e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 411 ALKEMVVFPLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVGESERQLRLL 490
Cdd:cd19526     4 ALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECG-----LNFISVKGPELLNKYIGASEQNVRDL 78

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 491 FDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19526    79 FSRAQSAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDK 154
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
390-616 2.74e-39

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 152.11  E-value: 2.74e-39
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 390 PMNIDKS-----------VRFDSIGGLSHHIHALKEMVVFpLLYPEIFEKF--KIqpPRGCLFYGPPGTGKTLVARALAN 456
Cdd:COG0465   121 AMSFGKSkaklydedkpkVTFDDVAGVDEAKEELQEIVDF-LKDPEKFTRLgaKI--PKGVLLVGPPGTGKTLLAKAVAG 197

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 457 ECsqgdkKVAFF---------MRKGadclskwVGESeRqLRLLFDQAYLMRPSIIFFDEIDGLAPVRSS--------RqD 519
Cdd:COG0465   198 EA-----GVPFFsisgsdfveMFVG-------VGAS-R-VRDLFEQAKKNAPCIIFIDEIDAVGRQRGAglggghdeR-E 262

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 520 QihssivsTL---LALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRdwNPKLS-D 595
Cdd:COG0465   263 Q-------TLnqlLVEMDGFEGNEGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDVKGREAILKVHAR--KKPLApD 333

                         250       260
                  ....*....|....*....|....*...
gi 2462574476 596 AFLGELAEKCVGTS-------ISEAASL 616
Cdd:COG0465   334 VDLEVIARRTPGFSgadlanlVNEAALL 361
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 401-564 8.78e-38

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: 137.56  E-value: 8.78e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 401 SIGGLSHHIHALKEMVVFPLLYPEIFEKFKI-QPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKW 479
Cdd:cd19520     1 DIGGLDEVITELKELVILPLQRPELFDNSRLlQPPKGVLLYGPPGCGKTMLAKATAKEAG-----ARFINLQVSSLTDKW 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 480 VGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRG--EIVVIGATNRLDSIDPA 557
Cdd:cd19520    76 YGESQKLVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAMMKAEFMSLWDGLSTDGncRVIVMGATNRPQDLDEA 155


                  ....*....
gi 2462574476 558 LRR--PGRF 564
Cdd:cd19520   156 ILRrmPKRF 164
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 384-560 1.38e-37

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: 137.81  E-value: 1.38e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 384 SLADVDPMNIDKSVRFDSIGGLSHHIHALKEMVVFPLLYPEIFEKFKiQPPRGCLFYGPPGTGKTLVARALANECsqgdk 463
Cdd:cd19525     6 ELIMSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQS----- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 464 KVAFFMRKGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGE-- 541
Cdd:cd19525    80 GATFFSISASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSRRIKTEFLVQLDGATTSSEdr 159

                         170
                  ....*....|....*....
gi 2462574476 542 IVVIGATNRLDSIDPALRR 560
Cdd:cd19525   160 ILVVGATNRPQEIDEAARR 178
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
399-587 1.41e-36

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 145.18  E-value: 1.41e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 399 FDSIGGLSHHIHALKEMVVFpLLYPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALAnecsqGDKKVAFFMRKGADCLSK 478
Cdd:PRK10733  151 FADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA-----GEAKVPFFTISGSDFVEM 224

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 479 WVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTL---LALMDGLDNRGEIVVIGATNRLDSID 555
Cdd:PRK10733  225 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLnqmLVEMDGFEGNEGIIVIAATNRPDVLD 304

                         170       180       190
                  ....*....|....*....|....*....|..
gi 2462574476 556 PALRRPGRFDREFLFNLPDQKARKHILQIHTR 587
Cdd:PRK10733  305 PALLRPGRFDRQVVVGLPDVRGREQILKVHMR 336
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 396-566 1.55e-35

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: 131.52  E-value: 1.55e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 396 SVRFDSIGGLSHHIHALKEMVVFPLLYPEIFeKFKIQPPRGCLFYGPPGTGKTLVARALANECSQgdkkvAFFMRKGADC 475
Cdd:cd19521     3 NVKWEDVAGLEGAKEALKEAVILPVKFPHLF-TGNRKPWSGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSSDL 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 476 LSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGE-IVVIGATNRLDSI 554
Cdd:cd19521    77 VSKWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASRRIKTELLVQMNGVGNDSQgVLVLGATNIPWQL 156

                         170
                  ....*....|..
gi 2462574476 555 DPALRRpgRFDR 566
Cdd:cd19521   157 DSAIRR--RFEK 166
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 417-565 5.12e-35

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


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 130.30  E-value: 5.12e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 417 VFPllyPEIFEKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGDKKVAffmrKGADCLSKWVGESERQLRLLF----- 491
Cdd:cd19504    21 VFP---PEIVEQLGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIV----NGPEILNKYVGESEANIRKLFadaee 93

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 2462574476 492 DQAYLMRPS---IIFFDEIDGLAPVRSSRQDQ--IHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFD 565
Cdd:cd19504    94 EQRRLGANSglhIIIFDEIDAICKQRGSMAGStgVHDTVVNQLLSKIDGVEQLNNILVIGMTNRKDLIDEALLRPGRLE 172
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 402-560 3.96e-34

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: 127.79  E-value: 3.96e-34
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 402 IGGLSHHIHALKEMVVFPLLYPEIFEKFKiQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVG 481
Cdd:cd19522     2 IADLEEAKKLLEEAVVLPMWMPEFFKGIR-RPWKGVLMVGPPGTGKTLLAKAVATEC-----GTTFFNVSSSTLTSKYRG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 482 ESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIV-STLLALMDGLDNRGE-------IVVIGATNRLDS 553
Cdd:cd19522    76 ESEKLVRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEASRRVkSELLVQMDGVGGASEnddpskmVMVLAATNFPWD 155


                  ....*..
gi 2462574476 554 IDPALRR 560
Cdd:cd19522   156 IDEALRR 162
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 402-560 1.98e-32

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: 122.65  E-value: 1.98e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 402 IGGLSHHIHALKEMVVFPLLYPEIFEKFKiQPPRGCLFYGPPGTGKTLVARALANECsqgdkKVAFFMRKGADCLSKWVG 481
Cdd:cd19524     2 IAGQDLAKQALQEMVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAES-----NATFFNISAASLTSKYVG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 482 ESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIHSSIVSTLLALMDGLDNRGE--IVVIGATNRLDSIDPA-L 558
Cdd:cd19524    76 EGEKLVRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASRRLKTEFLIEFDGVQSNGDdrVLVMGATNRPQELDDAvL 155


                  ..
gi 2462574476 559 RR 560
Cdd:cd19524   156 RR 157
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 430-572 5.73e-27

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: 106.85  E-value: 5.73e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 430 KIQPPRGCLFYGPPGTGKTLVARALANECSqgDKKVAFFMRKGADCLSKWVGESERQ---LRLLFDQAYLMRPSIIFFDE 506
Cdd:cd00009    15 ELPPPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGhflVRLLFELAEKAKPGVLFIDE 92

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 507 IDGLAPvrssrqdQIHSSIVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNL 572
Cdd:cd00009    93 IDSLSR-------GAQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 402-569 3.25e-26

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: 104.97  E-value: 3.25e-26
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 402 IGGLSHHIHALKEMVVFPLLYPEIFEKFkIQPPRGCLFYGPPGTGKTLVARALANECSqgdkkVAFFMRKGADCLSKWVG 481
Cdd:cd19523     2 IAGLGALKAAIKEEVLWPLLRPDAFSGL-LRLPRSILLFGPRGTGKTLLGRCLASQLG-----ATFLRLRGSTLVAKWAG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 482 ESERQLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSRQDQIhSSIVSTLLALMDGLDNRGE--IVVIGATNRLDSIDPALR 559
Cdd:cd19523    76 EGEKILQASFLAARCRQPSVLFISDLDALLSSQDDEASPV-GRLQVELLAQLDGVLGSGEdgVLVVCTTSKPEEIDESLR 154

                         170
                  ....*....|
gi 2462574476 560 RpgRFDREFL 569
Cdd:cd19523   155 R--YFSKRLL 162
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 433-574 5.93e-19

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: 83.96  E-value: 5.93e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476  433 PPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFF------------MRKGADCLSKWVGESERQLRLLFDQAYLMRPS 500
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIYIdgedileevldqLLLIIVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 2462574476  501 IIFFDEIDGLAPVRSSRQDQihssiVSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPgRFDREFLFNLPD 574
Cdd:smart00382  81 VLILDEITSLLDAEQEALLL-----LLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 427-568 1.11e-16

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: 77.79  E-value: 1.11e-16
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 427 EKFKIQPPRGCLFYGPPGTGKTLVARALANECSQGDKKV---AFFmrkgadclSKWVGESERQLRLLFDQAYLMRPSIIF 503
Cdd:cd19507    24 SAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLdmgRLF--------GGLVGESESRLRQMIQTAEAIAPCVLW 95

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 504 FDEIDGLAPVRSSRQDQ-IHSSIVSTLLALMDglDNRGEIVVIGATNRLDSIDPALRRPGRFDREF 568
Cdd:cd19507    96 IDEIEKGFSNADSKGDSgTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQSLPPELLRKGRFDEIF 159
ycf46 CHL00195
Ycf46; Provisional
 434-613 2.61e-15

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 78.91  E-value: 2.61e-15
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 434 PRGCLFYGPPGTGKTLVARALANECSQGDKKVAFfmrkgADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPV 513
Cdd:CHL00195  259 PRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDV-----GKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSN 333

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 514 RSSRQDQIHSSIV-STLLALMDglDNRGEIVVIGATNRLDSIDPALRRPGRFDREFLFNLPDQKARKHILQIHTRDWNPK 592
Cdd:CHL00195  334 SESKGDSGTTNRVlATFITWLS--EKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPK 411

                         170       180
                  ....*....|....*....|....*
gi 2462574476 593 LSDAF----LGELAEKCVGTSISEA 613
Cdd:CHL00195  412 SWKKYdikkLSKLSNKFSGAEIEQS 436
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 435-566 1.10e-11

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: 63.14  E-value: 1.10e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 435 RGCLFYGPPGTGKTLVARALANEcsqgdkkvaffMRKGADCLS-KWVGESERQLRLLFDQAylMRPSIIFFDEID----- 508
Cdd:cd19510    24 RGYLLYGPPGTGKSSFIAALAGE-----------LDYDICDLNlSEVVLTDDRLNHLLNTA--PKQSIILLEDIDaafes 90

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2462574476 509 GLAPVRSSRQDQIHSSI-VSTLLALMDGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19510    91 REHNKKNPSAYGGLSRVtFSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDM 149
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 438-570 1.44e-11

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


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 67.18  E-value: 1.44e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANE-CSQG---DKKVAFFMRkgADCLSKWVGESERQLRLLFDQAYlmrPSIIFFDEIDGLAPV 513
Cdd:TIGR03922 316 LFAGPPGTGKTTIARVVAKIyCGLGvlrKPLVREVSR--ADLIGQYIGESEAKTNEIIDSAL---GGVLFLDEAYTLVET 390

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462574476 514 RSSRQDQIHSSIVSTLLALMDglDNRGEIVVIGATNRLD-----SIDPALRRpgRFDREFLF 570
Cdd:TIGR03922 391 GYGQKDPFGLEAIDTLLARME--NDRDRLVVIGAGYRKDldkflEVNEGLRS--RFTRVIEF 448
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 438-558 2.07e-10

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: 60.54  E-value: 2.07e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECSqgdKKVAFFMRKG-------ADCLSKWVGESERQLRLLFDQAYLM---RPSIIF--FD 505
Cdd:cd19508    56 LLHGPPGTGKTSLCKALAQKLS---IRLSSRYRYGqlieinsHSLFSKWFSESGKLVTKMFQKIQELiddKDALVFvlID 132

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2462574476 506 EIDGLAPVRSSRQDQIHSS----IVSTLLALMDGLDNRGEIVVIGATNRLDSIDPAL 558
Cdd:cd19508   133 EVESLAAARSASSSGTEPSdairVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAF 189
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 438-580 3.21e-08

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 53.35  E-value: 3.21e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANEcsQGDKKVAF-------FMRKGAdcLSKWVGESERQLR-----LLFDQAYLMRPSIIFFD 505
Cdd:pfam07724   7 LFLGPTGVGKTELAKALAEL--LFGDERALiridmseYMEEHS--VSRLIGAPPGYVGyeeggQLTEAVRRKPYSIVLID 82

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 506 EIdglapvrssrqDQIHSSIVSTLLALMDG---LDNRGE------IVVIGATNrLDSIDP--ALRRPGRFDREFLFNLPD 574
Cdd:pfam07724  83 EI-----------EKAHPGVQNDLLQILEGgtlTDKQGRtvdfknTLFIMTGN-FGSEKIsdASRLGDSPDYELLKEEVM 150


                  ....*.
gi 2462574476 575 QKARKH 580
Cdd:pfam07724 151 DLLKKG 156
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 433-566 2.55e-07

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. 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: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 50.84  E-value: 2.55e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 433 PPRGCLFYGPPGTGKTLVARALA------------NECSqgDKKVAFFMRKGADCLSKWvGESERQLRLLFDQAYLMRPS 500
Cdd:cd19505    11 PSKGILLIGSIETGRSYLIKSLAansyvplirislNKLL--YNKPDFGNDDWIDGMLIL-KESLHRLNLQFELAKAMSPC 87

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462574476 501 IIFFDEIDGLApVRSSRQDQIHSSivSTLLALM-------DGLDNRGEIVVIGATNRLDSIDPALRRPGRFDR 566
Cdd:cd19505    88 IIWIPNIHELN-VNRSTQNLEEDP--KLLLGLLlnylsrdFEKSSTRNILVIASTHIPQKVDPALIAPNRLDT 157
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 435-558 4.40e-07

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. 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: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 49.83  E-value: 4.40e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 435 RGCLFYGPPGTGKTLVARALANEC-------SQGDkkVAFFMRKGADCLSK---WVGESERQLrllfdqaylmrpsIIFF 504
Cdd:cd19512    23 RNILFYGPPGTGKTLFAKKLALHSgmdyaimTGGD--VAPMGREGVTAIHKvfdWANTSRRGL-------------LLFV 87

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462574476 505 DEIDGLAPVRSSrqDQIHSSIVSTLLALM--DGLDNRgEIVVIGATNRLDSIDPAL 558
Cdd:cd19512    88 DEADAFLRKRST--EKISEDLRAALNAFLyrTGEQSN-KFMLVLASNQPEQFDWAI 140
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 437-559 1.06e-06

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 51.24  E-value: 1.06e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 437 CLFYGPPGTGKTLVARALANECsqgdkKVAFFMrkgadcLSKwVGESERQLRLLFDQAYLMRPS----IIFFDEIDGLAp 512
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGAT-----DAPFEA------LSA-VTSGVKDLREVIEEARQRRSAgrrtILFIDEIHRFN- 105

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*....
gi 2462574476 513 vrSSRQDqihssivsTLLALMDgldnRGEIVVIGAT--NRLDSIDPALR 559
Cdd:PRK13342  106 --KAQQD--------ALLPHVE----DGTITLIGATteNPSFEVNPALL 140
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 438-548 3.59e-05

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 46.59  E-value: 3.59e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECsqgdkKVAFFMrkgadcLSKwVGESERQLRLLFDQAYLMR----PSIIFFDEIDglapv 513
Cdd:COG2256    53 ILWGPPGTGKTTLARLIANAT-----DAEFVA------LSA-VTSGVKDIREVIEEARERRaygrRTILFVDEIH----- 115

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 2462574476 514 R--SSRQDqihssivsTLLALMDgldnRGEIVVIGAT 548
Cdd:COG2256   116 RfnKAQQD--------ALLPHVE----DGTITLIGAT 140
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
431-513 4.14e-05

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 45.54  E-value: 4.14e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 431 IQPPRGCLFYGPPGTGKTLVARALANECSQGDKKVAFFmrkgadCLSKWVGE-----SERQLRLLFDQayLMRPSIIFFD 505
Cdd:COG1484    96 IERGENLILLGPPGTGKTHLAIALGHEACRAGYRVRFT------TAPDLVNElkearADGRLERLLKR--LAKVDLLILD 167


                  ....*...
gi 2462574476 506 EIdGLAPV 513
Cdd:COG1484   168 EL-GYLPL 174
RAD55 COG0467
RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];
434-572 2.31e-04

RecA-superfamily ATPase, KaiC/GvpD/RAD55 family [Signal transduction mechanisms];


Pssm-ID: 440235 [Multi-domain]  Cd Length: 221  Bit Score: 42.98  E-value: 2.31e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 434 PRGC--LFYGPPGTGKTLVARALANE-CSQGDkKVAFFMrkgadclskwVGESERQLR-----LLFD-QAYLMRPSIIFF 504
Cdd:COG0467    18 PRGSstLLSGPPGTGKTTLALQFLAEgLRRGE-KGLYVS----------FEESPEQLLrraesLGLDlEEYIESGLLRII 86

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462574476 505 DeidglapVRSSRQDQIHSSIVSTLLALMDGLDNRgeIVVIgatnrlDSIDP---ALRRPGRFdREFLFNL 572
Cdd:COG0467    87 D-------LSPEELGLDLEELLARLREAVEEFGAK--RVVI------DSLSGlllALPDPERL-REFLHRL 141
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 437-513 6.00e-04

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


Pssm-ID: 439516  Cd Length: 232  Bit Score: 41.69  E-value: 6.00e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 437 CLFYGPPGTGKTLVARALANE-CSQGdKKVAFFmrKGADCLSKWvGESERQLRL--LFDQayLMRPSIIFFDEIdGLAPV 513
Cdd:NF038214   93 VLLLGPPGTGKTHLAIALGYAaCRQG-YRVRFT--TAADLVEQL-AQARADGRLgrLLRR--LARYDLLIIDEL-GYLPF 165
PRK04195 PRK04195
replication factor C large subunit; Provisional
 430-510 6.56e-04

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 42.60  E-value: 6.56e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 430 KIQPPRGCLFYGPPGTGKTLVARALAN-------ECSQGDKkvaffmrKGADCLSKWVGESERQlRLLFDQAYlmrpSII 502
Cdd:PRK04195   35 KGKPKKALLLYGPPGVGKTSLAHALANdygweviELNASDQ-------RTADVIERVAGEAATS-GSLFGARR----KLI 102


                  ....*...
gi 2462574476 503 FFDEIDGL 510
Cdd:PRK04195  103 LLDEVDGI 110
PRK08116 PRK08116
hypothetical protein; Validated
 422-467 7.57e-04

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 41.93  E-value: 7.57e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 2462574476 422 YPEIFEKFKIQPpRGCLFYGPPGTGKTLVARALANECSQGDKKVAF 467
Cdd:PRK08116  103 YVKKFEEMKKEN-VGLLLWGSVGTGKTYLAACIANELIEKGVPVIF 147
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
432-559 8.79e-04

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


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 42.14  E-value: 8.79e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 432 QPPRGCLFYGPPGTGKTLVARA----LANECSQGDKKVAF-------------FMRKGADCLSKWVGESERQLRllFDQA 494
Cdd:COG1474    49 ERPSNVLIYGPTGTGKTAVAKYvleeLEEEAEERGVDVRVvyvncrqastryrVLSRILEELGSGEDIPSTGLS--TDEL 126

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462574476 495 YLM---------RPSIIFFDEIDGLapvrssrQDQIHSSIVSTLLALMDGLDNRGeIVVIGATNRL---DSIDPALR 559
Cdd:COG1474   127 FDRlyealderdGVLVVVLDEIDYL-------VDDEGDDLLYQLLRANEELEGAR-VGVIGISNDLeflENLDPRVK 195
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 434-582 1.77e-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: 1.77e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 434 PRGCLFYGPPGTGKTLVARALANecSQGDKKVAFFMRKGADCLSK---WVGESERQLRLLFDQAYLMRPSIIFFDEIDGL 510
Cdd:pfam13191  24 PPSVLLTGEAGTGKTTLLRELLR--ALERDGGYFLRGKCDENLPYsplLEALTREGLLRQLLDELESSLLEAWRAALLEA 101

                          90       100       110       120       130       140       150
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2462574476 511 APVRSSRQDQIHSSIVSTLLALMDGLDNRGEIVVIgATNRLDSIDPAlrrpgrfDREFLFNLPDQKARKHIL 582
Cdd:pfam13191 102 LAPVPELPGDLAERLLDLLLRLLDLLARGERPLVL-VLDDLQWADEA-------SLQLLAALLRLLESLPLL 165
DnaX COG2812
DNA polymerase III, gamma/tau subunits [Replication, recombination and repair];
438-462 2.58e-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: 2.58e-03
                          10        20
                  ....*....|....*....|....*...
gi 2462574476 438 LFYGPPGTGKTLVARALA---NeCSQGD 462
Cdd:COG2812    36 LFTGPRGVGKTTLARILAkalN-CENGP 62
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 438-508 2.72e-03

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_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: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 39.08  E-value: 2.72e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECSQGDKK-VAF----FMRKGADCLSK-----WVGESERQlrLLFDQAYLMRPSIIFFDEI 507
Cdd:cd19499    45 LFLGPTGVGKTELAKALAELLFGDEDNlIRIdmseYMEKHSVSRLIgappgYVGYTEGG--QLTEAVRRKPYSVVLLDEI 122


                  .
gi 2462574476 508 D 508
Cdd:cd19499   123 E 123
clpC CHL00095
Clp protease ATP binding subunit
 441-585 3.07e-03

Clp protease ATP binding subunit


Pssm-ID: 214361 [Multi-domain]  Cd Length: 821  Bit Score: 40.81  E-value: 3.07e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 441 GPPGTGKTLVARALA-----NECSQG--DKKVAffmrkgadCL--------SKWVGESERQLRLLFDQAYLMRPSIIFFD 505
Cdd:CHL00095  207 GEPGVGKTAIAEGLAqrivnRDVPDIleDKLVI--------TLdiglllagTKYRGEFEERLKRIFDEIQENNNIILVID 278

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 506 EIDGLAPVRSSRQDQIHSSIVSTLLAlmdgldnRGEIVVIGATNrLD------SIDPALRRpgRFDR------------E 567
Cdd:CHL00095  279 EVHTLIGAGAAEGAIDAANILKPALA-------RGELQCIGATT-LDeyrkhiEKDPALER--RFQPvyvgepsveetiE 348

                         170
                  ....*....|....*...
gi 2462574476 568 FLFNLPDQKARKHILQIH 585
Cdd:CHL00095  349 ILFGLRSRYEKHHNLSIS 366
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
437-457 3.09e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 40.11  E-value: 3.09e-03
                          10        20
                  ....*....|....*....|.
gi 2462574476 437 CLFYGPPGTGKTLVARALANE 457
Cdd:PRK00080   54 VLLYGPPGLGKTTLANIIANE 74
PRK13341 PRK13341
AAA family ATPase;
438-456 4.20e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 40.04  E-value: 4.20e-03
                          10
                  ....*....|....*....
gi 2462574476 438 LFYGPPGTGKTLVARALAN 456
Cdd:PRK13341   56 ILYGPPGVGKTTLARIIAN 74
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 438-588 4.24e-03

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX 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: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 39.12  E-value: 4.24e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECsqgdkKVAFFMrkgADCLS----KWVGESERQ--LRLL----FDQAYLMRpSIIFFDEI 507
Cdd:cd19497    54 LLIGPTGSGKTLLAQTLAKIL-----DVPFAI---ADATTlteaGYVGEDVENilLKLLqaadYDVERAQR-GIVYIDEI 124

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 508 DGLApvRSSRqdqiHSSI---VS------TLLALMDGldnrgeIVVigatnrldsidpalrrpgrfdreflfNLPDQKAR 578
Cdd:cd19497   125 DKIA--RKSE----NPSItrdVSgegvqqALLKILEG------TVA--------------------------NVPPQGGR 166

                         170
                  ....*....|....
gi 2462574476 579 KH----ILQIHTRD 588
Cdd:cd19497   167 KHpqqeFIQVDTTN 180
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
438-462 4.40e-03

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


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 39.57  E-value: 4.40e-03
                          10        20
                  ....*....|....*....|....*..
gi 2462574476 438 LFYGPPGTGKTLVARALANE--CSQGD 462
Cdd:COG0470    22 LLHGPPGIGKTTLALALARDllCENPE 48
rfc PRK00440
replication factor C small subunit; Reviewed
 438-457 5.78e-03

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 39.09  E-value: 5.78e-03
                          10        20
                  ....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANE 457
Cdd:PRK00440   42 LFAGPPGTGKTTAALALARE 61
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 437-608 6.33e-03

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


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 39.21  E-value: 6.33e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 437 CLFYGPPGTGKTLVARALANECsqgdkkvaffmrkGADCLSKWVGESERQLRLLFDQAYLMRPSIIFFDEIDGLAPvrss 516
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIANEM-------------GVNLKITSGPALEKPGDLAAILTNLEEGDVLFIDEIHRLSP---- 95

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 517 rqdqihsSIVSTLLALMDglDNRGEIVV------------------IGATNRLDSIDPALRrpGRFDREFLFNLPDQKAR 578
Cdd:TIGR00635  96 -------AVEELLYPAME--DFRLDIVIgkgpsarsvrldlppftlVGATTRAGMLTSPLR--DRFGIILRLEFYTVEEL 164

                         170       180       190
                  ....*....|....*....|....*....|
gi 2462574476 579 KHILQIHTRDWNPKLSDAFLGELAEKCVGT 608
Cdd:TIGR00635 165 AEIVSRSAGLLNVEIEPEAALEIARRSRGT 194
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 438-457 7.03e-03

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: 37.48  E-value: 7.03e-03
                          10        20
                  ....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANE 457
Cdd:pfam05496  37 LLYGPPGLGKTTLANIIANE 56
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 438-555 7.39e-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: 36.71  E-value: 7.39e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462574476 438 LFYGPPGTGKTLVARALANECSQGDKKVAFFMrkGADCLskwvgeserqLRLLFDQAYLMRPSIIFFDEIDGLAPVRSSR 517
Cdd:cd01120     2 LITGPPGSGKTTLLLQFAEQALLSDEPVIFIS--FLDTI----------LEAIEDLIEEKKLDIIIIDSLSSLARASQGD 69

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 2462574476 518 QDQIHSSIVSTLLALMdgldNRGEIVVIgATNRLDSID 555
Cdd:cd01120    70 RSSELLEDLAKLLRAA----RNTGITVI-ATIHSDKFD 102
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
435-457 8.08e-03

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 39.18  E-value: 8.08e-03
                          10        20
                  ....*....|....*....|...
gi 2462574476 435 RGCLFYGPPGTGKTLVARALANE 457
Cdd:COG1224    65 KGILIVGPPGTGKTALAVAIARE 87
TIGR02928 TIGR02928
orc1/cdc6 family replication initiation protein; Members of this protein family are found ...
 432-457 8.69e-03

orc1/cdc6 family replication initiation protein; Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 274354 [Multi-domain]  Cd Length: 365  Bit Score: 38.77  E-value: 8.69e-03
                          10        20
                  ....*....|....*....|....*.
gi 2462574476 432 QPPRGCLFYGPPGTGKTLVARALANE 457
Cdd:TIGR02928  38 SRPSNVFIYGKTGTGKTAVTKYVMKE 63
 
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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