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Conserved domains on  [gi|6324000|ref|NP_014070|]
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AAA family ATPase peroxin 6 [Saccharomyces cerevisiae S288C]

Protein Classification

PEX6 family protein( domain architecture ID 15674083)

PEX6 family protein such as peroxisomal ATPase PEX6, which is a component of the PEX1-PEX6 AAA ATPase complex, a protein dislocase complex that mediates the ATP-dependent extraction of the PEX5 receptor from peroxisomal membranes, an essential step for PEX5 recycling

Gene Ontology:  GO:0016887|GO:0005524
PubMed:  7493019|18466635|29321502|26066397

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 740-899 2.50e-107

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: 330.63  E-value: 2.50e-107
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQK 819
Cdd:cd19527    1 VKKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   820 AREAKPCVIFFDEIDSVAPKRGNQGDSGGVMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLRPGRFDKLLYL 899
Cdd:cd19527   81 ARDAKPCVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDGMSSSGQDVFVIGATNRPDLLDPALLRPGRFDKLLYL 160
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 541-1021 2.37e-96

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


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 321.47  E-value: 2.37e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     541 SPAVIFLAHLDSIlldvnANQDPEAI-KLQKSINFEMSKLLDDFtfKFPGTTFV-GSVNNIDNVPSSFRSHMRF--EILV 616
Cdd:TIGR01243  271 APSIIFIDEIDAI-----APKREEVTgEVEKRVVAQLLTLMDGL--KGRGRVIViGATNRPDALDPALRRPGRFdrEIVI 343

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     617 PVPSEAQRLRIfqwyLSSHELNRDVQQKVPVSYMDNISFsslssysaGLTPLDIKSIVETARMTATARFYQESK---KCG 693
Cdd:TIGR01243  344 RVPDKRARKEI----LKVHTRNMPLAEDVDLDKLAEVTH--------GFVGADLAALAKEAAMAALRRFIREGKinfEAE 411

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     694 WLPQSIL----ITQEDLSKATSKARNEFSVSIGApQIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGI 768
Cdd:TIGR01243  412 EIPAEVLkelkVTMKDFMEALKMVEPSAIREVLV-EVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKmGIRPPKGV 490

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     769 LFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSgG 848
Cdd:TIGR01243  491 LLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDT-S 569

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     849 VMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLI 928
Cdd:TIGR01243  570 VTDRIVNQLLTEMDGIQELSN-VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR-KEIFKIHTRSMPLAEDVDLE 647

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     929 ELAKLCPfNYTGADFYALCSDAMLNAMSRIARMVEKkvsqhneltgENIstrrwfdKIATKEDTK-VVVKMEDFLKAQEQ 1007
Cdd:TIGR01243  648 ELAEMTE-GYTGADIEAVCREAAMAALRESIGSPAK----------EKL-------EVGEEEFLKdLKVEMRHFLEALKK 709

                          490
                   ....*....|....
gi 6324000    1008 LTPSVSRAELNHYE 1021
Cdd:TIGR01243  710 VKPSVSKEDMLRYE 723
 
Name Accession Description Interval E-value
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 740-899 2.50e-107

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: 330.63  E-value: 2.50e-107
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQK 819
Cdd:cd19527    1 VKKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   820 AREAKPCVIFFDEIDSVAPKRGNQGDSGGVMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLRPGRFDKLLYL 899
Cdd:cd19527   81 ARDAKPCVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDGMSSSGQDVFVIGATNRPDLLDPALLRPGRFDKLLYL 160
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 702-1015 4.48e-100

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 317.72  E-value: 4.48e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   702 TQEDLSKATSKARNEFSVSIGAPQIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTL 780
Cdd:COG1222   48 LLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKyGIEPPKGVLLYGPPGTGKTL 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   781 MAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGVmDRIVSQLLAE 860
Cdd:COG1222  128 LAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEV-QRTVNQLLAE 206

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   861 LDGMSTDaDGVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTG 940
Cdd:COG1222  207 LDGFESR-GDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAR-EEILKIHLRDMPLADDVDLDKLAKLTE-GFSG 283

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6324000   941 ADFYALCSDAMLNAMSRIARMVEkkvsqhneltgenistrrwfdkiatkedtkvvvkMEDFLKAQEQLTPSVSRA 1015
Cdd:COG1222  284 ADLKAIVTEAGMFAIREGRDTVT----------------------------------MEDLEKAIEKVKKKTETA 324
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 541-1021 2.37e-96

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: 321.47  E-value: 2.37e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     541 SPAVIFLAHLDSIlldvnANQDPEAI-KLQKSINFEMSKLLDDFtfKFPGTTFV-GSVNNIDNVPSSFRSHMRF--EILV 616
Cdd:TIGR01243  271 APSIIFIDEIDAI-----APKREEVTgEVEKRVVAQLLTLMDGL--KGRGRVIViGATNRPDALDPALRRPGRFdrEIVI 343

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     617 PVPSEAQRLRIfqwyLSSHELNRDVQQKVPVSYMDNISFsslssysaGLTPLDIKSIVETARMTATARFYQESK---KCG 693
Cdd:TIGR01243  344 RVPDKRARKEI----LKVHTRNMPLAEDVDLDKLAEVTH--------GFVGADLAALAKEAAMAALRRFIREGKinfEAE 411

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     694 WLPQSIL----ITQEDLSKATSKARNEFSVSIGApQIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGI 768
Cdd:TIGR01243  412 EIPAEVLkelkVTMKDFMEALKMVEPSAIREVLV-EVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKmGIRPPKGV 490

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     769 LFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSgG 848
Cdd:TIGR01243  491 LLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDT-S 569

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     849 VMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLI 928
Cdd:TIGR01243  570 VTDRIVNQLLTEMDGIQELSN-VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR-KEIFKIHTRSMPLAEDVDLE 647

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     929 ELAKLCPfNYTGADFYALCSDAMLNAMSRIARMVEKkvsqhneltgENIstrrwfdKIATKEDTK-VVVKMEDFLKAQEQ 1007
Cdd:TIGR01243  648 ELAEMTE-GYTGADIEAVCREAAMAALRESIGSPAK----------EKL-------EVGEEEFLKdLKVEMRHFLEALKK 709

                          490
                   ....*....|....
gi 6324000    1008 LTPSVSRAELNHYE 1021
Cdd:TIGR01243  710 VKPSVSKEDMLRYE 723
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 727-1009 4.91e-73

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 247.05  E-value: 4.91e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:PRK03992  126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEvGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGgvmDRIVS----QLLAELDGMStDADGVFVIGATNRPD 881
Cdd:PRK03992  206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSG---DREVQrtlmQLLAEMDGFD-PRGNVKIIAATNRID 281

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    882 LLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSDAMLNAmsriarm 961
Cdd:PRK03992  282 ILDPAILRPGRFDRIIEVPLPDEEGR-LEILKIHTRKMNLADDVDLEELAELTE-GASGADLKAICTEAGMFA------- 352

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 6324000    962 vekkvsqhneltgenISTRRwfdkiatkedtkVVVKMEDFLKAQEQLT 1009
Cdd:PRK03992  353 ---------------IRDDR------------TEVTMEDFLKAIEKVM 373
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 725-1014 9.45e-68

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: 242.12  E-value: 9.45e-68
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     725 QIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLN 803
Cdd:TIGR01243  171 KVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHlGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMS 250

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     804 MYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRgnQGDSGGVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLL 883
Cdd:TIGR01243  251 KYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR--EEVTGEVEKRVVAQLLTLMDGLKGRGR-VIVIGATNRPDAL 327

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     884 DEALLRPGRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIELAKLCpFNYTGADFYALCSDAMLNAMSRIARmvE 963
Cdd:TIGR01243  328 DPALRRPGRFDREIVIRVPDKRARK-EILKVHTRNMPLAEDVDLDKLAEVT-HGFVGADLAALAKEAAMAALRRFIR--E 403

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|.
gi 6324000     964 KKVSQHNEltgenistrrwfdKIATKEDTKVVVKMEDFLKAQEQLTPSVSR 1014
Cdd:TIGR01243  404 GKINFEAE-------------EIPAEVLKELKVTMKDFMEALKMVEPSAIR 441
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 768-900 2.21e-54

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: 185.10  E-value: 2.21e-54
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSg 847
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDS- 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 6324000     848 gVMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLrpGRFDKLLYLG 900
Cdd:pfam00004   80 -ESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 764-903 4.54e-18

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: 82.04  E-value: 4.54e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000      764 KRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVK-----------------GPELLNMYIGESEANVRRVFQKAREAKPC 826
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqlllIIVGGKKASGSGELRLRLALALARKLKPD 80

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6324000      827 VIFFDEIDSVAPKRGNQGDSGGVMDRIVSQLLAEldgmstdaDGVFVIGATNRPDLLDEALLRPgRFDKLLYLGIPD 903
Cdd:smart00382   81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSE--------KNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 479-619 4.27e-17

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: 78.40  E-value: 4.27e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     479 LLHSTTNNVGKATMVRFASKYLGIHLLEIDCLSLTSnSRQLDSTSKIIGYIRAKCENvlpyaSPAVIFLAHLDSILLDVN 558
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVS-KYVGESEKRLRELFEAAKKL-----APCVIFIDEIDALAGSRG 74

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6324000     559 ANQDPEAIKLQKSINFEMskllDDFTFKFPGTTFVGSVNNIDNVPSSFRShmRFEILVPVP 619
Cdd:pfam00004   75 SGGDSESRRVVNQLLTEL----DGFTSSNSKVIVIAATNRPDKLDPALLG--RFDRIIEFP 129
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 488-709 4.04e-10

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: 63.01  E-value: 4.04e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   488 GKATMVRFASKYLGIHLLEIDCLSLTS--------NsrqldsTSKIIGYIRAkcenvlpyASPAVIFLAHLDSILLDVNA 559
Cdd:COG0464  203 GKTLLARALAGELGLPLIEVDLSDLVSkyvgetekN------LREVFDKARG--------LAPCVLFIDEADALAGKRGE 268

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   560 NQDPEAIKLqksINfEMSKLLDDFTFKFPgttFVGSVNNIDNVPSSFRSHMRFEILVPVPSEAQRLRIFQWYLSSHELNR 639
Cdd:COG0464  269 VGDGVGRRV---VN-TLLTEMEELRSDVV---VIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEIFRIHLRKRPLDE 341

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   640 DVQqkvpvsyMDNIsfsslSSYSAGLTPLDIKSIVETARMTAtARFYQESkkcgwlpqsilITQEDLSKA 709
Cdd:COG0464  342 DVD-------LEEL-----AEATEGLSGADIRNVVRRAALQA-LRLGREP-----------VTTEDLLEA 387
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 468-618 9.76e-03

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: 38.03  E-value: 9.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   468 SQRGITLNASVLLHSTTNnVGKATMVRFASKYLGIHLLEIDCLSLTSnsrqldstsKIIGYIRAKCENVLPYA---SPAV 544
Cdd:cd19481   19 RRYGLGLPKGILLYGPPG-TGKTLLAKALAGELGLPLIVVKLSSLLS---------KYVGESEKNLRKIFERArrlAPCI 88

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6324000   545 IFLAHLDSILLDVNANQDPEAiklQKSINFEMSKLLDDFTFKfPGTTFVGSVNNIDNVPSSFRSHMRFEILVPV 618
Cdd:cd19481   89 LFIDEIDAIGRKRDSSGESGE---LRRVLNQLLTELDGVNSR-SKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
 
Name Accession Description Interval E-value
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 740-899 2.50e-107

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: 330.63  E-value: 2.50e-107
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQK 819
Cdd:cd19527    1 VKKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   820 AREAKPCVIFFDEIDSVAPKRGNQGDSGGVMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLRPGRFDKLLYL 899
Cdd:cd19527   81 ARDAKPCVIFFDELDSLAPSRGNSGDSGGVMDRVVSQLLAELDGMSSSGQDVFVIGATNRPDLLDPALLRPGRFDKLLYL 160
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 702-1015 4.48e-100

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 317.72  E-value: 4.48e-100
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   702 TQEDLSKATSKARNEFSVSIGAPQIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTL 780
Cdd:COG1222   48 LLLNDANLTQKRLGTPRGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKyGIEPPKGVLLYGPPGTGKTL 127

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   781 MAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGVmDRIVSQLLAE 860
Cdd:COG1222  128 LAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDGTSGEV-QRTVNQLLAE 206

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   861 LDGMSTDaDGVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTG 940
Cdd:COG1222  207 LDGFESR-GDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAR-EEILKIHLRDMPLADDVDLDKLAKLTE-GFSG 283

                        250       260       270       280       290       300       310
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6324000   941 ADFYALCSDAMLNAMSRIARMVEkkvsqhneltgenistrrwfdkiatkedtkvvvkMEDFLKAQEQLTPSVSRA 1015
Cdd:COG1222  284 ADLKAIVTEAGMFAIREGRDTVT----------------------------------MEDLEKAIEKVKKKTETA 324
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 541-1021 2.37e-96

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: 321.47  E-value: 2.37e-96
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     541 SPAVIFLAHLDSIlldvnANQDPEAI-KLQKSINFEMSKLLDDFtfKFPGTTFV-GSVNNIDNVPSSFRSHMRF--EILV 616
Cdd:TIGR01243  271 APSIIFIDEIDAI-----APKREEVTgEVEKRVVAQLLTLMDGL--KGRGRVIViGATNRPDALDPALRRPGRFdrEIVI 343

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     617 PVPSEAQRLRIfqwyLSSHELNRDVQQKVPVSYMDNISFsslssysaGLTPLDIKSIVETARMTATARFYQESK---KCG 693
Cdd:TIGR01243  344 RVPDKRARKEI----LKVHTRNMPLAEDVDLDKLAEVTH--------GFVGADLAALAKEAAMAALRRFIREGKinfEAE 411

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     694 WLPQSIL----ITQEDLSKATSKARNEFSVSIGApQIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGI 768
Cdd:TIGR01243  412 EIPAEVLkelkVTMKDFMEALKMVEPSAIREVLV-EVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKmGIRPPKGV 490

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     769 LFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSgG 848
Cdd:TIGR01243  491 LLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDT-S 569

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     849 VMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLI 928
Cdd:TIGR01243  570 VTDRIVNQLLTEMDGIQELSN-VVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR-KEIFKIHTRSMPLAEDVDLE 647

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     929 ELAKLCPfNYTGADFYALCSDAMLNAMSRIARMVEKkvsqhneltgENIstrrwfdKIATKEDTK-VVVKMEDFLKAQEQ 1007
Cdd:TIGR01243  648 ELAEMTE-GYTGADIEAVCREAAMAALRESIGSPAK----------EKL-------EVGEEEFLKdLKVEMRHFLEALKK 709

                          490
                   ....*....|....
gi 6324000    1008 LTPSVSRAELNHYE 1021
Cdd:TIGR01243  710 VKPSVSKEDMLRYE 723
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 740-899 3.71e-88

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: 279.55  E-value: 3.71e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQ 818
Cdd:cd19511    1 VKRELKEAVEWPLKHPDAFKRlGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   819 KAREAKPCVIFFDEIDSVAPKRGNQgDSGGVMDRIVSQLLAELDGMSTdADGVFVIGATNRPDLLDEALLRPGRFDKLLY 898
Cdd:cd19511   81 KARQAAPCIIFFDEIDSLAPRRGQS-DSSGVTDRVVSQLLTELDGIES-LKGVVVIAATNRPDMIDPALLRPGRLDKLIY 158


                 .
gi 6324000   899 L 899
Cdd:cd19511  159 V 159
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 725-965 8.15e-80

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: 266.01  E-value: 8.15e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   725 QIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLN 803
Cdd:COG0464  150 ELREAILDDLGGLEEVKEELRELVALPLKRPELREEyGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVS 229

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   804 MYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDsgGVMDRIVSQLLAELDGMStdaDGVFVIGATNRPDLL 883
Cdd:COG0464  230 KYVGETEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGD--GVGRRVVNTLLTEMEELR---SDVVVIAATNRPDLL 304

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   884 DEALLRpgRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPFnYTGADFYALCSDAMLNAMSRIARMVE 963
Cdd:COG0464  305 DPALLR--RFDEIIFFPLPDAEER-LEIFRIHLRKRPLDEDVDLEELAEATEG-LSGADIRNVVRRAALQALRLGREPVT 380


                 ..
gi 6324000   964 KK 965
Cdd:COG0464  381 TE 382
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 740-899 3.45e-74

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: 241.65  E-value: 3.45e-74
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQ 818
Cdd:cd19528    1 VKRELQELVQYPVEHPDKFLKfGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFD 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   819 KAREAKPCVIFFDEIDSVAPKRG-NQGDSGGVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEALLRPGRFDKLL 897
Cdd:cd19528   81 KARAAAPCVLFFDELDSIAKARGgNIGDAGGAADRVINQILTEMDGMNTKKN-VFIIGATNRPDIIDPAILRPGRLDQLI 159


                 ..
gi 6324000   898 YL 899
Cdd:cd19528  160 YI 161
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 727-1009 4.91e-73

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 247.05  E-value: 4.91e-73
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:PRK03992  126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEvGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGgvmDRIVS----QLLAELDGMStDADGVFVIGATNRPD 881
Cdd:PRK03992  206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSG---DREVQrtlmQLLAEMDGFD-PRGNVKIIAATNRID 281

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    882 LLDEALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSDAMLNAmsriarm 961
Cdd:PRK03992  282 ILDPAILRPGRFDRIIEVPLPDEEGR-LEILKIHTRKMNLADDVDLEELAELTE-GASGADLKAICTEAGMFA------- 352

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|....*...
gi 6324000    962 vekkvsqhneltgenISTRRwfdkiatkedtkVVVKMEDFLKAQEQLT 1009
Cdd:PRK03992  353 ---------------IRDDR------------TEVTMEDFLKAIEKVM 373
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 740-899 8.01e-72

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: 235.08  E-value: 8.01e-72
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFT-SGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQ 818
Cdd:cd19529    1 VKQELKEAVEWPLLKPEVFKrLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   819 KAREAKPCVIFFDEIDSVAPKRGNQGDSgGVMDRIVSQLLAELDGMStDADGVFVIGATNRPDLLDEALLRPGRFDKLLY 898
Cdd:cd19529   81 KARQVAPCVIFFDEIDSIAPRRGTTGDS-GVTERVVNQLLTELDGLE-EMNGVVVIAATNRPDIIDPALLRAGRFDRLIY 158


                 .
gi 6324000   899 L 899
Cdd:cd19529  159 I 159
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 740-898 2.88e-71

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: 233.47  E-value: 2.88e-71
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELF-TSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQ 818
Cdd:cd19526    1 VKKALEETIEWPSKYPKIFaSSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   819 KAREAKPCVIFFDEIDSVAPKRGNqgDSGGVMDRIVSQLLAELDGMSTdADGVFVIGATNRPDLLDEALLRPGRFDKLLY 898
Cdd:cd19526   81 RAQSAKPCILFFDEFDSIAPKRGH--DSTGVTDRVVNQLLTQLDGVEG-LDGVYVLAATSRPDLIDPALLRPGRLDKLVY 157
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 733-899 8.83e-68

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: 224.09  E-value: 8.83e-68
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEA 811
Cdd:cd19503    1 DIGGLDEQIASLKELIELPLKYPELFRAlGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   812 NVRRVFQKAREAKPCVIFFDEIDSVAPKRGNqgDSGGVMDRIVSQLLAELDGMSTDaDGVFVIGATNRPDLLDEALLRPG 891
Cdd:cd19503   81 NLREIFEEARSHAPSIIFIDEIDALAPKREE--DQREVERRVVAQLLTLMDGMSSR-GKVVVIAATNRPDAIDPALRRPG 157


                 ....*...
gi 6324000   892 RFDKLLYL 899
Cdd:cd19503  158 RFDREVEI 165
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 725-1014 9.45e-68

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: 242.12  E-value: 9.45e-68
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     725 QIPNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLN 803
Cdd:TIGR01243  171 KVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHlGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMS 250

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     804 MYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRgnQGDSGGVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLL 883
Cdd:TIGR01243  251 KYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR--EEVTGEVEKRVVAQLLTLMDGLKGRGR-VIVIGATNRPDAL 327

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     884 DEALLRPGRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIELAKLCpFNYTGADFYALCSDAMLNAMSRIARmvE 963
Cdd:TIGR01243  328 DPALRRPGRFDREIVIRVPDKRARK-EILKVHTRNMPLAEDVDLDKLAEVT-HGFVGADLAALAKEAAMAALRRFIR--E 403

                          250       260       270       280       290
                   ....*....|....*....|....*....|....*....|....*....|.
gi 6324000     964 KKVSQHNEltgenistrrwfdKIATKEDTKVVVKMEDFLKAQEQLTPSVSR 1014
Cdd:TIGR01243  404 GKINFEAE-------------EIPAEVLKELKVTMKDFMEALKMVEPSAIR 441
26Sp45 TIGR01242
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ...
 727-962 1.34e-67

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: 231.23  E-value: 1.34e-67
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:TIGR01242  117 PNVSYEDIGGLEEQIREIREAVELPLKHPELFEEvGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKY 196

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGG-VMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLD 884
Cdd:TIGR01242  197 IGEGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDrEVQRTLMQLLAELDGFDPRGN-VKVIAATNRPDILD 275

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6324000     885 EALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSDAMLNAMSRIARMV 962
Cdd:TIGR01242  276 PALLRPGRFDRIIEVPLPDFEGR-LEILKIHTRKMKLAEDVDLEAIAKMTE-GASGADLKAICTEAGMFAIREERDYV 351
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 737-899 5.77e-64

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: 213.50  E-value: 5.77e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   737 IDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRR 815
Cdd:cd19530    1 LDHVREELTMSILRPIKRPDIYKAlGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   816 VFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGVmdRIVSQLLAELDGMStDADGVFVIGATNRPDLLDEALLRPGRFDK 895
Cdd:cd19530   81 VFQRARASAPCVIFFDEVDALVPKRGDGGSWASE--RVVNQLLTEMDGLE-ERSNVFVIAATNRPDIIDPAMLRPGRLDK 157


                 ....
gi 6324000   896 LLYL 899
Cdd:cd19530  158 TLYV 161
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 740-899 2.08e-62

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: 208.68  E-value: 2.08e-62
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   740 VKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQK 819
Cdd:cd19481    1 LKASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFER 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   820 AREAKPCVIFFDEIDSVAPKRGNQGDSgGVMDRIVSQLLAELDGMSTDaDGVFVIGATNRPDLLDEALLRPGRFDKLLYL 899
Cdd:cd19481   81 ARRLAPCILFIDEIDAIGRKRDSSGES-GELRRVLNQLLTELDGVNSR-SKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 727-969 9.79e-61

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: 216.00  E-value: 9.79e-61
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     727 PNVTWDDIGGIDFVKGEILDTIDMpLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:TIGR01241   50 PKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKlGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 128

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNqGDSGG--VMDRIVSQLLAELDGMSTdADGVFVIGATNRPDLL 883
Cdd:TIGR01241  129 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGA-GLGGGndEREQTLNQLLVEMDGFGT-NTGVIVIAATNRPDVL 206

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     884 DEALLRPGRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSDAMLNAmsriARMVE 963
Cdd:TIGR01241  207 DPALLRPGRFDRQVVVDLPDIKGRE-EILKVHAKNKKLAPDVDLKAVARRTP-GFSGADLANLLNEAALLA----ARKNK 280


                   ....*.
gi 6324000     964 KKVSQH 969
Cdd:TIGR01241  281 TEITMN 286
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 733-900 2.51e-59

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: 200.36  E-value: 2.51e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEA 811
Cdd:cd19519    1 DIGGCRKQLAQIREMVELPLRHPELFKAiGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   812 NVRRVFQKAREAKPCVIFFDEIDSVAPKRgnQGDSGGVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEALLRPG 891
Cdd:cd19519   81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKR--EKTHGEVERRIVSQLLTLMDGLKQRAH-VIVMAATNRPNSIDPALRRFG 157


                 ....*....
gi 6324000   892 RFDKLLYLG 900
Cdd:cd19519  158 RFDREIDIG 166
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 730-897 4.16e-59

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: 200.26  E-value: 4.16e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   730 TWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGE 808
Cdd:cd19502    1 TYEDIGGLDEQIREIREVVELPLKHPELFEElGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   809 SEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGV-MDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEAL 887
Cdd:cd19502   81 GARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDReVQRTMLELLNQLDGFDPRGN-IKVIMATNRPDILDPAL 159

                        170
                 ....*....|
gi 6324000   888 LRPGRFDKLL 897
Cdd:cd19502  160 LRPGRFDRKI 169
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 729-895 2.80e-57

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: 194.76  E-value: 2.80e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   729 VTWDDIGGIDFVKGEILDTIDMpLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIG 807
Cdd:cd19501    1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKlGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   808 ESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGN-QGDSGGVMDRIVSQLLAELDGMSTDaDGVFVIGATNRPDLLDEA 886
Cdd:cd19501   80 VGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAgLGGGHDEREQTLNQLLVEMDGFESN-TGVIVIAATNRPDVLDPA 158


                 ....*....
gi 6324000   887 LLRPGRFDK 895
Cdd:cd19501  159 LLRPGRFDR 167
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 768-900 2.21e-54

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: 185.10  E-value: 2.21e-54
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSg 847
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDS- 79

                           90       100       110       120       130
                   ....*....|....*....|....*....|....*....|....*....|...
gi 6324000     848 gVMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLrpGRFDKLLYLG 900
Cdd:pfam00004   80 -ESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
ftsH CHL00176
cell division protein; Validated
 729-968 4.04e-53

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 197.58  E-value: 4.04e-53
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    729 VTWDDIGGIDFVKGEiLDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIG 807
Cdd:CHL00176  180 ITFRDIAGIEEAKEE-FEEVVSFLKKPERFTAvGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    808 ESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGnQGDSGGVMDR--IVSQLLAELDGMSTDAdGVFVIGATNRPDLLDE 885
Cdd:CHL00176  259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRG-AGIGGGNDEReqTLNQLLTEMDGFKGNK-GVIVIAATNRVDILDA 336

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    886 ALLRPGRFDKLLYLGIPDTDTKqLNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSD-AMLNAMSRIARMVEK 964
Cdd:CHL00176  337 ALLRPGRFDRQITVSLPDREGR-LDILKVHARNKKLSPDVSLELIARRTP-GFSGADLANLLNEaAILTARRKKATITMK 414


                  ....
gi 6324000    965 KVSQ 968
Cdd:CHL00176  415 EIDT 418
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 727-957 5.97e-52

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 188.05  E-value: 5.97e-52
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:PTZ00454  140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQiGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKY 219

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGN-QGDSGGVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLD 884
Cdd:PTZ00454  220 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDaQTGADREVQRILLELLNQMDGFDQTTN-VKVIMATNRADTLD 298

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6324000    885 EALLRPGRFDKLLYLGIPDTDTKQLnILEALTRKFVLDNDVKLIELAKLcPFNYTGADFYALCSDAMLNAMSR 957
Cdd:PTZ00454  299 PALLRPGRLDRKIEFPLPDRRQKRL-IFQTITSKMNLSEEVDLEDFVSR-PEKISAADIAAICQEAGMQAVRK 369
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
711-968 1.18e-51

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 191.79  E-value: 1.18e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   711 SKARnefsvsIGAPQIPNVTWDDIGGIDFVKGEILDTIDMpLKHPELFTS-GMK--KrsGILFYGPPGTGKTLMAKAIAT 787
Cdd:COG0465  127 SKAK------LYDEDKPKVTFDDVAGVDEAKEELQEIVDF-LKDPEKFTRlGAKipK--GVLLVGPPGTGKTLLAKAVAG 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   788 NFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNqGDSGGVMDR--IVSQLLAELDGMS 865
Cdd:COG0465  198 EAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGA-GLGGGHDEReqTLNQLLVEMDGFE 276

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   866 TDaDGVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDtdtkqLN----ILEALTRKFVLDNDVKLIELAKLCP-FnyTG 940
Cdd:COG0465  277 GN-EGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPD-----VKgreaILKVHARKKPLAPDVDLEVIARRTPgF--SG 348

                        250       260
                 ....*....|....*....|....*...
gi 6324000   941 ADFYALCSDAMLNAmsriARMVEKKVSQ 968
Cdd:COG0465  349 ADLANLVNEAALLA----ARRNKKAVTM 372
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 733-895 2.57e-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: 177.98  E-value: 2.57e-51
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELF-TSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEA 811
Cdd:cd19518    1 DIGGMDSTLKELCELLIHPILPPEYFqHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEE 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   812 NVRRVFQKAREAKPCVIFFDEIDSVAPKRgnQGDSGGVMDRIVSQLLAELDGM---STDADGVFVIGATNRPDLLDEALL 888
Cdd:cd19518   81 KIRELFDQAISNAPCIVFIDEIDAITPKR--ESAQREMERRIVSQLLTCMDELnneKTAGGPVLVIGATNRPDSLDPALR 158


                 ....*..
gi 6324000   889 RPGRFDK 895
Cdd:cd19518  159 RAGRFDR 165
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 727-968 1.19e-50

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 185.36  E-value: 1.19e-50
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMY 805
Cdd:PTZ00361  178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDiGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKY 257

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    806 IGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRgNQGDSGGVMD--RIVSQLLAELDGMSTDADgVFVIGATNRPDLL 883
Cdd:PTZ00361  258 LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKR-YDATSGGEKEiqRTMLELLNQLDGFDSRGD-VKVIMATNRIESL 335

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    884 DEALLRPGRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIEL--AKlcpFNYTGADFYALCSDAMLNAMsRIARM 961
Cdd:PTZ00361  336 DPALIRPGRIDRKIEFPNPDEKTKR-RIFEIHTSKMTLAEDVDLEEFimAK---DELSGADIKAICTEAGLLAL-RERRM 410


                  ....*..
gi 6324000    962 vekKVSQ 968
Cdd:PTZ00361  411 ---KVTQ 414
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
706-963 2.05e-49

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 186.39  E-value: 2.05e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    706 LSKATSKARnefsvSIGAPQIpNVTWDDIGGIDFVKGEILDTIDMpLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKA 784
Cdd:PRK10733  132 MSFGKSKAR-----MLTEDQI-KTTFADVAGCDEAKEEVAELVEY-LREPSRFQKlGGKIPKGVLMVGPPGTGKTLLAKA 204

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    785 IATNFSLNFFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGnQGDSGGVMDR--IVSQLLAELD 862
Cdd:PRK10733  205 IAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG-AGLGGGHDEReqTLNQMLVEMD 283

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    863 GMSTDaDGVFVIGATNRPDLLDEALLRPGRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIELAKLCPfNYTGAD 942
Cdd:PRK10733  284 GFEGN-EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGRE-QILKVHMRRVPLAPDIDAAIIARGTP-GFSGAD 360

                         250       260
                  ....*....|....*....|....
gi 6324000    943 FYALCSDAMLNAM---SRIARMVE 963
Cdd:PRK10733  361 LANLVNEAALFAArgnKRVVSMVE 384
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
731-975 3.24e-49

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 174.69  E-value: 3.24e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   731 WDDIGGIDFVKGEILDTID--MPLKHPELFtsGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGE 808
Cdd:COG1223    1 LDDVVGQEEAKKKLKLIIKelRRRENLRKF--GLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGE 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   809 SEANVRRVFQKAREAkPCVIFFDEIDSVAPKRGNQGDSGGvMDRIVSQLLAELDGMStdaDGVFVIGATNRPDLLDEALL 888
Cdd:COG1223   79 TARNLRKLFDFARRA-PCVIFFDEFDAIAKDRGDQNDVGE-VKRVVNALLQELDGLP---SGSVVIAATNHPELLDSALW 153

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   889 RpgRFDKLLYLGIPDTDTKQlNILEALTRKFVLDNDVKLIELAKLCPfNYTGADFYALCSDAM----LNAMSRIAR-MVE 963
Cdd:COG1223  154 R--RFDEVIEFPLPDKEERK-EILELNLKKFPLPFELDLKKLAKKLE-GLSGADIEKVLKTALkkaiLEDREKVTKeDLE 229

                        250
                 ....*....|..
gi 6324000   964 KKVSQHNELTGE 975
Cdd:COG1223  230 EALKQRKERKKE 241
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 727-899 4.47e-49

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: 171.58  E-value: 4.47e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYI 806
Cdd:cd19521    2 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM 81

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   807 GESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGnQGDSGGVMdRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEA 886
Cdd:cd19521   82 GESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRG-EGESEASR-RIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSA 159

                        170
                 ....*....|...
gi 6324000   887 LLRpgRFDKLLYL 899
Cdd:cd19521  160 IRR--RFEKRIYI 170
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 734-899 4.81e-49

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: 171.38  E-value: 4.81e-49
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   734 IGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEANV 813
Cdd:cd19509    1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   814 RRVFQKAREAKPCVIFFDEIDSVAPKRGnQGDSGGVMdRIVSQLLAELDGMSTDA-DGVFVIGATNRPDLLDEALLRpgR 892
Cdd:cd19509   81 RALFALARELQPSIIFIDEIDSLLSERG-SGEHEASR-RVKTEFLVQMDGVLNKPeDRVLVLGATNRPWELDEAFLR--R 156


                 ....*..
gi 6324000   893 FDKLLYL 899
Cdd:cd19509  157 FEKRIYI 163
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 733-898 1.34e-43

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: 156.13  E-value: 1.34e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFS-----LNFFSVKGPELLNMYI 806
Cdd:cd19517    1 DIGGLSHYINQLKEMVFFPLLYPEVFAKfKITPPRGVLFHGPPGTGKTLMARALAAECSkggqkVSFFMRKGADCLSKWV 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   807 GESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSggVMDRIVSQLLAELDGMSTDADgVFVIGATNRPDLLDEA 886
Cdd:cd19517   81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQ--IHASIVSTLLALMDGLDNRGQ-VVVIGATNRPDALDPA 157

                        170
                 ....*....|..
gi 6324000   887 LLRPGRFDKLLY 898
Cdd:cd19517  158 LRRPGRFDREFY 169
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 761-894 2.68e-43

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: 155.34  E-value: 2.68e-43
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   761 GMKKRSGILFYGPPGTGKTLMAKAIATnfSLNFFS---VKGPELLNMYIGESEANVRRVFQKA-REAKPC-------VIF 829
Cdd:cd19504   31 GCKHVKGILLYGPPGTGKTLMARQIGK--MLNAREpkiVNGPEILNKYVGESEANIRKLFADAeEEQRRLgansglhIII 108

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 6324000   830 FDEIDSVAPKRGNQGDSGGVMDRIVSQLLAELDGMSTdADGVFVIGATNRPDLLDEALLRPGRFD 894
Cdd:cd19504  109 FDEIDAICKQRGSMAGSTGVHDTVVNQLLSKIDGVEQ-LNNILVIGMTNRKDLIDEALLRPGRLE 172
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 727-899 1.78e-40

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: 147.44  E-value: 1.78e-40
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   727 PNVTWDDIGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYI 806
Cdd:cd19525   17 PPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWV 96

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   807 GESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGvmDRIVSQLLAELDGMSTDADG-VFVIGATNRPDLLDE 885
Cdd:cd19525   97 GEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESS--RRIKTEFLVQLDGATTSSEDrILVVGATNRPQEIDE 174

                        170
                 ....*....|....
gi 6324000   886 ALLRpgRFDKLLYL 899
Cdd:cd19525  175 AARR--RLVKRLYI 186
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 733-893 2.50e-39

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: 143.72  E-value: 2.50e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTSG--MKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESE 810
Cdd:cd19520    1 DIGGLDEVITELKELVILPLQRPELFDNSrlLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   811 ANVRRVFQKAREAKPCVIFFDEIDSVAPKRgNQGDSgGVMDRIVSQLLAELDGMSTDA-DGVFVIGATNRPDLLDEALLR 889
Cdd:cd19520   81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQR-SSTDH-EATAMMKAEFMSLWDGLSTDGnCRVIVMGATNRPQDLDEAILR 158


                 ....*.
gi 6324000   890 --PGRF 893
Cdd:cd19520  159 rmPKRF 164
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 733-899 1.08e-37

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: 138.83  E-value: 1.08e-37
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEAN 812
Cdd:cd19524    1 DIAGQDLAKQALQEMVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   813 VRRVFQKAREAKPCVIFFDEIDSV-APKRGNQGDSGgvmDRIVSQLLAELDGMSTDADG-VFVIGATNRPDLLDEALLRp 890
Cdd:cd19524   81 VRALFAVARELQPSIIFIDEVDSLlSERSEGEHEAS---RRLKTEFLIEFDGVQSNGDDrVLVMGATNRPQELDDAVLR- 156


                 ....*....
gi 6324000   891 gRFDKLLYL 899
Cdd:cd19524  157 -RFTKRVYV 164
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 733-899 5.14e-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: 128.56  E-value: 5.14e-34
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEAN 812
Cdd:cd19522    1 DIADLEEAKKLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEKL 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   813 VRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGVMdRIVSQLLAELDGMSTDADG------VFVIGATNRPDLLDEA 886
Cdd:cd19522   81 VRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEASR-RVKSELLVQMDGVGGASENddpskmVMVLAATNFPWDIDEA 159

                        170
                 ....*....|...
gi 6324000   887 LLRpgRFDKLLYL 899
Cdd:cd19522  160 LRR--RLEKRIYI 170
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 733-899 4.06e-29

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: 114.21  E-value: 4.06e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEILDTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEAN 812
Cdd:cd19523    1 DIAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKI 80

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   813 VRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSGGvmdRIVSQLLAELDG-MSTDADGVFVIGATNRPDLLDEALLRpg 891
Cdd:cd19523   81 LQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG---RLQVELLAQLDGvLGSGEDGVLVVCTTSKPEEIDESLRR-- 155


                 ....*...
gi 6324000   892 RFDKLLYL 899
Cdd:cd19523  156 YFSKRLLV 163
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 763-900 1.43e-26

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: 106.46  E-value: 1.43e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   763 KKRSGILFYGPPGTGKTLMAKAIA---TNFSLNFFSVKGPELLNMYIGESEAN---VRRVFQKAREAKPCVIFFDEIDSV 836
Cdd:cd00009   17 PPPKNLLLYGPPGTGKTTLARAIAnelFRPGAPFLYLNASDLLEGLVVAELFGhflVRLLFELAEKAKPGVLFIDEIDSL 96

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6324000   837 APKrgnqgdsggvMDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALLRPGRFDKLLYLG 900
Cdd:cd00009   97 SRG----------AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP 150
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 733-899 3.76e-24

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: 99.75  E-value: 3.76e-24
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   733 DIGGIDFVKGEIldTIDMPLKHPELFTSGMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGESEAN 812
Cdd:cd19507    1 DVGGLDNLKDWL--KKRKAAFSKQASAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESESR 78

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   813 VRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSgGVMDRIVSQLLAeldGMSTDADGVFVIGATNRPDLLDEALLRPGR 892
Cdd:cd19507   79 LRQMIQTAEAIAPCVLWIDEIEKGFSNADSKGDS-GTSSRVLGTFLT---WLQEKKKPVFVVATANNVQSLPPELLRKGR 154


                 ....*..
gi 6324000   893 FDKLLYL 899
Cdd:cd19507  155 FDEIFFV 161
ycf46 CHL00195
Ycf46; Provisional
 727-956 3.69e-22

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 101.25  E-value: 3.69e-22
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    727 PNVTWDDIGGIDFVKgeildtiDMPLKHPELFTS-----GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPEL 801
Cdd:CHL00195  223 VNEKISDIGGLDNLK-------DWLKKRSTSFSKqasnyGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKL 295

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    802 LNMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVAPKRGNQGDSgGVMDRIVSQLLAELdgmSTDADGVFVIGATNRPD 881
Cdd:CHL00195  296 FGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDS-GTTNRVLATFITWL---SEKKSPVFVVATANNID 371

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 6324000    882 LLDEALLRPGRFDKLLYLGIPDTDTKQLnILEALTRKFVLDN----DVKLieLAKLCPfNYTGADFYALCSDAMLNAMS 956
Cdd:CHL00195  372 LLPLEILRKGRFDEIFFLDLPSLEEREK-IFKIHLQKFRPKSwkkyDIKK--LSKLSN-KFSGAEIEQSIIEAMYIAFY 446
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 764-903 4.54e-18

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: 82.04  E-value: 4.54e-18
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000      764 KRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVK-----------------GPELLNMYIGESEANVRRVFQKAREAKPC 826
Cdd:smart00382    1 PGEVILIVGPPGSGKTTLARALARELGPPGGGVIyidgedileevldqlllIIVGGKKASGSGELRLRLALALARKLKPD 80

                            90       100       110       120       130       140       150
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6324000      827 VIFFDEIDSVAPKRGNQGDSGGVMDRIVSQLLAEldgmstdaDGVFVIGATNRPDLLDEALLRPgRFDKLLYLGIPD 903
Cdd:smart00382   81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSE--------KNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 479-619 4.27e-17

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: 78.40  E-value: 4.27e-17
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     479 LLHSTTNNVGKATMVRFASKYLGIHLLEIDCLSLTSnSRQLDSTSKIIGYIRAKCENvlpyaSPAVIFLAHLDSILLDVN 558
Cdd:pfam00004    1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVS-KYVGESEKRLRELFEAAKKL-----APCVIFIDEIDALAGSRG 74

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 6324000     559 ANQDPEAIKLQKSINFEMskllDDFTFKFPGTTFVGSVNNIDNVPSSFRShmRFEILVPVP 619
Cdd:pfam00004   75 SGGDSESRRVVNQLLTEL----DGFTSSNSKVIVIAATNRPDKLDPALLG--RFDRIIEFP 129
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 744-899 7.85e-14

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


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 70.07  E-value: 7.85e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   744 ILDTIDMPLKHPELFTS-GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFsvkgpeLLNMYIGESEANVRRVFQKARE 822
Cdd:cd19510    1 IIDDLKDFIKNEDWYNDrGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDIC------DLNLSEVVLTDDRLNHLLNTAP 74

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   823 aKPCVIFFDEIDSVAPKR---GNQGDSGGVMDRI-VSQLLAELDGMsTDADGVFVIGATNRPDLLDEALLRPGRFDKLLY 898
Cdd:cd19510   75 -KQSIILLEDIDAAFESRehnKKNPSAYGGLSRVtFSGLLNALDGV-ASSEERIVFMTTNHIERLDPALIRPGRVDMKIY 152


                 .
gi 6324000   899 L 899
Cdd:cd19510  153 M 153
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 488-709 4.04e-10

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: 63.01  E-value: 4.04e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   488 GKATMVRFASKYLGIHLLEIDCLSLTS--------NsrqldsTSKIIGYIRAkcenvlpyASPAVIFLAHLDSILLDVNA 559
Cdd:COG0464  203 GKTLLARALAGELGLPLIEVDLSDLVSkyvgetekN------LREVFDKARG--------LAPCVLFIDEADALAGKRGE 268

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   560 NQDPEAIKLqksINfEMSKLLDDFTFKFPgttFVGSVNNIDNVPSSFRSHMRFEILVPVPSEAQRLRIFQWYLSSHELNR 639
Cdd:COG0464  269 VGDGVGRRV---VN-TLLTEMEELRSDVV---VIAATNRPDLLDPALLRRFDEIIFFPLPDAEERLEIFRIHLRKRPLDE 341

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   640 DVQqkvpvsyMDNIsfsslSSYSAGLTPLDIKSIVETARMTAtARFYQESkkcgwlpqsilITQEDLSKA 709
Cdd:COG0464  342 DVD-------LEEL-----AEATEGLSGADIRNVVRRAALQA-LRLGREP-----------VTTEDLLEA 387
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 768-882 1.23e-09

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: 62.17  E-value: 1.23e-09
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     768 ILFYGPPGTGKTLMAKAIATNFS-------LNFFSVKGPELLNMYIGESEANVRRVFQKAREAkpcVIFFDEIDSVAPKR 840
Cdd:TIGR03922  315 MLFAGPPGTGKTTIARVVAKIYCglgvlrkPLVREVSRADLIGQYIGESEAKTNEIIDSALGG---VLFLDEAYTLVETG 391

                           90       100       110       120
                   ....*....|....*....|....*....|....*....|..
gi 6324000     841 GNQGDSGGVMdrIVSQLLAEldgMSTDADGVFVIGATNRPDL 882
Cdd:TIGR03922  392 YGQKDPFGLE--AIDTLLAR---MENDRDRLVVIGAGYRKDL 428
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 759-897 1.27e-09

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: 57.92  E-value: 1.27e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   759 TSGMKKRSG----ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYiGESEANVRRVFQKAREA-KPCVIFFDEI 833
Cdd:cd19512   12 TRNTKKNKGlyrnILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMG-REGVTAIHKVFDWANTSrRGLLLFVDEA 90

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6324000   834 DSVAPKRGNQGDSggvmDRIVSQLLAELDGMSTDADGVFVIGATNRPDLLDEALlrPGRFDKLL 897
Cdd:cd19512   91 DAFLRKRSTEKIS----EDLRAALNAFLYRTGEQSNKFMLVLASNQPEQFDWAI--NDRIDEMV 148
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 768-887 5.54e-09

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: 57.07  E-value: 5.54e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLN---------FFSVKGPELLNMYIGESEANVRRVFQKARE---AKPCVIF--FDEI 833
Cdd:cd19508   55 VLLHGPPGTGKTSLCKALAQKLSIRlssryrygqLIEINSHSLFSKWFSESGKLVTKMFQKIQElidDKDALVFvlIDEV 134

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 6324000   834 DSVAPKRGNQGDSGGVMD--RIVSQLLAELDGMSTdADGVFVIGATNRPDLLDEAL 887
Cdd:cd19508  135 ESLAAARSASSSGTEPSDaiRVVNAVLTQIDRIKR-YHNNVILLTSNLLEKIDVAF 189
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 768-833 1.45e-07

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 55.06  E-value: 1.45e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLNFFS-------VKgpellnmyigeseaNVRRVFQKAREA----KPCVIFFDEI 833
Cdd:COG2256   52 MILWGPPGTGKTTLARLIANATDAEFVAlsavtsgVK--------------DIREVIEEARERraygRRTILFVDEI 114
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 768-833 1.58e-07

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 54.71  E-value: 1.58e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6324000    768 ILFYGPPGTGKTLMAKAIATNFSLNFF-------SVKgpellnmyigeseaNVRRVFQKAREA----KPCVIFFDEI 833
Cdd:PRK13342   39 MILWGPPGTGKTTLARIIAGATDAPFEalsavtsGVK--------------DLREVIEEARQRrsagRRTILFIDEI 101
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 768-873 8.50e-07

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: 49.89  E-value: 8.50e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     768 ILFYGPPGTGKTLMAKAIAT--NFSLNFFSVKG------PELLNMYIGESEANVRR-----VFQKAREAKPCVIFFDEID 834
Cdd:pfam07724    6 FLFLGPTGVGKTELAKALAEllFGDERALIRIDmseymeEHSVSRLIGAPPGYVGYeeggqLTEAVRRKPYSIVLIDEIE 85

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 6324000     835 SVAPkrgnqgdsgGVMdRIVSQLLaElDGMSTDADGVFV 873
Cdd:pfam07724   86 KAHP---------GVQ-NDLLQIL-E-GGTLTDKQGRTV 112
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 924-965 2.13e-06

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


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 45.22  E-value: 2.13e-06
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|..
gi 6324000     924 DVKLIELAKLCPfNYTGADFYALCSDAMLNAMSRIARMVEKK 965
Cdd:pfam17862    1 DVDLEELAERTE-GFSGADLEALCREAALAALRRGLEAVTQE 41
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 761-845 8.04e-06

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 47.55  E-value: 8.04e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   761 GMKKRSGILFYGPPGTGKTLMAKAIATNFSLNF--FSVKGPellnmyigESEANVR------------RVFQKAREAKP- 825
Cdd:cd19500   33 GSMKGPILCLVGPPGVGKTSLGKSIARALGRKFvrISLGGV--------RDEAEIRghrrtyvgampgRIIQALKKAGTn 104

                         90       100
                 ....*....|....*....|.
gi 6324000   826 -CVIFFDEIDSVApkRGNQGD 845
Cdd:cd19500  105 nPVFLLDEIDKIG--SSFRGD 123
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 768-906 9.13e-06

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


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 48.63  E-value: 9.13e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKG-PELL-------NMYIGESEANVRR---VFQkareakpCVIFFDEIDSV 836
Cdd:COG0714   34 LLLEGVPGVGKTTLAKALARALGLPFIRIQFtPDLLpsdilgtYIYDQQTGEFEFRpgpLFA-------NVLLADEINRA 106

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   837 APKrgnqgdsggvmdrivSQ--LLAELDGMSTDADGV--------FVIGATNRPDL-----LDEALLRpgRFDKLLYLGI 901
Cdd:COG0714  107 PPK---------------TQsaLLEAMEERQVTIPGGtyklpepfLVIATQNPIEQegtypLPEAQLD--RFLLKLYIGY 169


                 ....*
gi 6324000   902 PDTDT 906
Cdd:COG0714  170 PDAEE 174
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 769-894 6.83e-05

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: 44.48  E-value: 6.83e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   769 LFYGPPGTGKTLMAKAIATNFslnFFSVKGPELLNM------------------YIGESEanVRRVFQKAREAKPCVIFF 830
Cdd:cd19499   45 LFLGPTGVGKTELAKALAELL---FGDEDNLIRIDMseymekhsvsrligappgYVGYTE--GGQLTEAVRRKPYSVVLL 119

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6324000   831 DEIDSVAPKrgnqgdsggVMDrIVSQLLAelDGMSTDADG-------VFVIGATN--RPDLLdeallrpGRFD 894
Cdd:cd19499  120 DEIEKAHPD---------VQN-LLLQVLD--DGRLTDSHGrtvdfknTIIIMTSNhfRPEFL-------NRID 173
PRK04195 PRK04195
replication factor C large subunit; Provisional
 756-849 8.18e-05

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 46.45  E-value: 8.18e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000    756 ELFTSGMKKRSgILFYGPPGTGKTLMAKAIATNFSLnffsvkgpELLNM-------------YIGESeANVRRVFQKARE 822
Cdd:PRK04195   31 ESWLKGKPKKA-LLLYGPPGVGKTSLAHALANDYGW--------EVIELnasdqrtadvierVAGEA-ATSGSLFGARRK 100

                          90       100
                  ....*....|....*....|....*..
gi 6324000    823 akpcVIFFDEIDSVAPKrgnqGDSGGV 849
Cdd:PRK04195  101 ----LILLDEVDGIHGN----EDRGGA 119
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 768-880 8.69e-05

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. 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: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 44.06  E-value: 8.69e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNMYIGES--EANVRRVFQKAREAKPCVIFFDEIDSV----APKRG 841
Cdd:cd19506   29 LLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHLVLKVARQLQPSVIWIGDAEKTfykkVPKTE 108

                         90       100       110
                 ....*....|....*....|....*....|....*....
gi 6324000   842 NQGDSGGvMDRIVSQLLAELDGmstdADGVFVIGATNRP 880
Cdd:cd19506  109 KQLDPKR-LKKDLPKILKSLKP----EDRVLIVGTTSRP 142
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 767-897 1.30e-04

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: 43.52  E-value: 1.30e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   767 GILFYGPPGTGKTLMAKAIATN-------FSLN-------FFSVKGPELLNMYIGESEANVRRVFQKAREAKPCVIFFDE 832
Cdd:cd19505   14 GILLIGSIETGRSYLIKSLAANsyvplirISLNkllynkpDFGNDDWIDGMLILKESLHRLNLQFELAKAMSPCIIWIPN 93

                         90       100       110       120       130       140
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 6324000   833 IDSVAPKRGNQgDSGGVMDRIVSQLLAEL--DGMSTDADGVFVIGATNRPDLLDEALLRPGRFDKLL 897
Cdd:cd19505   94 IHELNVNRSTQ-NLEEDPKLLLGLLLNYLsrDFEKSSTRNILVIASTHIPQKVDPALIAPNRLDTCI 159
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 767-893 1.39e-04

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


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 42.66  E-value: 1.39e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     767 GILFYGPPGTGKTLMAKAIA---TNFSLNffsvkgPELLNMYIGESE---------ANVRRVFQKAREA--KPCVIFFDE 832
Cdd:pfam07728    1 GVLLVGPPGTGKTELAERLAaalSNRPVF------YVQLTRDTTEEDlfgrrnidpGGASWVDGPLVRAarEGEIAVLDE 74

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 6324000     833 IDSVAPKrgnqgdsggVMDRIVSQL------LAELDG-MSTDADGVFVIGATNRPDL----LDEALLRpgRF 893
Cdd:pfam07728   75 INRANPD---------VLNSLLSLLderrllLPDGGElVKAAPDGFRLIATMNPLDRglneLSPALRS--RF 135
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 765-842 3.04e-04

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: 43.74  E-value: 3.04e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   765 RSGILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNM-YIGESEANV-RRVFQKA----REAKPCVIFFDEIDSVAP 838
Cdd:cd19497   50 KSNILLIGPTGSGKTLLAQTLAKILDVPFAIADATTLTEAgYVGEDVENIlLKLLQAAdydvERAQRGIVYIDEIDKIAR 129


                 ....
gi 6324000   839 KRGN 842
Cdd:cd19497  130 KSEN 133
PRK08116 PRK08116
hypothetical protein; Validated
 762-803 3.97e-04

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 43.47  E-value: 3.97e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*.
gi 6324000    762 MKKRS-GILFYGPPGTGKTLMAKAIATNFSLNFFSVKG---PELLN 803
Cdd:PRK08116  110 MKKENvGLLLWGSVGTGKTYLAACIANELIEKGVPVIFvnfPQLLN 155
Parvo_NS1 pfam01057
Parvovirus non-structural protein NS1; This family also contains the NS2 protein. Parvoviruses ...
 764-789 4.06e-04

Parvovirus non-structural protein NS1; This family also contains the NS2 protein. Parvoviruses encode two non-structural proteins, NS1 and NS2. The mRNA for NS2 contains the coding sequence for the first 87 amino acids of NS1, then by an alternative splicing mechanism mRNA from a different reading frame, encoding the last 78 amino acids, makes up the full length of the NS2 mRNA. NS1, is the major non-structural protein. It is essential for DNA replication. It is an 83-kDa nuclear phosphoprotein. It has DNA helicase and ATPase activity.


Pssm-ID: 426020  Cd Length: 271  Bit Score: 43.45  E-value: 4.06e-04
                           10        20
                   ....*....|....*....|....*.
gi 6324000     764 KRSGILFYGPPGTGKTLMAKAIATNF 789
Cdd:pfam01057  112 KRNTVWFYGPASTGKTNLAQAIAHAV 137
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
762-833 5.27e-04

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


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 42.85  E-value: 5.27e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 6324000   762 MKKRSGILFYGPPGTGKTLMAKAIATNFSLNFFSVK---GPELLN-MYIGESEANVRRVFQKAREAKPCVIffDEI 833
Cdd:COG1484   96 IERGENLILLGPPGTGKTHLAIALGHEACRAGYRVRfttAPDLVNeLKEARADGRLERLLKRLAKVDLLIL--DEL 169
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
756-801 6.54e-04

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 43.20  E-value: 6.54e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 6324000    756 ELFTSGMKKRSG----ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPEL 801
Cdd:PRK00080   38 KIFIEAAKKRGEaldhVLLYGPPGLGKTTLANIIANEMGVNIRITSGPAL 87
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 768-859 7.90e-04

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: 40.18  E-value: 7.90e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVkgpellnMYIGESEANVRRVFQKAREAKPCVIFFDEIDSVApkRGNQGDSG 847
Cdd:cd01120    1 ILITGPPGSGKTTLLLQFAEQALLSDEPV-------IFISFLDTILEAIEDLIEEKKLDIIIIDSLSSLA--RASQGDRS 71

                         90
                 ....*....|..
gi 6324000   848 GVMDRIVSQLLA 859
Cdd:cd01120   72 SELLEDLAKLLR 83
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 768-801 1.37e-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: 40.56  E-value: 1.37e-03
                           10        20        30
                   ....*....|....*....|....*....|....
gi 6324000     768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPEL 801
Cdd:pfam05496   36 VLLYGPPGLGKTTLANIIANEMGVNIRITSGPAI 69
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 768-831 1.81e-03

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


Pssm-ID: 459992  Cd Length: 102  Bit Score: 38.74  E-value: 1.81e-03
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 6324000     768 ILFYGPPGTGKTLMAKAIATNFSL-------NFFSV-KGPELLNMYIGEseanvrrvfqkareakPCVIFFD 831
Cdd:pfam00910    1 IWLYGPPGCGKSTLAKYLARALLKklglpkdSVYSRnPDDDFWDGYTGQ----------------PVVIIDD 56
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
767-786 2.93e-03

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 41.49  E-value: 2.93e-03
                         10        20
                 ....*....|....*....|
gi 6324000   767 GILFYGPPGTGKTLMAKAIA 786
Cdd:COG1224   66 GILIVGPPGTGKTALAVAIA 85
PRK13341 PRK13341
AAA family ATPase;
766-796 3.63e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 41.19  E-value: 3.63e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 6324000    766 SGILFYGPPGTGKTLMAKAIATNFSLNFFSV 796
Cdd:PRK13341   53 GSLILYGPPGVGKTTLARIIANHTRAHFSSL 83
rfc PRK00440
replication factor C small subunit; Reviewed
 768-786 3.94e-03

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 40.63  E-value: 3.94e-03
                          10
                  ....*....|....*....
gi 6324000    768 ILFYGPPGTGKTLMAKAIA 786
Cdd:PRK00440   41 LLFAGPPGTGKTTAALALA 59
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 756-838 4.25e-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: 40.36  E-value: 4.25e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000     756 ELFTSGMKKRSG----ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGP------ELLNMYIGESEANvrrvfqkareakp 825
Cdd:TIGR00635   17 QLFIEAAKMRQEaldhLLLYGPPGLGKTTLAHIIANEMGVNLKITSGPalekpgDLAAILTNLEEGD------------- 83

                           90
                   ....*....|...
gi 6324000     826 cVIFFDEIDSVAP 838
Cdd:TIGR00635   84 -VLFIDEIHRLSP 95
McrB COG1401
5-methylcytosine-specific restriction endonuclease McrBC, GTP-binding regulatory subunit McrB ...
 756-786 6.35e-03

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


Pssm-ID: 441011 [Multi-domain]  Cd Length: 477  Bit Score: 40.14  E-value: 6.35e-03
                         10        20        30
                 ....*....|....*....|....*....|.
gi 6324000   756 ELFTSGMKKRSGILFYGPPGTGKTLMAKAIA 786
Cdd:COG1401  212 EAFLAALKTKKNVILAGPPGTGKTYLARRLA 242
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 768-787 6.43e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 39.06  E-value: 6.43e-03
                           10        20
                   ....*....|....*....|
gi 6324000     768 ILFYGPPGTGKTLMAKAIAT 787
Cdd:pfam01078   25 LLMIGPPGSGKTMLAKRLPG 44
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 768-787 7.11e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 40.02  E-value: 7.11e-03
                         10        20
                 ....*....|....*....|
gi 6324000   768 ILFYGPPGTGKTLMAKAIAT 787
Cdd:COG0606  214 LLMIGPPGSGKTMLARRLPG 233
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 468-618 9.76e-03

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: 38.03  E-value: 9.76e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6324000   468 SQRGITLNASVLLHSTTNnVGKATMVRFASKYLGIHLLEIDCLSLTSnsrqldstsKIIGYIRAKCENVLPYA---SPAV 544
Cdd:cd19481   19 RRYGLGLPKGILLYGPPG-TGKTLLAKALAGELGLPLIVVKLSSLLS---------KYVGESEKNLRKIFERArrlAPCI 88

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 6324000   545 IFLAHLDSILLDVNANQDPEAiklQKSINFEMSKLLDDFTFKfPGTTFVGSVNNIDNVPSSFRSHMRFEILVPV 618
Cdd:cd19481   89 LFIDEIDAIGRKRDSSGESGE---LRRVLNQLLTELDGVNSR-SKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 768-844 9.91e-03

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU 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: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 38.13  E-value: 9.91e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 6324000   768 ILFYGPPGTGKTLMAKAIATNFSLNFFSVKGPELLNM-YIGeseanvRRVFQKAREAKPCVIFFDEIDSVAPKRGNQG 844
Cdd:cd19498   49 ILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVgYVG------RDVESIIRDLVEGIVFIDEIDKIAKRGGSSG 120
 
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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