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Conserved domains on  [gi|24656825|ref|NP_728878|]
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uncharacterized protein Dmel_CG12010 [Drosophila melanogaster]

Protein Classification

CDC48 family AAA ATPase( domain architecture ID 1001098)

CDC48 family AAA ATPase is involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus; similar to yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-713 1.50e-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: 314.54  E-value: 1.50e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLELLC 299
Cdd:TIGR01243 212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENA-------PSIIFIDEIDAIA 284

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   300 PSTavaDAKNSSNSLRISAELYKLLDALP-RG-IICLATSGVPDSLHEHARR--RFVREVTINMPSEGQRRQLVEhlceV 375
Cdd:TIGR01243 285 PKR---EEVTGEVEKRVVAQLLTLMDGLKgRGrVIVIGATNRPDALDPALRRpgRFDREIVIRVPDKRARKEILK----V 357

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   376 HELNI---SQTLLEHIARNTQGYVIADLTLL--------LRRVQQQllTKDDFDIEHI--------------FLKSLSQT 430
Cdd:TIGR01243 358 HTRNMplaEDVDLDKLAEVTHGFVGADLAALakeaamaaLRRFIRE--GKINFEAEEIpaevlkelkvtmkdFMEALKMV 435

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   431 QPSASRSTDVRVSKMTagFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADM 510
Cdd:TIGR01243 436 EPSAIREVLVEVPNVR--WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA 513

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   511 TFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVgggS 590
Cdd:TIGR01243 514 NFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTD---RIVNQLLTEMDGIQ---E 587

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   591 QQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNE 670
Cdd:TIGR01243 588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCRE 667

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 24656825   671 AAIEAFQRDFKAT----------------EIELQDFEKVLTKQKSSLTQSQIDGYYKFA 713
Cdd:TIGR01243 668 AAMAALRESIGSPakeklevgeeeflkdlKVEMRHFLEALKKVKPSVSKEDMLRYERLA 726
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-713 1.50e-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: 314.54  E-value: 1.50e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLELLC 299
Cdd:TIGR01243 212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENA-------PSIIFIDEIDAIA 284

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   300 PSTavaDAKNSSNSLRISAELYKLLDALP-RG-IICLATSGVPDSLHEHARR--RFVREVTINMPSEGQRRQLVEhlceV 375
Cdd:TIGR01243 285 PKR---EEVTGEVEKRVVAQLLTLMDGLKgRGrVIVIGATNRPDALDPALRRpgRFDREIVIRVPDKRARKEILK----V 357

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   376 HELNI---SQTLLEHIARNTQGYVIADLTLL--------LRRVQQQllTKDDFDIEHI--------------FLKSLSQT 430
Cdd:TIGR01243 358 HTRNMplaEDVDLDKLAEVTHGFVGADLAALakeaamaaLRRFIRE--GKINFEAEEIpaevlkelkvtmkdFMEALKMV 435

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   431 QPSASRSTDVRVSKMTagFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADM 510
Cdd:TIGR01243 436 EPSAIREVLVEVPNVR--WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA 513

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   511 TFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVgggS 590
Cdd:TIGR01243 514 NFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTD---RIVNQLLTEMDGIQ---E 587

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   591 QQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNE 670
Cdd:TIGR01243 588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCRE 667

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 24656825   671 AAIEAFQRDFKAT----------------EIELQDFEKVLTKQKSSLTQSQIDGYYKFA 713
Cdd:TIGR01243 668 AAMAALRESIGSPakeklevgeeeflkdlKVEMRHFLEALKKVKPSVSKEDMLRYERLA 726
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 393-704 6.04e-89

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 281.51  E-value: 6.04e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 393 QGYVIADLTLLLRRVQQQLLTKDDFDIEHIFLKSLSQTQPSAsRSTDVRVSKMTAGFEVIGGMEALKRTLQVSVLAGIRQ 472
Cdd:COG1222  22 QERLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTP-RGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKN 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 473 SAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEI 552
Cdd:COG1222 101 PELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEI 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 553 DSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLA 632
Cdd:COG1222 181 DAIAARRTDDGTSGEVQ---RTVNQLLAELDGF---ESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREE 254

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24656825 633 LLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDfkATEIELQDFEKVLTKQKSSLTQS 704
Cdd:COG1222 255 ILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIREG--RDTVTMEDLEKAIEKVKKKTETA 324
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 458-622 5.92e-81

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


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 254.52  E-value: 5.92e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 458 LKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFD 537
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 538 TARKNAPCLIFLDEIDSLVGRRTvssGGGGGQVQLRILSTLLTEMNGIVGGgsqQHILVVAATNRPDMIDDALLRPGRFD 617
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRRG---QSDSSGVTDRVVSQLLTELDGIESL---KGVVVIAATNRPDMIDPALLRPGRLD 154


                ....*
gi 24656825 618 KLIHV 622
Cdd:cd19511 155 KLIYV 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 435-704 1.13e-67

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 227.79  E-value: 1.13e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  435 SRSTDVRVSKM------TAGFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEA 508
Cdd:PRK03992 110 PSEKDPRVQAMeviespNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  509 DMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTEMNGIVGG 588
Cdd:PRK03992 190 NATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQ-RTLMQLLAEMDGFDPR 268

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  589 GSqqhILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLC 668
Cdd:PRK03992 269 GN---VKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAIC 345

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 24656825  669 NEAAIEAFQRDfkATEIELQDF----EKVLTKQKSSLTQS 704
Cdd:PRK03992 346 TEAGMFAIRDD--RTEVTMEDFlkaiEKVMGKEEKDSMEE 383
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 487-623 2.88e-40

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: 143.89  E-value: 2.88e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   487 VLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGG 566
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825   567 GGqvqlRILSTLLTEMNGIvgGGSQQHILVVAATNRPDMIDDALLrpGRFDKLIHVP 623
Cdd:pfam00004  81 SR----RVVNQLLTELDGF--TSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 484-626 6.12e-14

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 69.71  E-value: 6.12e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825    484 PKGVLLYGPPGCAKTTVAKCLAKEA----------DMTFIATSAAEVY-------SPYVGCAERFISRIFDTARKNAPCL 546
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELgppgggviyiDGEDILEEVLDQLlliivggKKASGSGELRLRLALALARKLKPDV 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825    547 IFLDEIDSLVGRRTvssgggggqvqlRILSTLLTEMNGIVGGGSQQHILVVAATNRPDMIDDALLRPgRFDKLIHVPAPD 626
Cdd:smart00382  82 LILDEITSLLDAEQ------------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 220-713 1.50e-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: 314.54  E-value: 1.50e-96
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLELLC 299
Cdd:TIGR01243 212 PKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENA-------PSIIFIDEIDAIA 284

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   300 PSTavaDAKNSSNSLRISAELYKLLDALP-RG-IICLATSGVPDSLHEHARR--RFVREVTINMPSEGQRRQLVEhlceV 375
Cdd:TIGR01243 285 PKR---EEVTGEVEKRVVAQLLTLMDGLKgRGrVIVIGATNRPDALDPALRRpgRFDREIVIRVPDKRARKEILK----V 357

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   376 HELNI---SQTLLEHIARNTQGYVIADLTLL--------LRRVQQQllTKDDFDIEHI--------------FLKSLSQT 430
Cdd:TIGR01243 358 HTRNMplaEDVDLDKLAEVTHGFVGADLAALakeaamaaLRRFIRE--GKINFEAEEIpaevlkelkvtmkdFMEALKMV 435

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   431 QPSASRSTDVRVSKMTagFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADM 510
Cdd:TIGR01243 436 EPSAIREVLVEVPNVR--WSDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGA 513

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   511 TFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVgggS 590
Cdd:TIGR01243 514 NFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTD---RIVNQLLTEMDGIQ---E 587

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   591 QQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNE 670
Cdd:TIGR01243 588 LSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCRE 667

                         490       500       510       520       530
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 24656825   671 AAIEAFQRDFKAT----------------EIELQDFEKVLTKQKSSLTQSQIDGYYKFA 713
Cdd:TIGR01243 668 AAMAALRESIGSPakeklevgeeeflkdlKVEMRHFLEALKKVKPSVSKEDMLRYERLA 726
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 393-704 6.04e-89

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 281.51  E-value: 6.04e-89
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 393 QGYVIADLTLLLRRVQQQLLTKDDFDIEHIFLKSLSQTQPSAsRSTDVRVSKMTAGFEVIGGMEALKRTLQVSVLAGIRQ 472
Cdd:COG1222  22 QERLGVELALLLQPVKALELLEEAPALLLNDANLTQKRLGTP-RGTAVPAESPDVTFDDIGGLDEQIEEIREAVELPLKN 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 473 SAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEI 552
Cdd:COG1222 101 PELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSKYIGEGARNVREVFELAREKAPSIIFIDEI 180

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 553 DSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLA 632
Cdd:COG1222 181 DAIAARRTDDGTSGEVQ---RTVNQLLAELDGF---ESRGDVLIIAATNRPDLLDPALLRPGRFDRVIEVPLPDEEAREE 254

                       250       260       270       280       290       300       310
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24656825 633 LLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDfkATEIELQDFEKVLTKQKSSLTQS 704
Cdd:COG1222 255 ILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIREG--RDTVTMEDLEKAIEKVKKKTETA 324
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 458-622 5.92e-81

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


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 254.52  E-value: 5.92e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 458 LKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFD 537
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 538 TARKNAPCLIFLDEIDSLVGRRTvssGGGGGQVQLRILSTLLTEMNGIVGGgsqQHILVVAATNRPDMIDDALLRPGRFD 617
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRRG---QSDSSGVTDRVVSQLLTELDGIESL---KGVVVIAATNRPDMIDPALLRPGRLD 154


                ....*
gi 24656825 618 KLIHV 622
Cdd:cd19511 155 KLIYV 159
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 347-696 8.14e-75

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: 247.13  E-value: 8.14e-75
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 347 ARRRFVREVTINMPSEGQRRQLVEHLCEVHELNISQTLLEHIARNTQGYVIADLTLLLRRVQQQLLTKDDFDIEHIFLKS 426
Cdd:COG0464  54 VELLLLLLSGALAALLLLALLLLALLALLAALLSALELLLLGELLLLLLLLLLLLLLLLDLERALLELLRESAEALALAA 133

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 427 LSQTQPSASRSTDVRVSKMTAGFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAK 506
Cdd:COG0464 134 PLVTYEDIGGLEEELLELREAILDDLGGLEEVKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAG 213

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 507 EADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIV 586
Cdd:COG0464 214 ELGLPLIEVDLSDLVSKYVGETEKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVGR----RVVNTLLTEMEELR 289

                       250       260       270       280       290       300       310       320
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 587 GGGsqqhiLVVAATNRPDMIDDALLRpgRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCN 666
Cdd:COG0464 290 SDV-----VVIAATNRPDLLDPALLR--RFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRN 362

                       330       340       350
                ....*....|....*....|....*....|
gi 24656825 667 LCNEAAIEAFQRDfkATEIELQDFEKVLTK 696
Cdd:COG0464 363 VVRRAALQALRLG--REPVTTEDLLEALER 390
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 435-704 1.13e-67

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 227.79  E-value: 1.13e-67
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  435 SRSTDVRVSKM------TAGFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEA 508
Cdd:PRK03992 110 PSEKDPRVQAMeviespNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHET 189

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  509 DMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTEMNGIVGG 588
Cdd:PRK03992 190 NATFIRVVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQ-RTLMQLLAEMDGFDPR 268

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  589 GSqqhILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLC 668
Cdd:PRK03992 269 GN---VKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAIC 345

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|
gi 24656825  669 NEAAIEAFQRDfkATEIELQDF----EKVLTKQKSSLTQS 704
Cdd:PRK03992 346 TEAGMFAIRDD--RTEVTMEDFlkaiEKVMGKEEKDSMEE 383
26Sp45 TIGR01242
26S proteasome subunit P45 family; Many proteins may score above the trusted cutoff because an ...
 449-696 6.53e-61

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: 208.89  E-value: 6.53e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   449 FEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCA 528
Cdd:TIGR01242 121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVRKYIGEG 200

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   529 ERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDD 608
Cdd:TIGR01242 201 ARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQ-RTLMQLLAELDGF---DPRGNVKVIAATNRPDILDP 276

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   609 ALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRdfKATEIELQ 688
Cdd:TIGR01242 277 ALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAEDVDLEAIAKMTEGASGADLKAICTEAGMFAIRE--ERDYVTMD 354


                  ....*...
gi 24656825   689 DFEKVLTK 696
Cdd:TIGR01242 355 DFIKAVEK 362
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 476-696 9.59e-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: 212.15  E-value: 9.59e-61
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   476 FARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSl 555
Cdd:TIGR01241  80 FTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVGASRVRDLFEQAKKNAPCIIFIDEIDA- 158

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   556 VGRRTVSSGGGGGQVQLRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLK 635
Cdd:TIGR01241 159 VGRQRGAGLGGGNDEREQTLNQLLVEMDGF---GTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILK 235

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 24656825   636 LHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDfkATEIELQDFEKVLTK 696
Cdd:TIGR01241 236 VHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKN--KTEITMNDIEEAIDR 294
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
476-692 5.16e-59

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 209.51  E-value: 5.16e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 476 FARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAerfISRI---FDTARKNAPCLIFLDEI 552
Cdd:COG0465 167 FTRLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGVG---ASRVrdlFEQAKKNAPCIIFIDEI 243

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 553 DSlVGRRtvssgggggqvqlR-------------ILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKL 619
Cdd:COG0465 244 DA-VGRQ-------------RgaglggghdereqTLNQLLVEMDGF---EGNEGVIVIAATNRPDVLDPALLRPGRFDRQ 306

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24656825 620 IHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDfkATEIELQDFEK 692
Cdd:COG0465 307 VVVDLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSGADLANLVNEAALLAARRN--KKAVTMEDFEE 377
ftsH CHL00176
cell division protein; Validated
 449-694 2.77e-55

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 200.28  E-value: 2.77e-55
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  449 FEVIGGMEALKRTLQvSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCA 528
Cdd:CHL00176 182 FRDIAGIEEAKEEFE-EVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVGVG 260

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  529 ERFISRIFDTARKNAPCLIFLDEIDSlVGRRTVSSGGGGGQVQLRILSTLLTEMNGIVGggsQQHILVVAATNRPDMIDD 608
Cdd:CHL00176 261 AARVRDLFKKAKENSPCIVFIDEIDA-VGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG---NKGVIVIAATNRVDILDA 336

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  609 ALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDFKA-TEIEL 687
Cdd:CHL00176 337 ALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKATiTMKEI 416


                 ....*...
gi 24656825  688 QD-FEKVL 694
Cdd:CHL00176 417 DTaIDRVI 424
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 439-685 2.36e-54

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: 199.36  E-value: 2.36e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   439 DVRVSKMTagFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAA 518
Cdd:TIGR01243 169 ERKVPKVT--YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISINGP 246

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   519 EVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGGGsqqHILVVA 598
Cdd:TIGR01243 247 EIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEK----RVVAQLLTLMDGLKGRG---RVIVIG 319

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   599 ATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQR 678
Cdd:TIGR01243 320 ATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAALAKEAAMAALRR 399

                         250
                  ....*....|....
gi 24656825   679 -------DFKATEI 685
Cdd:TIGR01243 400 firegkiNFEAEEI 413
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 452-620 1.63e-49

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: 170.94  E-value: 1.63e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:cd19503   2 IGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEKN 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 532 ISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALL 611
Cdd:cd19503  82 LREIFEEARSHAPSIIFIDEIDALAPKREEDQREVER----RVVAQLLTLMDGM---SSRGKVVVIAATNRPDAIDPALR 154


                ....*....
gi 24656825 612 RPGRFDKLI 620
Cdd:cd19503 155 RPGRFDREV 163
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
449-698 3.52e-48

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 170.06  E-value: 3.52e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 449 FEVIGGMEALKRTLQVsVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCA 528
Cdd:COG1223   1 LDDVVGQEEAKKKLKL-IIKELRRRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGET 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 529 ERFISRIFDTARkNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIvgggsQQHILVVAATNRPDMIDD 608
Cdd:COG1223  80 ARNLRKLFDFAR-RAPCVIFFDEFDAIAKDRGDQNDVGEVK---RVVNALLQELDGL-----PSGSVVIAATNHPELLDS 150

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 609 ALLRpgRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDfkATEIELQ 688
Cdd:COG1223 151 ALWR--RFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAILED--REKVTKE 226

                       250
                ....*....|
gi 24656825 689 DFEKVLTKQK 698
Cdd:COG1223 227 DLEEALKQRK 236
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 455-622 5.25e-48

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: 166.51  E-value: 5.25e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 455 MEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISR 534
Cdd:cd19530   1 LDHVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 535 IFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGggsQQHILVVAATNRPDMIDDALLRPG 614
Cdd:cd19530  81 VFQRARASAPCVIFFDEVDALVPKRGDGGSWASE----RVVNQLLTEMDGLEE---RSNVFVIAATNRPDIIDPAMLRPG 153


                ....*...
gi 24656825 615 RFDKLIHV 622
Cdd:cd19530 154 RLDKTLYV 161
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
470-696 6.59e-47

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 176.76  E-value: 6.59e-47
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  470 IRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFL 549
Cdd:PRK10733 171 LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFI 250

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  550 DEIDSlVGRRTVSSGGGGGQVQLRILSTLLTEMNGIVGggsQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKS 629
Cdd:PRK10733 251 DEIDA-VGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG---NEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRG 326

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825  630 RLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDFKAteIELQDFEKVLTK 696
Cdd:PRK10733 327 REQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRV--VSMVEFEKAKDK 391
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 459-622 1.50e-46

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: 162.66  E-value: 1.50e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 459 KRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDT 538
Cdd:cd19529   2 KQELKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFRK 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 539 ARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVGGGSqqhILVVAATNRPDMIDDALLRPGRFDK 618
Cdd:cd19529  82 ARQVAPCVIFFDEIDSIAPRRGTTGDSGVTE---RVVNQLLTELDGLEEMNG---VVVIAATNRPDIIDPALLRAGRFDR 155


                ....
gi 24656825 619 LIHV 622
Cdd:cd19529 156 LIYI 159
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 449-622 7.81e-46

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: 160.86  E-value: 7.81e-46
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 449 FEVIGGMEALKRTLQ--VSVLagiRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVG 526
Cdd:cd19501   3 FKDVAGCEEAKEELKevVEFL---KNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 527 CAERFISRIFDTARKNAPCLIFLDEIDSlVGRRTVSSGGGGGQVQLRILSTLLTEMNGIvggGSQQHILVVAATNRPDMI 606
Cdd:cd19501  80 VGASRVRDLFEQAKKNAPCIVFIDEIDA-VGRKRGAGLGGGHDEREQTLNQLLVEMDGF---ESNTGVIVIAATNRPDVL 155

                       170
                ....*....|....*.
gi 24656825 607 DDALLRPGRFDKLIHV 622
Cdd:cd19501 156 DPALLRPGRFDRQVYV 171
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 465-622 1.26e-45

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: 159.76  E-value: 1.26e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 465 SVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAP 544
Cdd:cd19481   7 EAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFERARRLAP 86

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24656825 545 CLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVgggSQQHILVVAATNRPDMIDDALLRPGRFDKLIHV 622
Cdd:cd19481  87 CILFIDEIDAIGRKRDSSGESGELR---RVLNQLLTELDGVN---SRSKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 458-622 8.77e-45

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: 157.67  E-value: 8.77e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 458 LKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFD 537
Cdd:cd19528   1 VKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFD 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 538 TARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFD 617
Cdd:cd19528  81 KARAAAPCVLFFDELDSIAKARGGNIGDAGGAAD-RVINQILTEMDGM---NTKKNVFIIGATNRPDIIDPAILRPGRLD 156


                ....*
gi 24656825 618 KLIHV 622
Cdd:cd19528 157 QLIYI 161
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 452-622 3.40e-44

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: 155.97  E-value: 3.40e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFaRFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKI 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 532 ISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGGGSQQhILVVAATNRPDMIDDALL 611
Cdd:cd19509  80 VRALFALARELQPSIIFIDEIDSLLSERGSGEHEASR----RVKTEFLVQMDGVLNKPEDR-VLVLGATNRPWELDEAFL 154

                       170
                ....*....|.
gi 24656825 612 RpgRFDKLIHV 622
Cdd:cd19509 155 R--RFEKRIYI 163
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 449-622 5.00e-44

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: 155.96  E-value: 5.00e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 449 FEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCA 528
Cdd:cd19502   2 YEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEG 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 529 ERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDD 608
Cdd:cd19502  82 ARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDREVQ-RTMLELLNQLDGF---DPRGNIKVIMATNRPDILDP 157

                       170
                ....*....|....
gi 24656825 609 ALLRPGRFDKLIHV 622
Cdd:cd19502 158 ALLRPGRFDRKIEF 171
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 426-692 1.90e-42

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 158.77  E-value: 1.90e-42
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  426 SLSQTQPSASRSTdVRVSKMTAGFEV----IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVA 501
Cdd:PTZ00454 118 AVVDILPPEADSS-IQLLQMSEKPDVtysdIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLA 196

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  502 KCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQVQlRILSTLLTE 581
Cdd:PTZ00454 197 KAVAHHTTATFIRVVGSEFVQKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQ-RILLELLNQ 275

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  582 MNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSG 661
Cdd:PTZ00454 276 MDGF---DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISA 352

                        250       260       270
                 ....*....|....*....|....*....|.
gi 24656825  662 ADLCNLCNEAAIEAFQRDFKAteIELQDFEK 692
Cdd:PTZ00454 353 ADIAAICQEAGMQAVRKNRYV--ILPKDFEK 381
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 452-623 7.78e-42

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: 149.51  E-value: 7.78e-42
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:cd19519   2 IGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 532 ISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGGGsqqHILVVAATNRPDMIDDALL 611
Cdd:cd19519  82 LRKAFEEAEKNAPAIIFIDEIDAIAPKREKTHGEVER----RIVSQLLTLMDGLKQRA---HVIVMAATNRPNSIDPALR 154

                       170
                ....*....|..
gi 24656825 612 RPGRFDKLIHVP 623
Cdd:cd19519 155 RFGRFDREIDIG 166
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 452-620 6.56e-41

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: 147.17  E-value: 6.56e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:cd19518   2 IGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEEK 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 532 ISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVG-GGSQQHILVVAATNRPDMIDDAL 610
Cdd:cd19518  82 IRELFDQAISNAPCIVFIDEIDAITPKRESAQREMER----RIVSQLLTCMDELNNeKTAGGPVLVIGATNRPDSLDPAL 157

                       170
                ....*....|
gi 24656825 611 LRPGRFDKLI 620
Cdd:cd19518 158 RRAGRFDREI 167
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 487-623 2.88e-40

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: 143.89  E-value: 2.88e-40
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   487 VLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGG 566
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSRGSGGDSE 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825   567 GGqvqlRILSTLLTEMNGIvgGGSQQHILVVAATNRPDMIDDALLrpGRFDKLIHVP 623
Cdd:pfam00004  81 SR----RVVNQLLTELDGF--TSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 452-704 1.38e-39

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 151.46  E-value: 1.38e-39
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  452 IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:PTZ00361 185 IGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKYLGDGPKL 264

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  532 ISRIFDTARKNAPCLIFLDEIDSlVGRRTVSSGGGGGQVQLRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALL 611
Cdd:PTZ00361 265 VRELFRVAEENAPSIVFIDEIDA-IGTKRYDATSGGEKEIQRTMLELLNQLDGF---DSRGDVKVIMATNRIESLDPALI 340

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  612 RPGRFDKLIHVPAPDEKSRLALLKLHSQRMPFHENVFLQEIAARTDRYSGADLCNLCNEAAIEAF-QRDFKATEIELQDF 690
Cdd:PTZ00361 341 RPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALrERRMKVTQADFRKA 420

                        250
                 ....*....|....*
gi 24656825  691 -EKVLTKQKSSLTQS 704
Cdd:PTZ00361 421 kEKVLYRKKGNIPEG 435
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 456-620 1.26e-36

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: 134.86  E-value: 1.26e-36
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 456 EALKRTLQVSVlagiRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRI 535
Cdd:cd19526   3 KALEETIEWPS----KYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDL 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 536 FDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGGgsqQHILVVAATNRPDMIDDALLRPGR 615
Cdd:cd19526  79 FSRAQSAKPCILFFDEFDSIAPKRGHDSTGVTD----RVVNQLLTQLDGVEGL---DGVYVLAATSRPDLIDPALLRPGR 151


                ....*
gi 24656825 616 FDKLI 620
Cdd:cd19526 152 LDKLV 156
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 480-622 5.05e-35

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: 130.33  E-value: 5.05e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 480 GLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVGRR 559
Cdd:cd19527  22 GLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQKARDAKPCVIFFDELDSLAPSR 101

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24656825 560 TVSSGGGGGQVqlRILSTLLTEMNGIVGGGsqQHILVVAATNRPDMIDDALLRPGRFDKLIHV 622
Cdd:cd19527 102 GNSGDSGGVMD--RVVSQLLAELDGMSSSG--QDVFVIGATNRPDLLDPALLRPGRFDKLLYL 160
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 452-616 4.67e-34

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: 127.93  E-value: 4.67e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFGL-SLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAER 530
Cdd:cd19520   2 IGGLDEVITELKELVILPLQRPELFDNSRLlQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQK 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 531 FISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlrILSTLLTEMNGIVGGGSQQhILVVAATNRPDMIDDAL 610
Cdd:cd19520  82 LVAAVFSLASKLQPSIIFIDEIDSFLRQRSSTDHEATAM----MKAEFMSLWDGLSTDGNCR-VIVMGATNRPQDLDEAI 156


                ....*...
gi 24656825 611 LR--PGRF 616
Cdd:cd19520 157 LRrmPKRF 164
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 452-622 1.31e-32

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: 123.82  E-value: 1.31e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFArfGLSLP-KGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAER 530
Cdd:cd19521   9 VAGLEGAKEALKEAVILPVKFPHLFT--GNRKPwSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEK 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 531 FISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIvgGGSQQHILVVAATNRPDMIDDAL 610
Cdd:cd19521  87 LVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEASR----RIKTELLVQMNGV--GNDSQGVLVLGATNIPWQLDSAI 160

                       170
                ....*....|..
gi 24656825 611 LRpgRFDKLIHV 622
Cdd:cd19521 161 RR--RFEKRIYI 170
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 452-618 7.72e-32

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: 121.85  E-value: 7.72e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEAD-----MTFIATSAAEVYSPYVG 526
Cdd:cd19517   2 IGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAECSkggqkVSFFMRKGADCLSKWVG 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 527 CAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlrILSTLLTEMNGIVGGGsqqHILVVAATNRPDMI 606
Cdd:cd19517  82 EAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHAS----IVSTLLALMDGLDNRG---QVVVIGATNRPDAL 154

                       170
                ....*....|..
gi 24656825 607 DDALLRPGRFDK 618
Cdd:cd19517 155 DPALRRPGRFDR 166
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 448-622 3.25e-30

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: 117.78  E-value: 3.25e-30
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 448 GFEVIGGMEALKRTLQVSVLAGIRQSAAFArfGL-SLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVG 526
Cdd:cd19525  20 NWADIAGLEFAKKTIKEIVVWPMLRPDIFT--GLrGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVG 97

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 527 CAERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGiVGGGSQQHILVVAATNRPDMI 606
Cdd:cd19525  98 EGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHESSR----RIKTEFLVQLDG-ATTSSEDRILVVGATNRPQEI 172

                       170
                ....*....|....*.
gi 24656825 607 DDALLRpgRFDKLIHV 622
Cdd:cd19525 173 DEAARR--RLVKRLYI 186
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 452-622 1.41e-29

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: 114.95  E-value: 1.41e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFArfGLSLP-KGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAER 530
Cdd:cd19524   2 IAGQDLAKQALQEMVILPSLRPELFT--GLRAPaRGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 531 FISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGqvqlRILSTLLTEMNGIVGGGSQQhILVVAATNRPDMIDDAL 610
Cdd:cd19524  80 LVRALFAVARELQPSIIFIDEVDSLLSERSEGEHEASR----RLKTEFLIEFDGVQSNGDDR-VLVMGATNRPQELDDAV 154

                       170
                ....*....|..
gi 24656825 611 LRpgRFDKLIHV 622
Cdd:cd19524 155 LR--RFTKRVYV 164
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 452-622 2.70e-29

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: 114.31  E-value: 2.70e-29
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFArfGLSLP-KGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAER 530
Cdd:cd19522   2 IADLEEAKKLLEEAVVLPMWMPEFFK--GIRRPwKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 531 FISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNGIVGG----GSQQHILVVAATNRPDMI 606
Cdd:cd19522  80 LVRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEASR---RVKSELLVQMDGVGGAsendDPSKMVMVLAATNFPWDI 156

                       170
                ....*....|....*.
gi 24656825 607 DDALLRpgRFDKLIHV 622
Cdd:cd19522 157 DEALRR--RLEKRIYI 170
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 448-626 1.31e-28

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


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 120.58  E-value: 1.31e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   448 GFEVIGGMEALKRTLQVSVLAGIRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKC----LAKEADMT------FIATSA 517
Cdd:TIGR03689 180 TYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAvansLAARIGAEgggksyFLNIKG 259

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   518 AEVYSPYVGCAERFISRIFDTARKNA----PCLIFLDEIDSLVGRRTVSSGGGGGQVqlrILSTLLTEMNGIvggGSQQH 593
Cdd:TIGR03689 260 PELLNKYVGETERQIRLIFQRAREKAsegrPVIVFFDEMDSLFRTRGSGVSSDVETT---VVPQLLAEIDGV---ESLDN 333

                         170       180       190
                  ....*....|....*....|....*....|...
gi 24656825   594 ILVVAATNRPDMIDDALLRPGRFDKLIHVPAPD 626
Cdd:TIGR03689 334 VIVIGASNREDMIDPAILRPGRLDVKIRIERPD 366
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 452-622 1.17e-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: 100.91  E-value: 1.17e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQvsvlagiRQSAAFA----RFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGC 527
Cdd:cd19507   2 VGGLDNLKDWLK-------KRKAAFSkqasAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGE 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 528 AERFISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGGQvqlRILSTLLTEMNgivggGSQQHILVVAATNRPDMID 607
Cdd:cd19507  75 SESRLRQMIQTAEAIAPCVLWIDEIEKGFSNADSKGDSGTSS---RVLGTFLTWLQ-----EKKKPVFVVATANNVQSLP 146

                       170
                ....*....|....*
gi 24656825 608 DALLRPGRFDKLIHV 622
Cdd:cd19507 147 PELLRKGRFDEIFFV 161
ycf46 CHL00195
Ycf46; Provisional
 275-685 3.02e-23

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 103.95  E-value: 3.02e-23
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  275 AQTFKEKLRPLLPIVILIEDLELLCPSTAVadaknsSNSLRisaELYKLLDALPRGIICLATS-GVPDSLHEHarrrfvr 353
Cdd:CHL00195  70 ALEFIEKLTPETPALFLLKDFNRFLNDISI------SRKLR---NLSRILKTQPKTIIIIASElNIPKELKDL------- 133

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  354 eVTI---NMPSEGQRRQLVEHLCEVHELNISQTLLEHIARNTQGYVIADLTLLLRRVQQQLLTKDDFDIEHIFLKS---L 427
Cdd:CHL00195 134 -ITVlefPLPTESEIKKELTRLIKSLNIKIDSELLENLTRACQGLSLERIRRVLSKIIATYKTIDENSIPLILEEKkqiI 212

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  428 SQTQPSASRSTDVRVSKmtagfevIGGMEALKRTLQvsvlagiRQSAAFAR----FGLSLPKGVLLYGPPGCAKTTVAKC 503
Cdd:CHL00195 213 SQTEILEFYSVNEKISD-------IGGLDNLKDWLK-------KRSTSFSKqasnYGLPTPRGLLLVGIQGTGKSLTAKA 278

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  504 LAKEADMTFIATSAAEVYSPYVGCAERFISRIFDTARKNAPCLIFLDEIDSLVgrrTVSSGGGGGQVQLRILSTLLTEMN 583
Cdd:CHL00195 279 IANDWQLPLLRLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEIDKAF---SNSESKGDSGTTNRVLATFITWLS 355

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  584 GivgggSQQHILVVAATNRPDMIDDALLRPGRFDKLIHVPAPDEKSRLALLKLHSQRM-PFHENVF-LQEIAARTDRYSG 661
Cdd:CHL00195 356 E-----KKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFrPKSWKKYdIKKLSKLSNKFSG 430

                        410       420
                 ....*....|....*....|....*.
gi 24656825  662 ADLCNLCNEAAIEAF--QRDFKATEI 685
Cdd:CHL00195 431 AEIEQSIIEAMYIAFyeKREFTTDDI 456
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 452-622 6.63e-22

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: 93.03  E-value: 6.63e-22
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 452 IGGMEALKRTLQVSVLAGIRQSAAFARFgLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYSPYVGCAERF 531
Cdd:cd19523   2 IAGLGALKAAIKEEVLWPLLRPDAFSGL-LRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKI 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 532 ISRIFDTARKNAPCLIFLDEIDSLVGRRTVSSGGGGgqvqlRILSTLLTEMNGIVGGGsQQHILVVAATNRPDMIDDALL 611
Cdd:cd19523  81 LQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG-----RLQVELLAQLDGVLGSG-EDGVLVVCTTSKPEEIDESLR 154

                       170
                ....*....|.
gi 24656825 612 RpgRFDKLIHV 622
Cdd:cd19523 155 R--YFSKRLLV 163
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 478-617 5.11e-20

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: 87.93  E-value: 5.11e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 478 RFGLSLPKGVLLYGPPGCAKTTVAKCL-----AKEADMTfiatSAAEVYSPYVGCAERFISRIFDTARKNAPCL------ 546
Cdd:cd19504  29 QLGCKHVKGILLYGPPGTGKTLMARQIgkmlnAREPKIV----NGPEILNKYVGESEANIRKLFADAEEEQRRLgansgl 104

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24656825 547 --IFLDEIDSLVGRRTVSSGGGGGQVQlrILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFD 617
Cdd:cd19504 105 hiIIFDEIDAICKQRGSMAGSTGVHDT--VVNQLLSKIDGV---EQLNNILVIGMTNRKDLIDEALLRPGRLE 172
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 484-623 9.20e-20

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


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 86.43  E-value: 9.20e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 484 PKGVLLYGPPGCAKTTVAKCLAKEA---DMTFIATSAAEVYSPYVGCAER---FISRIFDTARKNAPCLIFLDEIDSLVG 557
Cdd:cd00009  19 PKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFghfLVRLLFELAEKAKPGVLFIDEIDSLSR 98

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 24656825 558 RrtvssgggGGQVQLRILSTLLTEMNGIVgggsqqHILVVAATNRPDMIDDALLRPGRFDKLIHVP 623
Cdd:cd00009  99 G--------AQNALLRVLETLNDLRIDRE------NVRVIGATNRPLLGDLDRALYDRLDIRIVIP 150
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 202-357 3.99e-15

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: 73.48  E-value: 3.99e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 202 EQLEKLLETSKISFSH---------RFPTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIF 272
Cdd:cd19503   7 EQIASLKELIELPLKYpelfralglKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEKNLREIF 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 273 QAAQTFKeklrpllPIVILIEDLELLCPSTavaDAKNSSNSLRISAELYKLLDALPR--GIICLATSGVPDSLHEHARR- 349
Cdd:cd19503  87 EEARSHA-------PSIIFIDEIDALAPKR---EEDQREVERRVVAQLLTLMDGMSSrgKVVVIAATNRPDAIDPALRRp 156


                ....*....
gi 24656825 350 -RFVREVTI 357
Cdd:cd19503 157 gRFDREVEI 165
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 484-626 6.12e-14

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 69.71  E-value: 6.12e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825    484 PKGVLLYGPPGCAKTTVAKCLAKEA----------DMTFIATSAAEVY-------SPYVGCAERFISRIFDTARKNAPCL 546
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELgppgggviyiDGEDILEEVLDQLlliivggKKASGSGELRLRLALALARKLKPDV 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825    547 IFLDEIDSLVGRRTvssgggggqvqlRILSTLLTEMNGIVGGGSQQHILVVAATNRPDMIDDALLRPgRFDKLIHVPAPD 626
Cdd:smart00382  82 LILDEITSLLDAEQ------------EALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLIL 148
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 201-431 7.31e-14

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: 74.18  E-value: 7.31e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 201 MEQLEKLLETSKISFSHRF----------PTTALVVGPVDCGKS---GLLSEFLRRHscncFY-ITASQVLRSYPGETEE 266
Cdd:COG0464 162 LEEVKEELRELVALPLKRPelreeyglppPRGLLLYGPPGTGKTllaRALAGELGLP----LIeVDLSDLVSKYVGETEK 237

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 267 ELRRIFQAAqtfkeklRPLLPIVILIEDLELLCPStavADAKNSSNSLRISAELYKLLDALPRGIICLATSGVPDSLHEH 346
Cdd:COG0464 238 NLREVFDKA-------RGLAPCVLFIDEADALAGK---RGEVGDGVGRRVVNTLLTEMEELRSDVVVIAATNRPDLLDPA 307

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 347 ARRRFVREVTINMPSEGQRRQLVEHLCEVHELNiSQTLLEHIARNTQGYVIADLTLLLRRVQQQ--LLTKDDFDIEHiFL 424
Cdd:COG0464 308 LLRRFDEIIFFPLPDAEERLEIFRIHLRKRPLD-EDVDLEELAEATEGLSGADIRNVVRRAALQalRLGREPVTTED-LL 385


                ....*..
gi 24656825 425 KSLSQTQ 431
Cdd:COG0464 386 EALERED 392
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 470-622 1.30e-13

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: 68.92  E-value: 1.30e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 470 IRQSAAFARFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVyspyVGCAERfISRIFDTARKNApcLIFL 549
Cdd:cd19510   9 IKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSEV----VLTDDR-LNHLLNTAPKQS--IILL 81

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 24656825 550 DEID-SLVGRRTVSSGGGGGQVQLRI-LSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHV 622
Cdd:cd19510  82 EDIDaAFESREHNKKNPSAYGGLSRVtFSGLLNALDGV---ASSEERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 224-357 2.41e-12

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: 64.54  E-value: 2.41e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   224 LVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAqtfkeklRPLLPIVILIEDLELLCPSta 303
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAA-------KKLAPCVIFIDEIDALAGS-- 72

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825   304 vADAKNSSNSLRISAELYKLLD---ALPRGIICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:pfam00004  73 -RGSGGDSESRRVVNQLLTELDgftSSNSKVIVIAATNRPDKLDPALLGRFDRIIEF 128
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 646-692 2.49e-11

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: 58.70  E-value: 2.49e-11
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 24656825   646 NVFLQEIAARTDRYSGADLCNLCNEAAIEAFQRDFKatEIELQDFEK 692
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLE--AVTQEDLEE 45
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 218-436 6.92e-11

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: 65.70  E-value: 6.92e-11
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   218 RFPTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFqaaqtfkEKLRPLLPIVILIEDLEL 297
Cdd:TIGR01243 485 RPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIF-------RKARQAAPAIIFFDEIDA 557

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   298 LCP------STAVADaknssnslRISAELYKLLDAL--PRGIICLATSGVPDSLHEHARR--RFVREVTINMPSEGQRRQ 367
Cdd:TIGR01243 558 IAPargarfDTSVTD--------RIVNQLLTEMDGIqeLSNVVVIAATNRPDILDPALLRpgRFDRLILVPPPDEEARKE 629

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   368 LVehlcEVH--ELNISQTL-LEHIARNTQGYVIADLTLLLRR--------------------VQQQLLTKDDFDIEHiFL 424
Cdd:TIGR01243 630 IF----KIHtrSMPLAEDVdLEELAEMTEGYTGADIEAVCREaamaalresigspakeklevGEEEFLKDLKVEMRH-FL 704

                         250
                  ....*....|..
gi 24656825   425 KSLSQTQPSASR 436
Cdd:TIGR01243 705 EALKKVKPSVSK 716
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
220-429 1.23e-10

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 62.21  E-value: 1.23e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSgLLSEFLrrhsCN-----CFYITASQVLRSYPGETEEELRRIFQAAQTfkeklrplLPIVILIED 294
Cdd:COG1223  35 PRKILFYGPPGTGKT-MLAEAL----AGelklpLLTVRLDSLIGSYLGETARNLRKLFDFARR--------APCVIFFDE 101

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 295 LELLC----PSTAVADAKNSSNSlrisaeLYKLLDALPRGIICLATSGVPDSLHEHARRRFVREVTINMPSEGQRRQLVE 370
Cdd:COG1223 102 FDAIAkdrgDQNDVGEVKRVVNA------LLQELDGLPSGSVVIAATNHPELLDSALWRRFDEVIEFPLPDKEERKEILE 175

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 371 HLCEVHELNISQTlLEHIARNTQGYVIADL-TLLLRRVQQQLLTKDDFDIEHIFLKSLSQ 429
Cdd:COG1223 176 LNLKKFPLPFELD-LKKLAKKLEGLSGADIeKVLKTALKKAILEDREKVTKEDLEEALKQ 234
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 478-622 1.60e-10

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: 60.08  E-value: 1.60e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 478 RFGLSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVYS--------------PYVGCAERFISRIFDTARKNA 543
Cdd:cd19505   6 RLGLSPSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYnkpdfgnddwidgmLILKESLHRLNLQFELAKAMS 85

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24656825 544 PCLIFLDEIDSLVGRRTVSSGGGGGQVQLRILSTLLTEMngiVGGGSQQHILVVAATNRPDMIDDALLRPGRFDKLIHV 622
Cdd:cd19505  86 PCIIWIPNIHELNVNRSTQNLEEDPKLLLGLLLNYLSRD---FEKSSTRNILVIASTHIPQKVDPALIAPNRLDTCINI 161
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 482-621 3.50e-10

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: 59.08  E-value: 3.50e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 482 SLPKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSAAEVySPYVGCAERFISRIFDTARK-NAPCLIFLDEIDSLVGRRT 560
Cdd:cd19512  20 GLYRNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDV-APMGREGVTAIHKVFDWANTsRRGLLLFVDEADAFLRKRS 98

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24656825 561 VSsgggggqvqlRILSTLLTEMNGIVGGGSQQH--ILVVAATNRPDMIDDALlrPGRFDKLIH 621
Cdd:cd19512  99 TE----------KISEDLRAALNAFLYRTGEQSnkFMLVLASNQPEQFDWAI--NDRIDEMVE 149
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 220-358 2.28e-09

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: 56.91  E-value: 2.28e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSgLLSEFLRRHSCNCFY-ITASQVLRSYPGETEEELRRIFQAAqtfkeklRPLLPIVILIEDLELL 298
Cdd:cd19481  26 PKGILLYGPPGTGKT-LLAKALAGELGLPLIvVKLSSLLSKYVGESEKNLRKIFERA-------RRLAPCILFIDEIDAI 97

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24656825 299 CPSTavADAKNSSNSLRISAELYKLLDALPR--GIICLATSGVPDSLHEHARRRFVREVTIN 358
Cdd:cd19481  98 GRKR--DSSGESGELRRVLNQLLTELDGVNSrsKVLVIAATNRPDLLDPALLRPGRFDEVIE 157
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 487-552 5.00e-09

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 58.91  E-value: 5.00e-09
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 487 VLLYGPPGCAKTTVAKCLAKEADMTFIATSAaeVYSpyvGCAErfISRIFDTARKNA----PCLIFLDEI 552
Cdd:COG2256  52 MILWGPPGTGKTTLARLIANATDAEFVALSA--VTS---GVKD--IREVIEEARERRaygrRTILFVDEI 114
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 220-357 6.57e-09

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: 55.52  E-value: 6.57e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAqtfKEKlrplLPIVILIEDLELLC 299
Cdd:cd19519  34 PRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEA---EKN----APAIIFIDEIDAIA 106

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24656825 300 PSTavaDAKNSSNSLRISAELYKLLDALP-RG-IICLATSGVPDSLHEHARR--RFVREVTI 357
Cdd:cd19519 107 PKR---EKTHGEVERRIVSQLLTLMDGLKqRAhVIVMAATNRPNSIDPALRRfgRFDREIDI 165
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 220-357 8.67e-09

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: 55.05  E-value: 8.67e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSgLLSEFLRRHSCNCFY-ITASQVLRSYPGETEEELRRIFQAAqtfkeklRPLLPIVILIEDLELL 298
Cdd:cd19509  32 PRGILLYGPPGTGKT-LLARAVASESGSTFFsISASSLVSKWVGESEKIVRALFALA-------RELQPSIIFIDEIDSL 103

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 24656825 299 CPSTavaDAKNSSNSLRISAELYKLLDALP----RGIICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:cd19509 104 LSER---GSGEHEASRRVKTEFLVQMDGVLnkpeDRVLVLGATNRPWELDEAFLRRFEKRIYI 163
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 487-552 2.07e-08

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 57.02  E-value: 2.07e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  487 VLLYGPPGCAKTTVAKCLAKEADMTFIATSAaeVYSpyvGCAErfISRIFDTARKNA----PCLIFLDEI 552
Cdd:PRK13342  39 MILWGPPGTGKTTLARIIAGATDAPFEALSA--VTS---GVKD--LREVIEEARQRRsagrRTILFIDEI 101
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 487-610 4.25e-08

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: 53.99  E-value: 4.25e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 487 VLLYGPPGCAKTTVAKCLAKEADM---------TFIATSAAEVYSPYVGCAERFISRIFDTAR---KNAPCLIFL--DEI 552
Cdd:cd19508  55 VLLHGPPGTGKTSLCKALAQKLSIrlssryrygQLIEINSHSLFSKWFSESGKLVTKMFQKIQeliDDKDALVFVliDEV 134

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 24656825 553 DSLVGRRTVSSGGGGGQVQLRILSTLLTEMNGIvggGSQQHILVVAATNRPDMIDDAL 610
Cdd:cd19508 135 ESLAAARSASSSGTEPSDAIRVVNAVLTQIDRI---KRYHNNVILLTSNLLEKIDVAF 189
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 215-357 2.19e-07

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: 51.40  E-value: 2.19e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 215 FSH-RFPTTA-LVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILI 292
Cdd:cd19521  33 FTGnRKPWSGiLLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENK-------PSIIFI 105

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 24656825 293 EDLELLCPSTAVADaknSSNSLRISAELYKLLDAL---PRGIICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:cd19521 106 DEVDSLCGTRGEGE---SEASRRIKTELLVQMNGVgndSQGVLVLGATNIPWQLDSAIRRRFEKRIYI 170
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 220-357 3.56e-07

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: 51.14  E-value: 3.56e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAqtfkeklRPLLPIVILIEDLELLC 299
Cdd:cd19525  55 PKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFSVA-------RCKQPAVIFIDEIDSLL 127

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 24656825 300 PSTAvaDAKNSSnSLRISAELYKLLDALPRG----IICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:cd19525 128 SQRG--EGEHES-SRRIKTEFLVQLDGATTSsedrILVVGATNRPQEIDEAARRRLVKRLYI 186
PRK04195 PRK04195
replication factor C large subunit; Provisional
 484-558 1.45e-06

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 51.46  E-value: 1.45e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  484 PKGVLLYGPPGCAKTTVAKCLAKEADMTFIATSA-----AEVYSPYVGCAERFISrIFDTARKnapcLIFLDEIDSLVGR 558
Cdd:PRK04195  39 KKALLLYGPPGVGKTSLAHALANDYGWEVIELNAsdqrtADVIERVAGEAATSGS-LFGARRK----LILLDEVDGIHGN 113
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 220-341 3.25e-06

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: 47.87  E-value: 3.25e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 220 PTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLELLC 299
Cdd:cd19530  30 PTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQVFQRARASA-------PCVIFFDEVDALV 102

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....
gi 24656825 300 PSTavaDAKNSSNSLRISAELYKLLDALP--RGIICLATSGVPD 341
Cdd:cd19530 103 PKR---GDGGSWASERVVNQLLTEMDGLEerSNVFVIAATNRPD 143
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 202-357 3.75e-06

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: 47.57  E-value: 3.75e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 202 EQLEKLLETSKISFSHRFPTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAqtfkeK 281
Cdd:cd19523  15 EVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKILQASFLAA-----R 89

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 24656825 282 LRPllPIVILIEDLELLCPSTAVADAKNSSNSLRISAELYKLLDALPRGIICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:cd19523  90 CRQ--PSVLFISDLDALLSSQDDEASPVGRLQVELLAQLDGVLGSGEDGVLVVCTTSKPEEIDESLRRYFSKRLLV 163
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 218-341 1.11e-05

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


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 46.12  E-value: 1.11e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 218 RFPTTALVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLEL 297
Cdd:cd19511  25 RPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQKARQAA-------PCIIFFDEIDS 97

                        90       100       110       120
                ....*....|....*....|....*....|....*....|....*.
gi 24656825 298 LCPSTAVADAKNSSNslRISAELYKLLDALP--RGIICLATSGVPD 341
Cdd:cd19511  98 LAPRRGQSDSSGVTD--RVVSQLLTELDGIEslKGVVVIAATNRPD 141
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 483-558 1.20e-05

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: 46.60  E-value: 1.20e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 24656825 483 LPKGVLLYGPPGCAKTTVAKCLAKEADMTFI---ATSAAEVysPYVGcaeRFISRIFdtaRKNAPCLIFLDEIDSLVGR 558
Cdd:cd19498  45 TPKNILMIGPTGVGKTEIARRLAKLAGAPFIkveATKFTEV--GYVG---RDVESII---RDLVEGIVFIDEIDKIAKR 115
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
485-522 1.33e-05

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 48.04  E-value: 1.33e-05
                        10        20        30        40
                ....*....|....*....|....*....|....*....|
gi 24656825 485 KGVLLYGPPGCAKTTVAKCLAKE--ADMTFIATSAAEVYS 522
Cdd:COG1224  65 KGILIVGPPGTGKTALAVAIARElgEDTPFVAISGSEIYS 104
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 224-351 1.17e-04

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: 43.27  E-value: 1.17e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 224 LVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAQTFKeklrpllPIVILIEDLELLCPSTA 303
Cdd:cd19527  30 LLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQKARDAK-------PCVIFFDELDSLAPSRG 102

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825 304 vadakNSSNS----LRISAELYKLLDAL---PRGIICLATSGVPDSLHEHARR--RF 351
Cdd:cd19527 103 -----NSGDSggvmDRVVSQLLAELDGMsssGQDVFVIGATNRPDLLDPALLRpgRF 154
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 224-357 1.43e-04

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: 42.91  E-value: 1.43e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 224 LVVGPVDCGKSGLLSEFLRRHSCNCFYITASQVLRSYPGETEEELRRIFQAAqtfkeklRPLLPIVILIEDLE-LLCP-S 301
Cdd:cd19524  37 LLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVA-------RELQPSIIFIDEVDsLLSErS 109

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 302 TAVADAknssnSLRISAELYKLLDALPRG----IICLATSGVPDSLHEHARRRFVREVTI 357
Cdd:cd19524 110 EGEHEA-----SRRLKTEFLIEFDGVQSNgddrVLVMGATNRPQELDDAVLRRFTKRVYV 164
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 451-553 2.55e-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: 43.36  E-value: 2.55e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 451 VIGGMEAlKRTLQVSV---LAGIRQSAAFARFGLSLPKG-VLLYGPPGCAKTTVAKCLAKEADMTFI---ATSAAEvySP 523
Cdd:cd19497  14 VIGQERA-KKVLSVAVynhYKRIRNNLKQKDDDVELEKSnILLIGPTGSGKTLLAQTLAKILDVPFAiadATTLTE--AG 90

                        90       100       110
                ....*....|....*....|....*....|....*.
gi 24656825 524 YVG-CAERFISRI-----FDTARKNAPcLIFLDEID 553
Cdd:cd19497  91 YVGeDVENILLKLlqaadYDVERAQRG-IVYIDEID 125
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 450-642 3.20e-04

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: 43.23  E-value: 3.20e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 450 EVIGGMEALKRTLQVSVLAGirqsaafarfglslpKGVLLYGPPGCAKTTVAKCLAKEADMTFI---ATS---AA----- 518
Cdd:COG0714  12 KVYVGQEELIELVLIALLAG---------------GHLLLEGVPGVGKTTLAKALARALGLPFIriqFTPdllPSdilgt 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 519 EVYSPYVGcAERFISR-IFdtarKNapcLIFLDEIDslvgrRTVSsgggggqvqlRILSTLLTEM-NGIVGGGSQQHIL- 595
Cdd:COG0714  77 YIYDQQTG-EFEFRPGpLF----AN---VLLADEIN-----RAPP----------KTQSALLEAMeERQVTIPGGTYKLp 133

                       170       180       190       200       210
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 24656825 596 ----VVAATNRPDMID-----DALLRpgRFDKLIHVPAPDEKSRLALLKLHSQRMP 642
Cdd:COG0714 134 epflVIATQNPIEQEGtyplpEAQLD--RFLLKLYIGYPDAEEEREILRRHTGRHL 187
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 454-517 3.46e-04

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


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 41.72  E-value: 3.46e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24656825   454 GMEALKRTLQVSVlagirqSAAFARfGLSLPKgVLLYGPPGCAKTTVAKCLAKEADMTFIATSA 517
Cdd:pfam05496  11 GQEKVKENLKIFI------EAAKQR-GEALDH-VLLYGPPGLGKTTLANIIANEMGVNIRITSG 66
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 451-553 4.35e-04

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: 41.78  E-value: 4.35e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 451 VIGGMEALKrtlqvSVLAGIRQsaafARFGLSLPK---GVLLY-GPPGCAKTTVAKCLAK-----EADMTFIATS----- 516
Cdd:cd19499  13 VVGQDEAVK-----AVSDAIRR----ARAGLSDPNrpiGSFLFlGPTGVGKTELAKALAEllfgdEDNLIRIDMSeymek 83

                        90       100       110       120
                ....*....|....*....|....*....|....*....|..
gi 24656825 517 ---AAEVYSP--YVGcaERFISRIFDTARKNAPCLIFLDEID 553
Cdd:cd19499  84 hsvSRLIGAPpgYVG--YTEGGQLTEAVRRKPYSVVLLDEIE 123
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 484-553 4.50e-04

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: 41.41  E-value: 4.50e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   484 PKGV-LLYGPPGCAKTTVAKCLAKE----------ADMTFIAT----SAAEVYSP-YVGCAERFIsrIFDTARKNAPCLI 547
Cdd:pfam07724   2 PIGSfLFLGPTGVGKTELAKALAELlfgderalirIDMSEYMEehsvSRLIGAPPgYVGYEEGGQ--LTEAVRRKPYSIV 79


                  ....*.
gi 24656825   548 FLDEID 553
Cdd:pfam07724  80 LIDEIE 85
CDC6 COG1474
Cdc6-related protein, AAA superfamily ATPase [Replication, recombination and repair];
455-661 6.54e-04

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


Pssm-ID: 441083 [Multi-domain]  Cd Length: 389  Bit Score: 42.53  E-value: 6.54e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 455 MEALKRTLQvSVLAGirqsaafarfglSLPKGVLLYGPPGCAKTTVAKCLAKEADMTFiATSAAEVYSPYVGCAE----- 529
Cdd:COG1474  35 IEELASALR-PALRG------------ERPSNVLIYGPTGTGKTAVAKYVLEELEEEA-EERGVDVRVVYVNCRQastry 100

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 530 RFISRIFDT-------------------------ARKNAPCLIFLDEIDSLVGRRTVssgggggqvqlRILSTlLTEMNG 584
Cdd:COG1474 101 RVLSRILEElgsgedipstglstdelfdrlyealDERDGVLVVVLDEIDYLVDDEGD-----------DLLYQ-LLRANE 168

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825 585 IVGGGsqqHILVVAATNRPDMIDdallrpgRFDklihvpaPDEKSRLALLKLH-------------SQR--MPFHENVF- 648
Cdd:COG1474 169 ELEGA---RVGVIGISNDLEFLE-------NLD-------PRVKSSLGEEEIVfppydadelrdilEDRaeLAFYDGVLs 231

                       250
                ....*....|....*.
gi 24656825 649 ---LQEIAARTDRYSG 661
Cdd:COG1474 232 devIPLIAALAAQEHG 247
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 486-616 1.29e-03

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: 39.58  E-value: 1.29e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825   486 GVLLYGPPGCAKTTVAKCLAK--EADMTFI-----ATSAAEV---YSPYVGCAERFISRIFDTARKnaPCLIFLDEIDsl 555
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAAalSNRPVFYvqltrDTTEEDLfgrRNIDPGGASWVDGPLVRAARE--GEIAVLDEIN-- 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24656825   556 vgrrtvSSGGGGGQVQLRILS--TLLTEMNGIVGGGSQQHILVVAATNRPDM----IDDALLRpgRF 616
Cdd:pfam07728  77 ------RANPDVLNSLLSLLDerRLLLPDGGELVKAAPDGFRLIATMNPLDRglneLSPALRS--RF 135
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 454-517 1.89e-03

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


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 41.22  E-value: 1.89e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24656825 454 GMEALKRTLQVSVlagirqSAAFARfGLSLPKgVLLYGPPGCAKTTVAKCLAKEADMTFIATSA 517
Cdd:COG2255  32 GQEKVKENLKIFI------EAAKKR-GEALDH-VLLYGPPGLGKTTLAHIIANEMGVNIRITSG 87
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
454-517 2.94e-03

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 40.50  E-value: 2.94e-03
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 24656825  454 GMEALKRTLQVSVLAGIRQSAAFARfglslpkgVLLYGPPGCAKTTVAKCLAKEADMTFIATSA 517
Cdd:PRK00080  29 GQEKVKENLKIFIEAAKKRGEALDH--------VLLYGPPGLGKTTLANIIANEMGVNIRITSG 84
rfc PRK00440
replication factor C small subunit; Reviewed
 488-560 7.53e-03

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 39.09  E-value: 7.53e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24656825  488 LLYGPPGCAKTTVAKCLAKEA-----DMTFIATSAAEvyspyvgcaERFI----SRIFDTAR----KNAPC-LIFLDEID 553
Cdd:PRK00440  42 LFAGPPGTGKTTAALALARELygedwRENFLELNASD---------ERGIdvirNKIKEFARtapvGGAPFkIIFLDEAD 112

                         90
                 ....*....|...
gi 24656825  554 SLVG------RRT 560
Cdd:PRK00440 113 NLTSdaqqalRRT 125
 
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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