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Conserved domains on  [gi|495775786|ref|WP_008500365|]
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MULTISPECIES: terminase large subunit domain-containing protein [Enterobacteriaceae]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
P super family cl33681
terminase ATPase subunit; Provisional
 8-571 0e+00

terminase ATPase subunit; Provisional


The actual alignment was detected with superfamily member PHA02535:

Pssm-ID: 222859 [Multi-domain]  Cd Length: 581  Bit Score: 671.40  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786   8 IMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQLTGKDKKTGGDFKEIDLLTRQLK 87
Cdd:PHA02535   7 VRRAAKFLYWQGWTVAEIAEELGLKSRTIYSWKERDGWRDLLPEERIEESIEARLIQLIEKENKTGGDYKEIDLLIRQHE 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  88 KL---------DNGT------AATQPKKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYD-NHHWRNRMILKSRQVGA 151
Cdd:PHA02535  87 RLarvrrysgtGNEAdlnpnvANRNKGPKRKPVKNDISDEQTEKLIEAFLDSLFDYQKHWYRaGLHHRTRNILKSRQIGA 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 152 TWYFAREALVRALSEDvkykhqRNQIFLSASRRQAYQFRSFIRSAAEE-VDVELKGgDMIQLFNGAELHFLGTSAATAQS 230
Cdd:PHA02535 167 TYYFAREALEDALLTG------RNQIFLSASKAQAHVFKQYIIAFAREaADVELTG-DPIILPNGAELHFLGTNANTAQS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 231 YTGNLYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRSHGKRIEFDTSWKTLNSGLM 310
Cdd:PHA02535 240 YHGNVYFDEYFWIPKFQELNKVASGMATHKHWRKTYFSTPSSKTHEAYPFWSGELFNRGRPKRERIEIDTSHEALDGGRL 319

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 311 CPDKIWRQIVTLQDAIDHGWDLTDIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRLLACGADGYDDWPDWRPYAARPM 390
Cdd:PHA02535 320 CPDGQWRQIVTIEDALKGGCDLFDIEELRREYSAEDFANLFMCVFIDDAASVFPFSDLQRCMVDSWEEWEDYKPFAARPF 399

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 391 ADRPVWIGYDPngaSGKGDSGAISVNAVPMVPGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVY 470
Cdd:PHA02535 400 GSREVWVGYDP---AHTGDSAGLVVVAPPAVPGGKFRVLERHQWRGLDFAEQAAEIRKLTEKYNVTYIGIDATGIGAGVY 476

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 471 QLVKKHFPAAVCYQFSPSSKRMLVLKMQQLIRGGRWEFDRGELDLVGAFNSVRKIVTPGG-VVTYDTDRSRGVSHGDLAW 549
Cdd:PHA02535 477 QLVKKFFPAAVAINYSPEVKTRLVLKAHDVIEHGRLEFDAGWTDIAASFMAIKKTSTASGrQMTYTAERSEETGHADLAW 556

                        570       580
                 ....*....|....*....|..
gi 495775786 550 ATMLATINEPLgqEGGSSMTVT 571
Cdd:PHA02535 557 ACMHALINEPL--DGGTRRKST 576
 
Name Accession Description Interval E-value
P PHA02535
terminase ATPase subunit; Provisional
 8-571 0e+00

terminase ATPase subunit; Provisional


Pssm-ID: 222859 [Multi-domain]  Cd Length: 581  Bit Score: 671.40  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786   8 IMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQLTGKDKKTGGDFKEIDLLTRQLK 87
Cdd:PHA02535   7 VRRAAKFLYWQGWTVAEIAEELGLKSRTIYSWKERDGWRDLLPEERIEESIEARLIQLIEKENKTGGDYKEIDLLIRQHE 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  88 KL---------DNGT------AATQPKKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYD-NHHWRNRMILKSRQVGA 151
Cdd:PHA02535  87 RLarvrrysgtGNEAdlnpnvANRNKGPKRKPVKNDISDEQTEKLIEAFLDSLFDYQKHWYRaGLHHRTRNILKSRQIGA 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 152 TWYFAREALVRALSEDvkykhqRNQIFLSASRRQAYQFRSFIRSAAEE-VDVELKGgDMIQLFNGAELHFLGTSAATAQS 230
Cdd:PHA02535 167 TYYFAREALEDALLTG------RNQIFLSASKAQAHVFKQYIIAFAREaADVELTG-DPIILPNGAELHFLGTNANTAQS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 231 YTGNLYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRSHGKRIEFDTSWKTLNSGLM 310
Cdd:PHA02535 240 YHGNVYFDEYFWIPKFQELNKVASGMATHKHWRKTYFSTPSSKTHEAYPFWSGELFNRGRPKRERIEIDTSHEALDGGRL 319

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 311 CPDKIWRQIVTLQDAIDHGWDLTDIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRLLACGADGYDDWPDWRPYAARPM 390
Cdd:PHA02535 320 CPDGQWRQIVTIEDALKGGCDLFDIEELRREYSAEDFANLFMCVFIDDAASVFPFSDLQRCMVDSWEEWEDYKPFAARPF 399

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 391 ADRPVWIGYDPngaSGKGDSGAISVNAVPMVPGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVY 470
Cdd:PHA02535 400 GSREVWVGYDP---AHTGDSAGLVVVAPPAVPGGKFRVLERHQWRGLDFAEQAAEIRKLTEKYNVTYIGIDATGIGAGVY 476

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 471 QLVKKHFPAAVCYQFSPSSKRMLVLKMQQLIRGGRWEFDRGELDLVGAFNSVRKIVTPGG-VVTYDTDRSRGVSHGDLAW 549
Cdd:PHA02535 477 QLVKKFFPAAVAINYSPEVKTRLVLKAHDVIEHGRLEFDAGWTDIAASFMAIKKTSTASGrQMTYTAERSEETGHADLAW 556

                        570       580
                 ....*....|....*....|..
gi 495775786 550 ATMLATINEPLgqEGGSSMTVT 571
Cdd:PHA02535 557 ACMHALINEPL--DGGTRRKST 576
YjcR COG5484
Uncharacterized conserved protein YjcR, contains N-terminal HTH domain [Function unknown];
12-572 0e+00

Uncharacterized conserved protein YjcR, contains N-terminal HTH domain [Function unknown];


Pssm-ID: 444235 [Multi-domain]  Cd Length: 586  Bit Score: 634.72  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  12 ARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQLTGKDKKTGGDFKEIDLLTRQLKKL-- 89
Cdd:COG5484   16 AKLLYWKGWRVAEIAEELGLKARTVYSWKERDNWDDLLPVERVEEAIERRLILLIAKENKTDADYKEIDLLIRQLERLar 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  90 -----DNGT-AATQP-------KKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYDN-HHWRNRMILKSRQVGATWYF 155
Cdd:COG5484   96 ikkyeNGGNeADLNPnvanrnkGKRKKPVKNDISEETIEDLEEAFLDGLFDYQKHWYEAgLKHRIRNILKSRQIGATYYF 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 156 AREALVRALsedvkyKHQRNQIFLSASRRQAYQFRSFIRS-AAEEVDVELKGgDMIQLFNGAELHFLGTSAATAQSYTGN 234
Cdd:COG5484  176 AREALEDAI------LTGRNQIFLSASKAQAHVFRSYIIAfAREAFGVELKG-DPIVLSNGAELYFLGTNSRTAQSYHGN 248

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 235 LYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRSHGKRIEFDTSWKTLNSGLMCPDK 314
Cdd:COG5484  249 LYIDEYFWIPNFQELRKVASGMATHKKWRKTYFSTPSSKTHEAYPFWSGELFNKGRAKRDRVDFDVSHEALKGGRLCPDG 328

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 315 IWRQIVTLQDAIDHGWDLTDIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRLLACGADGYDDWPDWRPYAARPMADRP 394
Cdd:COG5484  329 QWRQIVTIEDAIAGGCDLFDIDELRLEYSPDEFFNLLMCEFVDDDASVFFFSELQRCMVDSWEVWDDDPPPAARPPGGEP 408

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 395 VWIGYDPngASGKGDSGAISVnAVPMVPGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVYQLVK 474
Cdd:COG5484  409 VWGGYDP--ASRDDDSAVVVV-APPPAPGGKFRLLLELWRGGNDFEQAAAIIKKFKQRYNVVYIIIDTGGGGGVVVLLVQ 485

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 475 KHFPAAVCYQFSPSSKRMLVLKMQQLIRGGRWEFDRGELDLVGAFNSVRKIVT-PGGVVTYDTDRSRGVSHGDLAWATML 553
Cdd:COG5484  486 QFFPPAPAIIYYVEEKNRLVLKKADVIIKGRLEEDEGDKDIAAAFMAIIRTTTtSGGSGTTYAARATETGHAADAAAAAH 565

                        570
                 ....*....|....*....
gi 495775786 554 ATINEPLGQEGGSSMTVTE 572
Cdd:COG5484  566 ALINEPLEPGTKANSSSME 584
Terminase_6N pfam03237
Terminase large subunit, T4likevirus-type, N-terminal; This entry represents the N-terminal ...
 143-368 2.81e-49

Terminase large subunit, T4likevirus-type, N-terminal; This entry represents the N-terminal domain of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. It includes the terminase large subunit of Bacteriophage T4 (terminase gene 17, Gp17). homologs are also found in Gene Transfer Agents (GTA), including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata).


Pssm-ID: 427210 [Multi-domain]  Cd Length: 214  Bit Score: 169.90  E-value: 2.81e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  143 ILKSRQVGATWYFAREALVRALSedvkyKHQRNQIFLSASRRQAY----QFRSFIRSAAEE-VDVELKGGDM--IQLFNG 215
Cdd:pfam03237   1 ILGGRQSGKTFAGARELLRHALG-----RGPENQIILSASKGQAReeggEFPKGIIELARDlLDPDFEESNKgsIVLSNG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  216 AELHFLGTSAATAQSYTG----NLYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRS 291
Cdd:pfam03237  76 ASLHFLSLNASTAGGYRGaqidAIYFDEFAWIPKFQESWKVTRLRATLGTDTKTFITTPPTPLHGVYDFWTGWLEEKGPP 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 495775786  292 HGKRIEFDTSWktlnsglmcpdkiwrqivTLQDAIDHGWDLtdIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRL 368
Cdd:pfam03237 156 SYVKIPATVEA------------------TIEDAVKLGEDL--IEELEALYSPDEFAQLLLGEFIDTSGSIFPRSWL 212
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 16-42 2.15e-03

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.87  E-value: 2.15e-03
                          10        20
                  ....*....|....*....|....*..
gi 495775786   16 YWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:TIGR02937 123 YLEGLSYKEIAEILGISVGTVKRRLKR 149
transpos_IS630 NF033545
IS630 family transposase;
10-42 9.87e-03

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 38.39  E-value: 9.87e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 495775786  10 QRARQLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:NF033545   3 ARILLLAAEGLSITEIAERLGVSRSTVYRWLKR 35
 
Name Accession Description Interval E-value
P PHA02535
terminase ATPase subunit; Provisional
 8-571 0e+00

terminase ATPase subunit; Provisional


Pssm-ID: 222859 [Multi-domain]  Cd Length: 581  Bit Score: 671.40  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786   8 IMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQLTGKDKKTGGDFKEIDLLTRQLK 87
Cdd:PHA02535   7 VRRAAKFLYWQGWTVAEIAEELGLKSRTIYSWKERDGWRDLLPEERIEESIEARLIQLIEKENKTGGDYKEIDLLIRQHE 86

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  88 KL---------DNGT------AATQPKKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYD-NHHWRNRMILKSRQVGA 151
Cdd:PHA02535  87 RLarvrrysgtGNEAdlnpnvANRNKGPKRKPVKNDISDEQTEKLIEAFLDSLFDYQKHWYRaGLHHRTRNILKSRQIGA 166

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 152 TWYFAREALVRALSEDvkykhqRNQIFLSASRRQAYQFRSFIRSAAEE-VDVELKGgDMIQLFNGAELHFLGTSAATAQS 230
Cdd:PHA02535 167 TYYFAREALEDALLTG------RNQIFLSASKAQAHVFKQYIIAFAREaADVELTG-DPIILPNGAELHFLGTNANTAQS 239

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 231 YTGNLYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRSHGKRIEFDTSWKTLNSGLM 310
Cdd:PHA02535 240 YHGNVYFDEYFWIPKFQELNKVASGMATHKHWRKTYFSTPSSKTHEAYPFWSGELFNRGRPKRERIEIDTSHEALDGGRL 319

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 311 CPDKIWRQIVTLQDAIDHGWDLTDIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRLLACGADGYDDWPDWRPYAARPM 390
Cdd:PHA02535 320 CPDGQWRQIVTIEDALKGGCDLFDIEELRREYSAEDFANLFMCVFIDDAASVFPFSDLQRCMVDSWEEWEDYKPFAARPF 399

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 391 ADRPVWIGYDPngaSGKGDSGAISVNAVPMVPGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVY 470
Cdd:PHA02535 400 GSREVWVGYDP---AHTGDSAGLVVVAPPAVPGGKFRVLERHQWRGLDFAEQAAEIRKLTEKYNVTYIGIDATGIGAGVY 476

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 471 QLVKKHFPAAVCYQFSPSSKRMLVLKMQQLIRGGRWEFDRGELDLVGAFNSVRKIVTPGG-VVTYDTDRSRGVSHGDLAW 549
Cdd:PHA02535 477 QLVKKFFPAAVAINYSPEVKTRLVLKAHDVIEHGRLEFDAGWTDIAASFMAIKKTSTASGrQMTYTAERSEETGHADLAW 556

                        570       580
                 ....*....|....*....|..
gi 495775786 550 ATMLATINEPLgqEGGSSMTVT 571
Cdd:PHA02535 557 ACMHALINEPL--DGGTRRKST 576
YjcR COG5484
Uncharacterized conserved protein YjcR, contains N-terminal HTH domain [Function unknown];
12-572 0e+00

Uncharacterized conserved protein YjcR, contains N-terminal HTH domain [Function unknown];


Pssm-ID: 444235 [Multi-domain]  Cd Length: 586  Bit Score: 634.72  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  12 ARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQLTGKDKKTGGDFKEIDLLTRQLKKL-- 89
Cdd:COG5484   16 AKLLYWKGWRVAEIAEELGLKARTVYSWKERDNWDDLLPVERVEEAIERRLILLIAKENKTDADYKEIDLLIRQLERLar 95

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  90 -----DNGT-AATQP-------KKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYDN-HHWRNRMILKSRQVGATWYF 155
Cdd:COG5484   96 ikkyeNGGNeADLNPnvanrnkGKRKKPVKNDISEETIEDLEEAFLDGLFDYQKHWYEAgLKHRIRNILKSRQIGATYYF 175

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 156 AREALVRALsedvkyKHQRNQIFLSASRRQAYQFRSFIRS-AAEEVDVELKGgDMIQLFNGAELHFLGTSAATAQSYTGN 234
Cdd:COG5484  176 AREALEDAI------LTGRNQIFLSASKAQAHVFRSYIIAfAREAFGVELKG-DPIVLSNGAELYFLGTNSRTAQSYHGN 248

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 235 LYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRSHGKRIEFDTSWKTLNSGLMCPDK 314
Cdd:COG5484  249 LYIDEYFWIPNFQELRKVASGMATHKKWRKTYFSTPSSKTHEAYPFWSGELFNKGRAKRDRVDFDVSHEALKGGRLCPDG 328

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 315 IWRQIVTLQDAIDHGWDLTDIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRLLACGADGYDDWPDWRPYAARPMADRP 394
Cdd:COG5484  329 QWRQIVTIEDAIAGGCDLFDIDELRLEYSPDEFFNLLMCEFVDDDASVFFFSELQRCMVDSWEVWDDDPPPAARPPGGEP 408

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 395 VWIGYDPngASGKGDSGAISVnAVPMVPGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVYQLVK 474
Cdd:COG5484  409 VWGGYDP--ASRDDDSAVVVV-APPPAPGGKFRLLLELWRGGNDFEQAAAIIKKFKQRYNVVYIIIDTGGGGGVVVLLVQ 485

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 475 KHFPAAVCYQFSPSSKRMLVLKMQQLIRGGRWEFDRGELDLVGAFNSVRKIVT-PGGVVTYDTDRSRGVSHGDLAWATML 553
Cdd:COG5484  486 QFFPPAPAIIYYVEEKNRLVLKKADVIIKGRLEEDEGDKDIAAAFMAIIRTTTtSGGSGTTYAARATETGHAADAAAAAH 565

                        570
                 ....*....|....*....
gi 495775786 554 ATINEPLGQEGGSSMTVTE 572
Cdd:COG5484  566 ALINEPLEPGTKANSSSME 584
Terminase_6N pfam03237
Terminase large subunit, T4likevirus-type, N-terminal; This entry represents the N-terminal ...
 143-368 2.81e-49

Terminase large subunit, T4likevirus-type, N-terminal; This entry represents the N-terminal domain of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. It includes the terminase large subunit of Bacteriophage T4 (terminase gene 17, Gp17). homologs are also found in Gene Transfer Agents (GTA), including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata).


Pssm-ID: 427210 [Multi-domain]  Cd Length: 214  Bit Score: 169.90  E-value: 2.81e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  143 ILKSRQVGATWYFAREALVRALSedvkyKHQRNQIFLSASRRQAY----QFRSFIRSAAEE-VDVELKGGDM--IQLFNG 215
Cdd:pfam03237   1 ILGGRQSGKTFAGARELLRHALG-----RGPENQIILSASKGQAReeggEFPKGIIELARDlLDPDFEESNKgsIVLSNG 75

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  216 AELHFLGTSAATAQSYTG----NLYFDEFFWVGQFANLKKVAGAMATLKGLTRTYFSTPSAESHEAYPFWTGEAFNKGRS 291
Cdd:pfam03237  76 ASLHFLSLNASTAGGYRGaqidAIYFDEFAWIPKFQESWKVTRLRATLGTDTKTFITTPPTPLHGVYDFWTGWLEEKGPP 155

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 495775786  292 HGKRIEFDTSWktlnsglmcpdkiwrqivTLQDAIDHGWDLtdIDEIREENSPEEYDNLYGCQFIKSGESAFDYNRL 368
Cdd:pfam03237 156 SYVKIPATVEA------------------TIEDAVKLGEDL--IEELEALYSPDEFAQLLLGEFIDTSGSIFPRSWL 212
Terminase_6C pfam17289
Terminase RNaseH-like domain;
397-558 9.99e-36

Terminase RNaseH-like domain;


Pssm-ID: 435843 [Multi-domain]  Cd Length: 154  Bit Score: 130.97  E-value: 9.99e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  397 IGYDPnGASGKGDSGAISVNAVPmvpGGKFRTIETLRIRGMEFEEQANLIIGMLTRYNVQHIGIDGTGIGEAVYQLVKKH 476
Cdd:pfam17289   1 IGVDP-AASVGGDYAAIVVIDVD---GDKFYLLAREQERGNSPALQAAAIKKLAERYNVIYIYIDGTGGGESVAELLKRA 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  477 FPAAVCYQFSPS--SKRMLVLKMQQLIRGGRWEFDRGeLDLVGAFNSVRKIVTPGGVvtydtDRSRGVSHGDLAWATMLA 554
Cdd:pfam17289  77 FPSAFAVRPEPAtkGKTARVLKVNDLIESGRLKVDKG-PDCANSFNALEKYHTDSGM-----ERSISTTHDDLADALRYA 150


                  ....
gi 495775786  555 TINE 558
Cdd:pfam17289 151 LLML 154
Terminase_5 pfam06056
Putative ATPase subunit of terminase (gpP-like); This family of proteins are annotated as ...
 7-64 4.79e-24

Putative ATPase subunit of terminase (gpP-like); This family of proteins are annotated as ATPase subunits of phage terminase after. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.


Pssm-ID: 428745 [Multi-domain]  Cd Length: 58  Bit Score: 95.15  E-value: 4.79e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 495775786    7 FIMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWDATPPIQRVTTSIDARLIQ 64
Cdd:pfam06056   1 DVRRQARFLYWQGYRPAEIAEMLGLKEATVYSWKQRDEWDGLDPLSRIESSIAARLVT 58
COG4373 COG4373
Mu-like prophage FluMu protein gp28 [Mobilome: prophages, transposons];
320-554 2.43e-06

Mu-like prophage FluMu protein gp28 [Mobilome: prophages, transposons];


Pssm-ID: 443501 [Multi-domain]  Cd Length: 512  Bit Score: 50.28  E-value: 2.43e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 320 VTLQDAIDHG----------WDLTD------IDEIR---EENSPEEYDnlygCQfIKSGESAF------------DYNRL 368
Cdd:COG4373  210 ITFDDAVADGlyericlvtgKPWSPeaeaawRADIRadyGDDADEELD----CI-PKDGGGAYlpralieacmsaDIPVL 284

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 369 LACGADGYDDWPDWRPYAArpMAD------RPVWIGYDPNGAS--G-----KGDSGAISVNAVpmVPGGKFRTIETLRIR 435
Cdd:COG4373  285 RWEGPDDFNLRPELEREAE--MADwceehlEPLLDALDPGLRHalGedfarSGDLSVIWPLEI--QQDLRRRVPFLVELR 360

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786 436 GMEFEEQANLIIGMLTR-YNVQHIGIDGTGIGEAVYQLVKKHF--PAAVCYQFSPSSKRMLVLKMQQLirggrweFDRGE 512
Cdd:COG4373  361 NVPFDQQEQILFYILDRlPRFAGGALDATGNGQYLAEAAAQRYgaERVEEVMLSEAWYRENMPPFKAA-------FEDGT 433

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|....*....
gi 495775786 513 LDLVGA---FNSVRKIVTPGGVVTYDTDRSRGVS----HGDLAWATMLA 554
Cdd:COG4373  434 LTIPKDedvLDDLRAVQLVRGVPRVPDGRTKGADggkrHGDSAIALALA 482
HTH_28 pfam13518
Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is ...
 10-42 2.42e-05

Helix-turn-helix domain; This helix-turn-helix domain is often found in transposases and is likely to be DNA-binding.


Pssm-ID: 463908 [Multi-domain]  Cd Length: 52  Bit Score: 41.81  E-value: 2.42e-05
                          10        20        30
                  ....*....|....*....|....*....|....*
gi 495775786   10 QRAR--QLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:pfam13518   1 ERLKivLLALEGESIKEAARLFGISRSTVYRWIRR 35
HTH_23 pfam13384
Homeodomain-like domain;
8-42 9.84e-05

Homeodomain-like domain;


Pssm-ID: 433164 [Multi-domain]  Cd Length: 50  Bit Score: 39.95  E-value: 9.84e-05
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 495775786    8 IMQRAR--QLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:pfam13384   4 ERRRARalLLLAEGLSVKEIAELLGVSRRTVYRWLKR 40
Sigma70_r4_2 pfam08281
Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 ...
 5-42 5.95e-04

Sigma-70, region 4; Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif.


Pssm-ID: 400535 [Multi-domain]  Cd Length: 54  Bit Score: 37.82  E-value: 5.95e-04
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 495775786    5 EAFIMqrarqLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:pfam08281  17 EVFLL-----RYLEGLSYAEIAELLGISEGTVKSRLSR 49
RpoE COG1595
DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; ...
 5-42 1.16e-03

DNA-directed RNA polymerase specialized sigma subunit, sigma24 family [Transcription]; DNA-directed RNA polymerase specialized sigma subunit, sigma24 family is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 441203 [Multi-domain]  Cd Length: 181  Bit Score: 40.36  E-value: 1.16e-03
                         10        20        30
                 ....*....|....*....|....*....|....*...
gi 495775786   5 EAFIMqrarqLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:COG1595  134 EVLVL-----RYLEGLSYAEIAEILGISEGTVKSRLSR 166
sigma70-ECF TIGR02937
RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the ...
 16-42 2.15e-03

RNA polymerase sigma factor, sigma-70 family; This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several Pfam models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.


Pssm-ID: 274357 [Multi-domain]  Cd Length: 158  Bit Score: 38.87  E-value: 2.15e-03
                          10        20
                  ....*....|....*....|....*..
gi 495775786   16 YWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:TIGR02937 123 YLEGLSYKEIAEILGISVGTVKRRLKR 149
Csa3 COG3415
CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein ...
 10-42 3.06e-03

CRISPR-associated protein Csa3, CARF domain [Defense mechanisms]; CRISPR-associated protein Csa3, CARF domain is part of the Pathway/BioSystem: CRISPR-Cas system


Pssm-ID: 442641 [Multi-domain]  Cd Length: 325  Bit Score: 39.83  E-value: 3.06e-03
                         10        20        30
                 ....*....|....*....|....*....|....*
gi 495775786  10 QRAR--QLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:COG3415   27 RRLRavLLLAEGLSVREIAERLGVSRSTVYRWLKR 61
InsE COG2963
Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];
18-65 3.09e-03

Transposase InsE and inactivated derivatives [Mobilome: prophages, transposons];


Pssm-ID: 442203 [Multi-domain]  Cd Length: 93  Bit Score: 37.21  E-value: 3.09e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|
gi 495775786  18 QGYPPAEIARLMGINQNTVYSWKK--RDEWDATPPIQRVTTSIDARLIQL 65
Cdd:COG2963   23 GGASVAEVARELGISPSTLYRWVRqyREGGLGGFPGDGRTTPEQAEIRRL 72
HTH_Tnp_1 pfam01527
Transposase; Transposase proteins are necessary for efficient DNA transposition. This family ...
 5-65 3.84e-03

Transposase; Transposase proteins are necessary for efficient DNA transposition. This family consists of various E. coli insertion elements and other bacterial transposases some of which are members of the IS3 family.


Pssm-ID: 426308 [Multi-domain]  Cd Length: 75  Bit Score: 36.56  E-value: 3.84e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 495775786    5 EAFIMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRDEWD-ATPPIQRVTTSIDARLIQL 65
Cdd:pfam01527   9 EEFKLRAVKEVLEPGRTVKEVARRHGVSPNTLYQWRRQYEGGmGASPARPRLTALEEENRRL 70
InsA COG3677
Transposase InsA [Mobilome: prophages, transposons];
8-175 4.87e-03

Transposase InsA [Mobilome: prophages, transposons];


Pssm-ID: 442893 [Multi-domain]  Cd Length: 241  Bit Score: 39.08  E-value: 4.87e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786   8 IMQRARQLYWQGYPPAEIARLMGINQNTVYSWKKRdewdatppiqrvttsIDARLIQLTGKDKKTGGDFKEIDlltRQLK 87
Cdd:COG3677   64 LWLQAIRLLLNGISLRQIARVLGVSYKTVWRWLHR---------------IREALDELVDEVDEGEGLVGEED---EKTK 125

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 495775786  88 KLDNGTAATQPKKKIRKKQNYFSESQIAALRENILGSLHWHQKGWYDNHHWRNRMILksrQVGATWYFAREALVRALSED 167
Cdd:COG3677  126 SKRRRKRGKKLVKGLKKGVVVKVRARGARKSKLAVRLELADLLLRRIILAALVAPLA---TDLAVGVDSKKHELLELARH 202


                 ....*...
gi 495775786 168 VKYKHQRN 175
Cdd:COG3677  203 TRRRRYRR 210
transpos_IS630 NF033545
IS630 family transposase;
10-42 9.87e-03

IS630 family transposase;


Pssm-ID: 468076 [Multi-domain]  Cd Length: 298  Bit Score: 38.39  E-value: 9.87e-03
                         10        20        30
                 ....*....|....*....|....*....|...
gi 495775786  10 QRARQLYWQGYPPAEIARLMGINQNTVYSWKKR 42
Cdd:NF033545   3 ARILLLAAEGLSITEIAERLGVSRSTVYRWLKR 35
 
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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