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Conserved domains on  [gi|431482974|gb|ELH62675|]
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protein traD [Escherichia coli KTE202]

Protein Classification

Graphical summary

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List of domain hits

Name Accession Description Interval E-value
PRK13700 super family cl32925
conjugal transfer protein TraD; Provisional
1-521 0e+00

conjugal transfer protein TraD; Provisional


The actual alignment was detected with superfamily member PRK13700:

Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1099.24  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   1 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:PRK13700 215 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 294
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 160
Cdd:PRK13700 295 NDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 374
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 161 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 240
Cdd:PRK13700 375 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 454
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 241 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 320
Cdd:PRK13700 455 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 534
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 321 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEP---EVASGE 397
Cdd:PRK13700 535 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPdvpEVASGE 614
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 398 GVTQAEQPQQPQQPQQPQQPQQPQQPQQPqqpvssVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 477
Cdd:PRK13700 615 DVTQAEQPQQPQQPQQPQQPQQPQQPVSP------VINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 688
                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....
gi 431482974 478 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 521
Cdd:PRK13700 689 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 732
 
Name Accession Description Interval E-value
PRK13700 PRK13700
conjugal transfer protein TraD; Provisional
1-521 0e+00

conjugal transfer protein TraD; Provisional


Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1099.24  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   1 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:PRK13700 215 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 294
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 160
Cdd:PRK13700 295 NDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 374
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 161 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 240
Cdd:PRK13700 375 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 454
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 241 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 320
Cdd:PRK13700 455 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 534
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 321 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEP---EVASGE 397
Cdd:PRK13700 535 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPdvpEVASGE 614
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 398 GVTQAEQPQQPQQPQQPQQPQQPQQPQQPqqpvssVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 477
Cdd:PRK13700 615 DVTQAEQPQQPQQPQQPQQPQQPQQPVSP------VINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 688
                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....
gi 431482974 478 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 521
Cdd:PRK13700 689 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 732
TraD_Ftype TIGR02759
type IV conjugative transfer system coupling protein TraD; The TraD protein performs an ...
1-363 0e+00

type IV conjugative transfer system coupling protein TraD; The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).


Pssm-ID: 131806  Cd Length: 566  Bit Score: 642.52  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974    1 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:TIGR02759 206 RAIIYDKGCTFTSRFYDPSQDVILNPFDERCANWDVWRECKDKTDFENMAEALIPMHGDGDPFWVDSARTIFTSTAYKMR 285
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNG-EPFTIRDWmrgV 159
Cdd:TIGR02759 286 NDPKRSTSKLLDLLLTSELEELRDYLKGTESASLVSDKIEKTAISIKSVLATYLKSLRFLEGLDRKGrEPFSIRDW---I 362
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  160 REDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFG 239
Cdd:TIGR02759 363 LNEQKNGWLFISSNAQQHASLKPLISMWLSIASRGLLSLPPNDDRRIWFIMDELPSLHKLPDLDETIAEVRKFGGCYVLG 442
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  240 IQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVS 319
Cdd:TIGR02759 443 IQSFAQLEKIYGQNGAATLFDLLNTRFFFRSPSAKMAKIVSDDLGEQEIEESKENYSYGANSVRDGVSLGSQTITRPLVS 522
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 431482974  320 YSDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDI 363
Cdd:TIGR02759 523 YSDIQFLDDLQCYVRLPGNYPITKLKLKYDERPKICPPFIPRDI 566
TrwB_AAD_bind pfam10412
Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling ...
2-347 6.68e-118

Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling protein TrwB forms hexamers from six structurally very similar protomers. This hexamer contains a central channel running from the cytosolic pole (made up by the AADs) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB_AAD (all-alpha domain) domain appears to be the DNA-binding domain of the structure. TrwB, a basic integral inner-membrane nucleoside-triphosphate-binding protein, is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells and export.


Pssm-ID: 431268 [Multi-domain]  Cd Length: 386  Bit Score: 352.37  E-value: 6.68e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974    2 VVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIP-MGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:pfam10412  46 AIIFDLTGAFTERFYDPGRDILLNPLDARSPAWSPFAECKTPADFAAIAAALIPeDGGGSDPFWALAARTVLVDTLRALQ 125
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGiehNGEPFTIRDWMRGVR 160
Cdd:pfam10412 126 RTGRKTNAALLRALLTADLDELHELLAGTAAAPLTAPEAERTTASIRATLATNLRALRFLAP---DGERFSIREWITEED 202
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  161 EDqknGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 240
Cdd:pfam10412 203 PG---GWLFITYRADQRAALRPLLSCWLDLAIRALLSLPPSRDRRLWFFLDELPALGRLPSLKDLLAEGRKFGGAVVLGL 279
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  241 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 320
Cdd:pfam10412 280 QSIAQLREIYGEDGAQTILSNCGTKLILRVSDGETAELCSDLLGDREVERMDESLSYGANNSRDGVTLGRQRRVRPLVLP 359
                         330       340
                  ....*....|....*....|....*..
gi 431482974  321 SDIQSLPDLTCYVTLPGPYPAVKLSLK 347
Cdd:pfam10412 360 SEIMNLPRLHGYLKFPDGFPVARVTLP 386
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
2-364 5.36e-80

Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442728 [Multi-domain]  Cd Length: 402  Bit Score: 255.29  E-value: 5.36e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   2 VVIYDRSGEFVK---SYYDPSIDK--ILNPLD-ARCAAWDLWKECLTQPDFDNTANTLIPM---GTKEDPFWQGSGRTIF 72
Cdd:COG3505   30 VVVTDPKGDLAEltaGFRRRAGYDvyVFDPFDpERSHRWNPLDEIRDPADAQELAEALIPAlggGGGGDPFWREAARALL 109
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  73 AEAAYLMRNDPNRSYSKLVDtLLSIKIEKLRTFLRNSP---------AANLVEEKIEKTAISIRAVLTNYVKAIRyLQGI 143
Cdd:COG3505  110 AALILALAEEGRRTLADVYR-LLSEPEEELRELLEALPesphppvadTLAAFLNAAEKTRSSVLSTLASALELLS-DPEV 187
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 144 EH--NGEPFTIRDWMRgvredqKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNR---RVWFFCDELPTLHK 218
Cdd:COG3505  188 AAltSGSDFDLRDLIR------EKGTLYLVLPPDDLSTLAPLLRLLLSQLIRALLRRAERSGRlprPVLLLLDEFANLGR 261
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 219 LPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYG 298
Cdd:COG3505  262 LPSLETLLATGRGYGIRLVLILQSLAQLEAIYGEEGAETILGNCGTKIFLGVNDPETAEYLSELLGKRTVERRSESRSRG 341
                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 431482974 299 adpvrdGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDIN 364
Cdd:COG3505  342 ------SRSRSRSEQERPLLTPDELRRLPDGEAIVLVRGGPPIRAKKIRYYKDPEPAPAFEPRDAE 401
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
151-270 2.30e-32

TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion (T4S) systems, versatile bacterial secretion systems mediating transport of protein and/or DNA. They are present in gram-negative and gram-positive bacteria, as well as archaea. They form hexameric rings and belong to the RecA-like NTPases superfamily, which also 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.


Pssm-ID: 410871 [Multi-domain]  Cd Length: 144  Bit Score: 120.79  E-value: 2.30e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 151 TIRDWMRGVR---EDQKN-GWLFISSNADTHASLKPVISMWLSIAIRGLLAM-GENRNRRVWFFCDELPTLHKLPDLVEI 225
Cdd:cd01127   20 LLDQAARGGSviiTDPKGeLFLVIPDRDDSFAALRALFFNQLFRALTELASLsPGRLPRRVWFILDEFANLGRIPNLPNL 99
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 431482974 226 LPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRS 270
Cdd:cd01127  100 LATGRKRGISVVLILQSLAQLEAVYGKDGAQTILGNCNTKLYLGT 144
 
Name Accession Description Interval E-value
PRK13700 PRK13700
conjugal transfer protein TraD; Provisional
1-521 0e+00

conjugal transfer protein TraD; Provisional


Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1099.24  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   1 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:PRK13700 215 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 294
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 160
Cdd:PRK13700 295 NDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVR 374
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 161 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 240
Cdd:PRK13700 375 EDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 454
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 241 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 320
Cdd:PRK13700 455 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 534
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 321 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEP---EVASGE 397
Cdd:PRK13700 535 SDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPdvpEVASGE 614
                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 398 GVTQAEQPQQPQQPQQPQQPQQPQQPQQPqqpvssVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 477
Cdd:PRK13700 615 DVTQAEQPQQPQQPQQPQQPQQPQQPVSP------VINDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV 688
                        490       500       510       520
                 ....*....|....*....|....*....|....*....|....
gi 431482974 478 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 521
Cdd:PRK13700 689 DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF 732
TraD_Ftype TIGR02759
type IV conjugative transfer system coupling protein TraD; The TraD protein performs an ...
1-363 0e+00

type IV conjugative transfer system coupling protein TraD; The TraD protein performs an essential coupling function in conjugative type IV secretion systems. This protein sits at the inner membrane in contact with the assembled pilus and its scaffold as well as the relaxosome-plasmid DNA complex (through TraM).


Pssm-ID: 131806  Cd Length: 566  Bit Score: 642.52  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974    1 MVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:TIGR02759 206 RAIIYDKGCTFTSRFYDPSQDVILNPFDERCANWDVWRECKDKTDFENMAEALIPMHGDGDPFWVDSARTIFTSTAYKMR 285
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNG-EPFTIRDWmrgV 159
Cdd:TIGR02759 286 NDPKRSTSKLLDLLLTSELEELRDYLKGTESASLVSDKIEKTAISIKSVLATYLKSLRFLEGLDRKGrEPFSIRDW---I 362
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  160 REDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFG 239
Cdd:TIGR02759 363 LNEQKNGWLFISSNAQQHASLKPLISMWLSIASRGLLSLPPNDDRRIWFIMDELPSLHKLPDLDETIAEVRKFGGCYVLG 442
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  240 IQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVS 319
Cdd:TIGR02759 443 IQSFAQLEKIYGQNGAATLFDLLNTRFFFRSPSAKMAKIVSDDLGEQEIEESKENYSYGANSVRDGVSLGSQTITRPLVS 522
                         330       340       350       360
                  ....*....|....*....|....*....|....*....|....
gi 431482974  320 YSDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDI 363
Cdd:TIGR02759 523 YSDIQFLDDLQCYVRLPGNYPITKLKLKYDERPKICPPFIPRDI 566
TrwB_AAD_bind pfam10412
Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling ...
2-347 6.68e-118

Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling protein TrwB forms hexamers from six structurally very similar protomers. This hexamer contains a central channel running from the cytosolic pole (made up by the AADs) to the membrane pole ending at the transmembrane pore shaped by 12 transmembrane helices, rendering an overall mushroom-like structure. The TrwB_AAD (all-alpha domain) domain appears to be the DNA-binding domain of the structure. TrwB, a basic integral inner-membrane nucleoside-triphosphate-binding protein, is the structural prototype for the type IV secretion system coupling proteins, a family of proteins essential for macromolecular transport between cells and export.


Pssm-ID: 431268 [Multi-domain]  Cd Length: 386  Bit Score: 352.37  E-value: 6.68e-118
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974    2 VVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIP-MGTKEDPFWQGSGRTIFAEAAYLMR 80
Cdd:pfam10412  46 AIIFDLTGAFTERFYDPGRDILLNPLDARSPAWSPFAECKTPADFAAIAAALIPeDGGGSDPFWALAARTVLVDTLRALQ 125
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   81 NDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGiehNGEPFTIRDWMRGVR 160
Cdd:pfam10412 126 RTGRKTNAALLRALLTADLDELHELLAGTAAAPLTAPEAERTTASIRATLATNLRALRFLAP---DGERFSIREWITEED 202
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  161 EDqknGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGI 240
Cdd:pfam10412 203 PG---GWLFITYRADQRAALRPLLSCWLDLAIRALLSLPPSRDRRLWFFLDELPALGRLPSLKDLLAEGRKFGGAVVLGL 279
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  241 QSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSY 320
Cdd:pfam10412 280 QSIAQLREIYGEDGAQTILSNCGTKLILRVSDGETAELCSDLLGDREVERMDESLSYGANNSRDGVTLGRQRRVRPLVLP 359
                         330       340
                  ....*....|....*....|....*..
gi 431482974  321 SDIQSLPDLTCYVTLPGPYPAVKLSLK 347
Cdd:pfam10412 360 SEIMNLPRLHGYLKFPDGFPVARVTLP 386
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
2-364 5.36e-80

Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442728 [Multi-domain]  Cd Length: 402  Bit Score: 255.29  E-value: 5.36e-80
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   2 VVIYDRSGEFVK---SYYDPSIDK--ILNPLD-ARCAAWDLWKECLTQPDFDNTANTLIPM---GTKEDPFWQGSGRTIF 72
Cdd:COG3505   30 VVVTDPKGDLAEltaGFRRRAGYDvyVFDPFDpERSHRWNPLDEIRDPADAQELAEALIPAlggGGGGDPFWREAARALL 109
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  73 AEAAYLMRNDPNRSYSKLVDtLLSIKIEKLRTFLRNSP---------AANLVEEKIEKTAISIRAVLTNYVKAIRyLQGI 143
Cdd:COG3505  110 AALILALAEEGRRTLADVYR-LLSEPEEELRELLEALPesphppvadTLAAFLNAAEKTRSSVLSTLASALELLS-DPEV 187
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 144 EH--NGEPFTIRDWMRgvredqKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNR---RVWFFCDELPTLHK 218
Cdd:COG3505  188 AAltSGSDFDLRDLIR------EKGTLYLVLPPDDLSTLAPLLRLLLSQLIRALLRRAERSGRlprPVLLLLDEFANLGR 261
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 219 LPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIGEKEHLKASEQYSYG 298
Cdd:COG3505  262 LPSLETLLATGRGYGIRLVLILQSLAQLEAIYGEEGAETILGNCGTKIFLGVNDPETAEYLSELLGKRTVERRSESRSRG 341
                        330       340       350       360       370       380
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 431482974 299 adpvrdGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSLKYQARPKVAPEFIPRDIN 364
Cdd:COG3505  342 ------SRSRSRSEQERPLLTPDELRRLPDGEAIVLVRGGPPIRAKKIRYYKDPEPAPAFEPRDAE 401
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
151-270 2.30e-32

TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion (T4S) systems, versatile bacterial secretion systems mediating transport of protein and/or DNA. They are present in gram-negative and gram-positive bacteria, as well as archaea. They form hexameric rings and belong to the RecA-like NTPases superfamily, which also 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.


Pssm-ID: 410871 [Multi-domain]  Cd Length: 144  Bit Score: 120.79  E-value: 2.30e-32
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974 151 TIRDWMRGVR---EDQKN-GWLFISSNADTHASLKPVISMWLSIAIRGLLAM-GENRNRRVWFFCDELPTLHKLPDLVEI 225
Cdd:cd01127   20 LLDQAARGGSviiTDPKGeLFLVIPDRDDSFAALRALFFNQLFRALTELASLsPGRLPRRVWFILDEFANLGRIPNLPNL 99
                         90       100       110       120
                 ....*....|....*....|....*....|....*....|....*
gi 431482974 226 LPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRS 270
Cdd:cd01127  100 LATGRKRGISVVLILQSLAQLEAVYGKDGAQTILGNCNTKLYLGT 144
TraG-D_C pfam12696
TraM recognition site of TraD and TraG; This family includes both TraG and TraD as well as ...
205-327 3.75e-20

TraM recognition site of TraD and TraG; This family includes both TraG and TraD as well as VirD4 proteins. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems. This domain interacts with the relaxosome component TraM via the latter's tetramerization domain. TraD is a hexameric ring ATPase that forms the cytoplasmic face of the conjugative pore.


Pssm-ID: 432726 [Multi-domain]  Cd Length: 125  Bit Score: 86.16  E-value: 3.75e-20
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  205 RVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIAEFAAGEIG 284
Cdd:pfam12696   1 PVLFVLDEFANLGKIPDLEKLISTGRSRGISLMLILQSIAQLEELYGKDGAETILGNCNTKVFLGGGDEETAKYLSKLLG 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 431482974  285 EKEHLKASEQYSYGADPVRDGVSTGKDMERQT-LVSYSDIQSLP 327
Cdd:pfam12696  81 KYTVVSTTTSSSSSGSGGSGSSSSSSSQLVGRpLLTPDELRRLP 124
T4SS-DNA_transf pfam02534
Type IV secretory system Conjugative DNA transfer; These proteins contain a P-loop and ...
2-260 1.35e-08

Type IV secretory system Conjugative DNA transfer; These proteins contain a P-loop and walker-B site for nucleotide binding. TraG is essential for DNA transfer in bacterial conjugation. These proteins are thought to mediate interactions between the DNA-processing (Dtr) and the mating pair formation (Mpf) systems. The C-terminus of this domain interacts with the relaxosome component TraM via the latter's tetramerization domain. TraD is a hexameric ring ATPase that forms the cytoplasmic face of the conjugative pore. The family contains a number of different DNA transfer proteins.


Pssm-ID: 367119 [Multi-domain]  Cd Length: 468  Bit Score: 57.03  E-value: 1.35e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974    2 VVIYDRSGE----------------FVKSYYDPSIDKILNPLDarcaaW-DLWKECLTQpDFDNTANTLIP-MGTKEDPF 63
Cdd:pfam02534  73 IVVLDPKGElweltsgirekqgrkvFVLEPFNPKTSDRYNPLD-----YiDRGSEQETE-DILKVASLIMPgKGGGRDDF 146
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974   64 WQGSGRTIF--------------AEAAYL-----MRNDPNRSYSKLVDTLLSIkieklrTFLRNSPAANL-VEEKIEKTA 123
Cdd:pfam02534 147 FNNTARQLLvalialvlrskptrTIGQTLrfvrnMLSEPNLIENKELAVLLNE------LDGSHHDRVGDnLRFYVNKTD 220
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 431482974  124 ISIRAVLTNYVKAIR--YLQGIEHN--GEPFTIRDWMRGvREDqkngwLFISSNAD---THASLKPVISMWLSIAIRGLL 196
Cdd:pfam02534 221 ETRSSVIGTAVSELAlyADPEVRNAtsGSDFDLRDLRRD-KTS-----VYVILNPKdltVVSPLLRVFFQMVVELLYLKL 294
                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 431482974  197 AMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFD 260
Cdd:pfam02534 295 PNGDGRPKEVLFLLDEFPSLGKLEILEEALATIRGYGIRLTTICQSISQLKETYGGEGAKSILS 358
 
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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