NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1319856415|gb|PLL41585|]
View 

type IV conjugative transfer system coupling protein TraD [Klebsiella pneumoniae]

Protein Classification

type IV conjugative transfer system coupling protein TraD( domain architecture ID 11486801)

type IV conjugative transfer system coupling protein TraD is conjugative DNA transfer (CDT) that is the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

Name Accession Description Interval E-value
PRK13700 PRK13700
conjugal transfer protein TraD; Provisional
1-767 0e+00

conjugal transfer protein TraD; Provisional


:

Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1472.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415   1 MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLIYRLSWQTFVNGCVYWWCTTLGPMRDIIRSQPVYT 80
Cdd:PRK13700    1 MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMRDLIKSQPVYE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  81 IQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFATVVSLVICIVTFFIASWVLGRQGKQQSEDENTGGRQLSDKPKEVA 160
Cdd:PRK13700   81 IQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLAAVVALVICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVA 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 161 RQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNP 240
Cdd:PRK13700  161 RMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVKSYYDPSIDKILNP 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 241 LDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYL 320
Cdd:PRK13700  241 LDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYL 320
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 321 QNTPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISM 400
Cdd:PRK13700  321 RNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISM 400
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 401 WLSIAIRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRA 480
Cdd:PRK13700  401 WLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRA 480
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 481 FFRSPSREIAEFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL 560
Cdd:PRK13700  481 FFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL 560
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 561 KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGeqpepisqpaPADMTVSPAP 640
Cdd:PRK13700  561 KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVASGEDVTQAE----------QPQQPQQPQQ 630
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 641 VKAPPRTKMPAeEPSVRATEPSVlrlttvplikpkaaaaaatassagTPAAAAGGTEQELAQQSAEQGQDMLPAGMNEDG 720
Cdd:PRK13700  631 PQQPQQPQQPV-SPVINDKKSDA------------------------GVNVPAGGIEQELKMKPEEEMEQQLPPGISESG 685
                         730       740       750       760
                  ....*....|....*....|....*....|....*....|....*....
gi 1319856415 721 VIEDMQAYDVWLADEQ--TQRDMQRREEVNINhSHRHDEQdDVEIGGNF 767
Cdd:PRK13700  686 EVVDMAAYEAWQQENHpdIQQQMQRREEVNIN-VHRERGE-DVEPGDDF 732
 
Name Accession Description Interval E-value
PRK13700 PRK13700
conjugal transfer protein TraD; Provisional
1-767 0e+00

conjugal transfer protein TraD; Provisional


Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1472.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415   1 MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLIYRLSWQTFVNGCVYWWCTTLGPMRDIIRSQPVYT 80
Cdd:PRK13700    1 MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMRDLIKSQPVYE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  81 IQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFATVVSLVICIVTFFIASWVLGRQGKQQSEDENTGGRQLSDKPKEVA 160
Cdd:PRK13700   81 IQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLAAVVALVICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVA 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 161 RQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNP 240
Cdd:PRK13700  161 RMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVKSYYDPSIDKILNP 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 241 LDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYL 320
Cdd:PRK13700  241 LDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYL 320
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 321 QNTPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISM 400
Cdd:PRK13700  321 RNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISM 400
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 401 WLSIAIRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRA 480
Cdd:PRK13700  401 WLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRA 480
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 481 FFRSPSREIAEFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL 560
Cdd:PRK13700  481 FFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL 560
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 561 KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGeqpepisqpaPADMTVSPAP 640
Cdd:PRK13700  561 KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVASGEDVTQAE----------QPQQPQQPQQ 630
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 641 VKAPPRTKMPAeEPSVRATEPSVlrlttvplikpkaaaaaatassagTPAAAAGGTEQELAQQSAEQGQDMLPAGMNEDG 720
Cdd:PRK13700  631 PQQPQQPQQPV-SPVINDKKSDA------------------------GVNVPAGGIEQELKMKPEEEMEQQLPPGISESG 685
                         730       740       750       760
                  ....*....|....*....|....*....|....*....|....*....
gi 1319856415 721 VIEDMQAYDVWLADEQ--TQRDMQRREEVNINhSHRHDEQdDVEIGGNF 767
Cdd:PRK13700  686 EVVDMAAYEAWQQENHpdIQQQMQRREEVNIN-VHRERGE-DVEPGDDF 732
TraD_Ftype TIGR02759
type IV conjugative transfer system coupling protein TraD; The TraD protein performs an ...
8-575 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: 858.62  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415   8 MTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLIYRLSWQTFvNGCVYWWCTTLGPMRDIIRSQPVYTIqYYGQS 87
Cdd:TIGR02759   1 FTRGGQITFHNIRMFFQVTKTLFYWMFILFIILTGLILWFMASVNTF-LGNIYYWEAQLFTLVGHIKTQEVFTP-WFGKT 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  88 LEYTSEQILADKYTIWCGEQLWTSFVFATVVSLVICIVTFFIASWVLGRQGKQQSEDENTGGRQLSDkPKEVARQMKRDG 167
Cdd:TIGR02759  79 YTTYQAQILTNPYVIRAYDQLWQALQKSALAALAISLVVFLLFMFFFIKRGEQQSKDHFIRGSQLSS-PKELIKKLKKSR 157
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 168 MASDIKIGDLPILK-NSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCA 246
Cdd:TIGR02759 158 RASDIKIGGLPLIKfGSETQHILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIYDKGCTFTSRFYDPSQDVILNPFDERCA 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 247 AWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYLQNTPAA 326
Cdd:TIGR02759 238 NWDVWRECKDKTDFENMAEALIPMHGDGDPFWVDSARTIFTSTAYKMRNDPKRSTSKLLDLLLTSELEELRDYLKGTESA 317
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 327 NLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEKNG-EPFTIRDWmrgVREDRPNGWLFISSNADTHASLKPVISMWLSIA 405
Cdd:TIGR02759 318 SLVSDKIEKTAISIKSVLATYLKSLRFLEGLDRKGrEPFSIRDW---ILNEQKNGWLFISSNAQQHASLKPLISMWLSIA 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 406 IRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSP 485
Cdd:TIGR02759 395 SRGLLSLPPNDDRRIWFIMDELPSLHKLPDLDETIAEVRKFGGCYVLGIQSFAQLEKIYGQNGAATLFDLLNTRFFFRSP 474
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 486 SREIAEFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALKYKPR 565
Cdd:TIGR02759 475 SAKMAKIVSDDLGEQEIEESKENYSYGANSVRDGVSLGSQTITRPLVSYSDIQFLDDLQCYVRLPGNYPITKLKLKYDER 554
                         570
                  ....*....|
gi 1319856415 566 PKIAEGFIPR 575
Cdd:TIGR02759 555 PKICPPFIPR 564
TrwB_AAD_bind pfam10412
Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling ...
174-561 4.66e-131

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: 394.36  E-value: 4.66e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 174 IGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKE 253
Cdd:pfam10412   4 IAGVPLPKRSETRHTLIIGTTGSGKTQALRGLLDQARARGDRAIIFDLTGAFTERFYDPGRDILLNPLDARSPAWSPFAE 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 254 CLTLPDFDNISNTLIP-MGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYLQNTPAANLVEEK 332
Cdd:pfam10412  84 CKTPADFAAIAAALIPeDGGGSDPFWALAARTVLVDTLRALQRTGRKTNAALLRALLTADLDELHELLAGTAAAPLTAPE 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 333 IEKTAISIRAVLTNYVKAIRYLQGiekNGEPFTIRDWmrgVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAM 412
Cdd:pfam10412 164 AERTTASIRATLATNLRALRFLAP---DGERFSIREW---ITEEDPGGWLFITYRADQRAALRPLLSCWLDLAIRALLSL 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 413 GENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIAEF 492
Cdd:pfam10412 238 PPSRDRRLWFFLDELPALGRLPSLKDLLAEGRKFGGAVVLGLQSIAQLREIYGEDGAQTILSNCGTKLILRVSDGETAEL 317
                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1319856415 493 AAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALK 561
Cdd:pfam10412 318 CSDLLGDREVERMDESLSYGANNSRDGVTLGRQRRVRPLVLPSEIMNLPRLHGYLKFPDGFPVARVTLP 386
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
187-579 7.99e-79

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: 258.76  E-value: 7.99e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 187 NFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVK---SYYDPSLDK--ILNPLD-SRCAAWDLWKECLTLPDF 260
Cdd:COG3505     1 HVLVIGPTGSGKTVGLVIPNLTQLARGESVVVTDPKGDLAEltaGFRRRAGYDvyVFDPFDpERSHRWNPLDEIRDPADA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 261 DNISNTLIPM---GTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDtMLSIKIDKLRTYLQNTP---------AANL 328
Cdd:COG3505    81 QELAEALIPAlggGGGGDPFWREAARALLAALILALAEEGRRTLADVYR-LLSEPEEELRELLEALPesphppvadTLAA 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 329 VEEKIEKTAISIRAVLTNYVKAIRyLQGIEK--NGEPFTIRDWMRGvredrpNGWLFISSNADTHASLKPVISMWLSIAI 406
Cdd:COG3505   160 FLNAAEKTRSSVLSTLASALELLS-DPEVAAltSGSDFDLRDLIRE------KGTLYLVLPPDDLSTLAPLLRLLLSQLI 232
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 407 RGLLAMGENRNR---RVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFR 483
Cdd:COG3505   233 RALLRRAERSGRlprPVLLLLDEFANLGRLPSLETLLATGRGYGIRLVLILQSLAQLEAIYGEEGAETILGNCGTKIFLG 312
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 484 SPSREIAEFAAGEIGEKEILKASEQYSYGadpvrdGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALKYK 563
Cdd:COG3505   313 VNDPETAEYLSELLGKRTVERRSESRSRG------SRSRSRSEQERPLLTPDELRRLPDGEAIVLVRGGPPIRAKKIRYY 386
                         410
                  ....*....|....*.
gi 1319856415 564 PRPKIAEGFIPRTLDA 579
Cdd:COG3505   387 KDPEPAPAFEPRDAEA 402
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
378-484 1.06e-28

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: 111.93  E-value: 1.06e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 378 PNGWLFISSNADTHASLKPVISMWLSIAIRGLLAM-GENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQS 456
Cdd:cd01127    37 GELFLVIPDRDDSFAALRALFFNQLFRALTELASLsPGRLPRRVWFILDEFANLGRIPNLPNLLATGRKRGISVVLILQS 116
                          90       100
                  ....*....|....*....|....*...
gi 1319856415 457 YAQLEDIYGVKPAATLFDVMNTRAFFRS 484
Cdd:cd01127   117 LAQLEAVYGKDGAQTILGNCNTKLYLGT 144
 
Name Accession Description Interval E-value
PRK13700 PRK13700
conjugal transfer protein TraD; Provisional
1-767 0e+00

conjugal transfer protein TraD; Provisional


Pssm-ID: 184256 [Multi-domain]  Cd Length: 732  Bit Score: 1472.12  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415   1 MSFNAKDMTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLIYRLSWQTFVNGCVYWWCTTLGPMRDIIRSQPVYT 80
Cdd:PRK13700    1 MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMRDLIKSQPVYE 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  81 IQYYGQSLEYTSEQILADKYTIWCGEQLWTSFVFATVVSLVICIVTFFIASWVLGRQGKQQSEDENTGGRQLSDKPKEVA 160
Cdd:PRK13700   81 IQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLAAVVALVICLITFFVVSWILGRQGKQQSENEVTGGRQLTDNPKDVA 160
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 161 RQMKRDGMASDIKIGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNP 240
Cdd:PRK13700  161 RMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYARQRGDMVVIYDRSGEFVKSYYDPSIDKILNP 240
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 241 LDSRCAAWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYL 320
Cdd:PRK13700  241 LDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQGSGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYL 320
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 321 QNTPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEKNGEPFTIRDWMRGVREDRPNGWLFISSNADTHASLKPVISM 400
Cdd:PRK13700  321 RNSPAANLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISM 400
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 401 WLSIAIRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRA 480
Cdd:PRK13700  401 WLSIAIRGLLAMGENRNRRVWFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRA 480
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 481 FFRSPSREIAEFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLAL 560
Cdd:PRK13700  481 FFRSPSHKIAEFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL 560
                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 561 KYKPRPKIAEGFIPRTLDARVDARLSALLEAREAEGSLARALFTPDAPASGPADTNSHAGeqpepisqpaPADMTVSPAP 640
Cdd:PRK13700  561 KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVASGEDVTQAE----------QPQQPQQPQQ 630
                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 641 VKAPPRTKMPAeEPSVRATEPSVlrlttvplikpkaaaaaatassagTPAAAAGGTEQELAQQSAEQGQDMLPAGMNEDG 720
Cdd:PRK13700  631 PQQPQQPQQPV-SPVINDKKSDA------------------------GVNVPAGGIEQELKMKPEEEMEQQLPPGISESG 685
                         730       740       750       760
                  ....*....|....*....|....*....|....*....|....*....
gi 1319856415 721 VIEDMQAYDVWLADEQ--TQRDMQRREEVNINhSHRHDEQdDVEIGGNF 767
Cdd:PRK13700  686 EVVDMAAYEAWQQENHpdIQQQMQRREEVNIN-VHRERGE-DVEPGDDF 732
TraD_Ftype TIGR02759
type IV conjugative transfer system coupling protein TraD; The TraD protein performs an ...
8-575 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: 858.62  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415   8 MTQGGQIANMRFRMFGQIANIIFYVLFILFWVLCGLMLIYRLSWQTFvNGCVYWWCTTLGPMRDIIRSQPVYTIqYYGQS 87
Cdd:TIGR02759   1 FTRGGQITFHNIRMFFQVTKTLFYWMFILFIILTGLILWFMASVNTF-LGNIYYWEAQLFTLVGHIKTQEVFTP-WFGKT 78
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  88 LEYTSEQILADKYTIWCGEQLWTSFVFATVVSLVICIVTFFIASWVLGRQGKQQSEDENTGGRQLSDkPKEVARQMKRDG 167
Cdd:TIGR02759  79 YTTYQAQILTNPYVIRAYDQLWQALQKSALAALAISLVVFLLFMFFFIKRGEQQSKDHFIRGSQLSS-PKELIKKLKKSR 157
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 168 MASDIKIGDLPILK-NSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCA 246
Cdd:TIGR02759 158 RASDIKIGGLPLIKfGSETQHILIHGTTGSGKSVAIRKLLRWIRQRGDRAIIYDKGCTFTSRFYDPSQDVILNPFDERCA 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 247 AWDLWKECLTLPDFDNISNTLIPMGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYLQNTPAA 326
Cdd:TIGR02759 238 NWDVWRECKDKTDFENMAEALIPMHGDGDPFWVDSARTIFTSTAYKMRNDPKRSTSKLLDLLLTSELEELRDYLKGTESA 317
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 327 NLVEEKIEKTAISIRAVLTNYVKAIRYLQGIEKNG-EPFTIRDWmrgVREDRPNGWLFISSNADTHASLKPVISMWLSIA 405
Cdd:TIGR02759 318 SLVSDKIEKTAISIKSVLATYLKSLRFLEGLDRKGrEPFSIRDW---ILNEQKNGWLFISSNAQQHASLKPLISMWLSIA 394
                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 406 IRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSP 485
Cdd:TIGR02759 395 SRGLLSLPPNDDRRIWFIMDELPSLHKLPDLDETIAEVRKFGGCYVLGIQSFAQLEKIYGQNGAATLFDLLNTRFFFRSP 474
                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 486 SREIAEFAAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALKYKPR 565
Cdd:TIGR02759 475 SAKMAKIVSDDLGEQEIEESKENYSYGANSVRDGVSLGSQTITRPLVSYSDIQFLDDLQCYVRLPGNYPITKLKLKYDER 554
                         570
                  ....*....|
gi 1319856415 566 PKIAEGFIPR 575
Cdd:TIGR02759 555 PKICPPFIPR 564
TrwB_AAD_bind pfam10412
Type IV secretion-system coupling protein DNA-binding domain; The plasmid conjugative coupling ...
174-561 4.66e-131

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: 394.36  E-value: 4.66e-131
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 174 IGDLPILKNSEIQNFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVKSYYDPSLDKILNPLDSRCAAWDLWKE 253
Cdd:pfam10412   4 IAGVPLPKRSETRHTLIIGTTGSGKTQALRGLLDQARARGDRAIIFDLTGAFTERFYDPGRDILLNPLDARSPAWSPFAE 83
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 254 CLTLPDFDNISNTLIP-MGTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDTMLSIKIDKLRTYLQNTPAANLVEEK 332
Cdd:pfam10412  84 CKTPADFAAIAAALIPeDGGGSDPFWALAARTVLVDTLRALQRTGRKTNAALLRALLTADLDELHELLAGTAAAPLTAPE 163
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 333 IEKTAISIRAVLTNYVKAIRYLQGiekNGEPFTIRDWmrgVREDRPNGWLFISSNADTHASLKPVISMWLSIAIRGLLAM 412
Cdd:pfam10412 164 AERTTASIRATLATNLRALRFLAP---DGERFSIREW---ITEEDPGGWLFITYRADQRAALRPLLSCWLDLAIRALLSL 237
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 413 GENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIAEF 492
Cdd:pfam10412 238 PPSRDRRLWFFLDELPALGRLPSLKDLLAEGRKFGGAVVLGLQSIAQLREIYGEDGAQTILSNCGTKLILRVSDGETAEL 317
                         330       340       350       360       370       380
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1319856415 493 AAGEIGEKEILKASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALK 561
Cdd:pfam10412 318 CSDLLGDREVERMDESLSYGANNSRDGVTLGRQRRVRPLVLPSEIMNLPRLHGYLKFPDGFPVARVTLP 386
VirD4 COG3505
Type IV secretory pathway, VirD4 component, TraG/TraD family ATPase [Intracellular trafficking, ...
187-579 7.99e-79

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: 258.76  E-value: 7.99e-79
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 187 NFCLHGTVGSGKSEVIRRLLNYVRARGDMAIIYDRSCEFVK---SYYDPSLDK--ILNPLD-SRCAAWDLWKECLTLPDF 260
Cdd:COG3505     1 HVLVIGPTGSGKTVGLVIPNLTQLARGESVVVTDPKGDLAEltaGFRRRAGYDvyVFDPFDpERSHRWNPLDEIRDPADA 80
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 261 DNISNTLIPM---GTKEDPFWQGSGRTIFAEGAYLMREDKDRSYEKLVDtMLSIKIDKLRTYLQNTP---------AANL 328
Cdd:COG3505    81 QELAEALIPAlggGGGGDPFWREAARALLAALILALAEEGRRTLADVYR-LLSEPEEELRELLEALPesphppvadTLAA 159
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 329 VEEKIEKTAISIRAVLTNYVKAIRyLQGIEK--NGEPFTIRDWMRGvredrpNGWLFISSNADTHASLKPVISMWLSIAI 406
Cdd:COG3505   160 FLNAAEKTRSSVLSTLASALELLS-DPEVAAltSGSDFDLRDLIRE------KGTLYLVLPPDDLSTLAPLLRLLLSQLI 232
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 407 RGLLAMGENRNR---RVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFR 483
Cdd:COG3505   233 RALLRRAERSGRlprPVLLLLDEFANLGRLPSLETLLATGRGYGIRLVLILQSLAQLEAIYGEEGAETILGNCGTKIFLG 312
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 484 SPSREIAEFAAGEIGEKEILKASEQYSYGadpvrdGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGPYPAVKLALKYK 563
Cdd:COG3505   313 VNDPETAEYLSELLGKRTVERRSESRSRG------SRSRSRSEQERPLLTPDELRRLPDGEAIVLVRGGPPIRAKKIRYY 386
                         410
                  ....*....|....*.
gi 1319856415 564 PRPKIAEGFIPRTLDA 579
Cdd:COG3505   387 KDPEPAPAFEPRDAEA 402
TraD_N pfam12615
F sex factor protein N terminal; This domain family is found in bacteria, and is typically ...
32-128 3.15e-47

F sex factor protein N terminal; This domain family is found in bacteria, and is typically between 96 and 107 amino acids in length. The family is found in association with pfam10412. TraD is a cytoplasmic membrane protein with possible DNA binding domains. It is part of the bacterial F sex factor complex.


Pssm-ID: 432671 [Multi-domain]  Cd Length: 97  Bit Score: 162.61  E-value: 3.15e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  32 VLFILFWVLCGLMLIYRLSWQTFVNGCVYWWCTTLGPMRDIIRSQPVYTIQYYGQSLEYTSEQILADKYTIWCGEQLWTS 111
Cdd:pfam12615   1 VLFILFLVLTGLWLWCRLSQQTFVNGLYYWWCTTYGQMKDLIGEQHVYTIWYYGQTYGINFYQILFDKYTIWNAEQFWEF 80
                          90
                  ....*....|....*..
gi 1319856415 112 FVFATVVSLVICIVTFF 128
Cdd:pfam12615  81 LILSALAALVICFVTFF 97
TrwB_TraG_TraD_VirD4 cd01127
TrwB/TraG/TraD/VirD4 family of bacterial conjugation proteins; The TraG/TraD/VirD4 family are ...
378-484 1.06e-28

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: 111.93  E-value: 1.06e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 378 PNGWLFISSNADTHASLKPVISMWLSIAIRGLLAM-GENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQS 456
Cdd:cd01127    37 GELFLVIPDRDDSFAALRALFFNQLFRALTELASLsPGRLPRRVWFILDEFANLGRIPNLPNLLATGRKRGISVVLILQS 116
                          90       100
                  ....*....|....*....|....*...
gi 1319856415 457 YAQLEDIYGVKPAATLFDVMNTRAFFRS 484
Cdd:cd01127   117 LAQLEAVYGKDGAQTILGNCNTKLYLGT 144
TraG-D_C pfam12696
TraM recognition site of TraD and TraG; This family includes both TraG and TraD as well as ...
419-541 1.64e-18

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: 81.93  E-value: 1.64e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 419 RVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLFDVMNTRAFFRSPSREIAEFAAGEIG 498
Cdd:pfam12696   1 PVLFVLDEFANLGKIPDLEKLISTGRSRGISLMLILQSIAQLEELYGKDGAETILGNCNTKVFLGGGDEETAKYLSKLLG 80
                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*
gi 1319856415 499 EKEILKASEQYSYGADPVRDGVS--TGKEKEREtLVSYSDIQTLP 541
Cdd:pfam12696  81 KYTVVSTTTSSSSSGSGGSGSSSssSSQLVGRP-LLTPDELRRLP 124
T4SS-DNA_transf pfam02534
Type IV secretory system Conjugative DNA transfer; These proteins contain a P-loop and ...
195-581 1.29e-07

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: 54.72  E-value: 1.29e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 195 GSGKSE--VIRRLLNYvrarGDMAIIYDRSCE----------------FVKSYYDPSLDKILNPLDsrcaaW-DLWKECL 255
Cdd:pfam02534  54 GSGKGVgvVIPNLLVW----KGSIVVLDPKGElweltsgirekqgrkvFVLEPFNPKTSDRYNPLD-----YiDRGSEQE 124
                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 256 TlPDFDNISNTLIP-MGTKEDPFWQGSGRTIF-AEGAYLMREDKDRSYE---KLVDTMLS---IKIDKLRTYLQNT---- 323
Cdd:pfam02534 125 T-EDILKVASLIMPgKGGGRDDFFNNTARQLLvALIALVLRSKPTRTIGqtlRFVRNMLSepnLIENKELAVLLNEldgs 203
                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 324 ---PAANLVEEKIEKTAISIRAVLTNYVKAIR--YLQGIEKN--GEPFTIRDWMRGvREDrpngwLFISSNAD---THAS 393
Cdd:pfam02534 204 hhdRVGDNLRFYVNKTDETRSSVIGTAVSELAlyADPEVRNAtsGSDFDLRDLRRD-KTS-----VYVILNPKdltVVSP 277
                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 394 LKPVISMWLSIAIRGLLAMGENRNRRVWIFADELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGVKPAATLF 473
Cdd:pfam02534 278 LLRVFFQMVVELLYLKLPNGDGRPKEVLFLLDEFPSLGKLEILEEALATIRGYGIRLTTICQSISQLKETYGGEGAKSIL 357
                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 474 DVMNTRAFFRSPSR-EIAEFAAGEIGEKEIlkASEQYSYGADPVRDGVSTGKEKERETLVSYSDIQTLPDLSCYVTLPGp 552
Cdd:pfam02534 358 SNHAVVICFAASNDeETAKYISKLLGKTTV--EVESSSKSTDAKGSSRSRSISEVQRPLLTPDEVLRMPDDEQIVITKG- 434
                         410       420       430
                  ....*....|....*....|....*....|.
gi 1319856415 553 YPAVKL--ALKYKPRPKIAEGFIPRTLDARV 581
Cdd:pfam02534 435 QPPIKCkkALYFKDEDFKAELNKPTALTASV 465
PRK13880 PRK13880
conjugal transfer coupling protein TraG; Provisional
364-471 3.86e-04

conjugal transfer coupling protein TraG; Provisional


Pssm-ID: 237540  Cd Length: 636  Bit Score: 43.96  E-value: 3.86e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 364 FTIRDWMRgvrEDRPNGwLFISSNADTHASLKPVISMWLSIAIRgLLA--MGENRNR-------RVWIFADELPTLHKLp 434
Cdd:PRK13880  385 FRIKDLMH---HDDPVS-LYIVTQPNDKARLRPLVRVMVNMIVR-LLAdkMDFENGRpvahykhRLLMMLDEFPSLGKL- 458
                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1319856415 435 dlvEILPEARKFGGCYvfGIQSYAQLEDIYGVKPAAT 471
Cdd:PRK13880  459 ---EILQESLAFVAGY--GIKCYLICQDINQLKSRET 490
PDHac_trf_long TIGR01348
pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; This model ...
604-657 7.43e-04

pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; This model describes a subset of pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase specifically close by both phylogenetic and per cent identity (UPGMA) trees. Members of this set include two or three copies of the lipoyl-binding domain. E. coli AceF is a member of this model, while mitochondrial and some other bacterial forms belong to a separate model. [Energy metabolism, Pyruvate dehydrogenase]


Pssm-ID: 273566 [Multi-domain]  Cd Length: 546  Bit Score: 42.94  E-value: 7.43e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1319856415 604 TPDAPASGPADTNSHAGEQPEPISQPAPADMTvSPAPVKAPPR--TKMPAEEPSVR 657
Cdd:TIGR01348 198 TAPAPASAQPAAQSPAATQPEPAAAPAAAKAQ-APAPQQAGTQnpAKVDHAAPAVR 252
PRK04654 PRK04654
sec-independent translocase; Provisional
581-670 1.48e-03

sec-independent translocase; Provisional


Pssm-ID: 135173 [Multi-domain]  Cd Length: 214  Bit Score: 40.95  E-value: 1.48e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 581 VDARLSALLEAREAEgsLARALFTPDAPASGPADTNSHAGEQPEPISQPAPADMTVSP-APvkAPPRTKMPAEEPSVRAT 659
Cdd:PRK04654   99 IDIRTSATPVATPLE--LAHADLSASAQVDAAAGAEPGAGQAHTPVPAPAPVIAQAQPiAP--APHQTLVPAPHDTIVPA 174
                          90
                  ....*....|.
gi 1319856415 660 ePSVLRLTTVP 670
Cdd:PRK04654  175 -PHAAHLPSAP 184
COG5373 COG5373
Uncharacterized membrane protein [Function unknown];
579-662 2.99e-03

Uncharacterized membrane protein [Function unknown];


Pssm-ID: 444140 [Multi-domain]  Cd Length: 854  Bit Score: 41.14  E-value: 2.99e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415 579 ARVDARLSALlEAREAEGSLARALFTPDAPASGPADTNShageQPEPISQPAPADMTVSPAPVKAPPrtkmPAEEPSVRA 658
Cdd:COG5373    24 ARLRRRVEEL-EAELAEAAEAASAPAEPEPEAAAAATAA----APEAAPAPVPEAPAAPPAAAEAPA----PAAAAPPAE 94

                  ....
gi 1319856415 659 TEPS 662
Cdd:COG5373    95 AEPA 98
PHA03247 PHA03247
large tegument protein UL36; Provisional
541-667 3.09e-03

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 41.46  E-value: 3.09e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  541 PDLSCYVTLPGPYPAVKLALKYKPRPKI-AEGFIPRT-LDARVDARLSAlleareAEGSLARALFTPDAPASGPADTNSH 618
Cdd:PHA03247  2564 PDRSVPPPRPAPRPSEPAVTSRARRPDApPQSARPRApVDDRGDPRGPA------PPSPLPPDTHAPDPPPPSPSPAANE 2637
                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1319856415  619 AGEqPEPISQPAPADMTVSPAPVKA-----------PPRTKMPAEEPSVRATEPSVLRLT 667
Cdd:PHA03247  2638 PDP-HPPPTVPPPERPRDDPAPGRVsrprrarrlgrAAQASSPPQRPRRRAARPTVGSLT 2696
 
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.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH