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Conserved domains on  [gi|2004286192]
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Chain HY, Cag pathogenicity island protein (Cag7)

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VirB10 cd16429
VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains ...
 1692-1888 2.01e-53

VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains VirB10, a component of the type IV secretion system (T4SS), including homologs TrbI, TraF, TrwE and TraL. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10, interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both, the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. TrwE in R33 plasmid has been shown to be anchored to the inner membrane and its C-terminal is necessary for conjugation; the transmembrane domains of TrwB and TrwE are involved in TrwB-TrwE interactions. TraF protein of the RP4 plasmid is involved in circularization of pilin subunits of P-type pili. In gonococcal genetic island (GGI) of Neisseria gonorrhoeae, T4SS encodes TrbI and circularization occurs via a covalent intermediate between the C terminus of putative pilin protein TraA and TrbI.


:

Pssm-ID: 319755  Cd Length: 180  Bit Score: 185.40  E-value: 2.01e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1692 LAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGVII 1770
Cdd:cd16429      1 LPAGTVIPAVLETAINSDLPGQVRAQVTRDVYDSTGRVLLIPKGSRLIGEYNSgVAQG---QSRVFVVWTRLITPDGVSI 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1771 PLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdkliglgkgrSERTPEFNYALGQAINGSMQS 1850
Cdd:cd16429     78 DLDSMPGADALGRAGLKGDVDNHFWERFGGALLLSLISDGAQAA---------------SSSASNSNSAGQAAGSNTGQS 142

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1851 SAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFS 1888
Cdd:cd16429    143 LGQVASQILERNLNIPPTITIRQGTRINIFVARDLDFS 180
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 9-73 7.78e-28

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


:

Pssm-ID: 405299  Cd Length: 65  Bit Score: 107.80  E-value: 7.78e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSE 73
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 139-203 7.10e-26

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


:

Pssm-ID: 405299  Cd Length: 65  Bit Score: 102.41  E-value: 7.10e-26
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192  139 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSE 203
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 269-325 1.65e-21

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


:

Pssm-ID: 405299  Cd Length: 65  Bit Score: 89.70  E-value: 1.65e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 325
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 57
PTZ00121 super family cl31754
MAEBL; Provisional
 846-1348 5.07e-14

MAEBL; Provisional


The actual alignment was detected with superfamily member PTZ00121:

Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 78.26  E-value: 5.07e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  846 KTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKteaEKKECEKLLTPEARKLLEE*AKESVKAYLDcvsqaknE 925
Cdd:PTZ00121  1237 KDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAE---EARKADELKKAEEKKKADEAKKAEEKKKAD-------E 1306

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  926 AEKKECEKLLTLESKKKLEEAKKSVKayldcvsqaktEAEKKECEKLLTPEAKKLLEQQALDCLKNA--KTEADKKRCVK 1003
Cdd:PTZ00121  1307 AKKKAEEAKKADEAKKKAEEAKKKAD-----------AAKKKAEEAKKAAEAAKAEAEAAADEAEAAeeKAEAAEKKKEE 1375

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1004 DLPKDLQKKVLAKESLKAykDCVSKARNEKEKKECEKLLTPEAKKLLEEAKKSVKAyldcvSQAKTEAEKKECEKLLTPE 1083
Cdd:PTZ00121  1376 AKKKADAAKKKAEEKKKA--DEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEE-----KKKADEAKKKAEEAKKADE 1448

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1084 ARKLLEEAKESVKAYKDCVSKAR-NEKEKKECEKLLTPEAKKLLEQqvldclknAKTEADKKRCVKDLPKDLQKKVLAKE 1162
Cdd:PTZ00121  1449 AKKKAEEAKKAEEAKKKAEEAKKaDEAKKKAEEAKKADEAKKKAEE--------AKKKADEAKKAAEAKKKADEAKKAEE 1520

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1163 SVKAyldcvSRARNEKEKKECEKLLTPEAKKLLEEAKESLKAYK----DCLSQARNEEERRACEKLLTPEARKLLEQEVK 1238
Cdd:PTZ00121  1521 AKKA-----DEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKaeekKKAEEAKKAEEDKNMALRKAEEAKKAEEARIE 1595

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1239 KSIKAYLDCVSRARNEKEKKECEKLLTPEARKFL-AKQVLNCLEKAGNEEERKAclKNLPKDLQENILAKESLKAY---- 1313
Cdd:PTZ00121  1596 EVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEeEKKKVEQLKKKEAEEKKKA--EELKKAEEENKIKAAEEAKKaeed 1673

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|....*
gi 2004286192 1314 KDCLSQARNEEE----------RRACEKLLTPEARKLLEQEVKKS 1348
Cdd:PTZ00121  1674 KKKAEEAKKAEEdekkaaealkKEAEEAKKAEELKKKEAEEKKKA 1718
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 622-653 4.51e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


:

Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 39.45  E-value: 4.51e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  622 AYKDCVSKARNEKEKQECEKLLTPEARKKLEQ 653
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 553-584 6.62e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


:

Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 38.68  E-value: 6.62e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  553 EYKDCIKNAKTEAEKNKCLKGLSKEAIERLKQ 584
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
SMC_N super family cl47134
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 109-942 7.90e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


The actual alignment was detected with superfamily member pfam02463:

Pssm-ID: 481474 [Multi-domain]  Cd Length: 1161  Bit Score: 44.58  E-value: 7.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  109 LDEETQELNEEDDQENNEYQEETQTDLIDDETSKKTQQHSpQDLSNEEATEANHFENLLKESKESSDhhldnpTETQTNF 188
Cdd:pfam02463  200 LKLKEQAKKALEYYQLKEKLELEEEYLLYLDYLKLNEERI-DLLQELLRDEQEEIESSKQEIEKEEE------KLAQVLK 272

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  189 DGDKSEETQTQMDSEGNETSessngSLADKLFKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDD 268
Cdd:pfam02463  273 ENKEEEKEKKLQEEELKLLA-----KEEEELKSELLKLERRKVDDEEKLKESEKEKKKAEKELKKEKEEIEELEKELKEL 347

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH-----HLDNPTETQTNFDGDKSEEITDDSNDQEIIKGSKKKY 343
Cdd:pfam02463  348 EIKREAEEEEEEELEKLQEKLEQLEEELLAKKKLESERlssaaKLKEEELELKSEEEKEAQLLLELARQLEDLLKEEKKE 427

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  344 IIGGIVVAVLIVIILFSRsifhyfmpLEDKSSRFSKDRNLYVNDEIQIRQEYNRLLKERNEKGNMIDKNLFFNDDPNRTL 423
Cdd:pfam02463  428 ELEILEEEEESIELKQGK--------LTEEKEELEKQELKLLKDELELKKSEDLLKETQLVKLQEQLELLLSRQKLEERS 499

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  424 YNYLNIAEIEDKNPLRAFYECISNGGNYEECLKLIKDKKLQDQMKKTLEAYNDCIKNAKTEEERIKCLDLIKDENLKKSL 503
Cdd:pfam02463  500 QKESKARSGLKVLLALIKDGVGGRIISAHGRLGDLGVAVENYKVAISTAVIVEVSATADEVEERQKLVRALTELPLGARK 579

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  504 LNQQKVQVALDCLKNAKtdEERNECLKLINDPEIREKFRKELELQKELQEYKDCIKNAKTEaEKNKCLKGLSKEAIERLK 583
Cdd:pfam02463  580 LRLLIPKLKLPLKSIAV--LEIDPILNLAQLDKATLEADEDDKRAKVVEGILKDTELTKLK-ESAKAKESGLRKGVSLEE 656

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  584 QQALDCLKNAKTDEERNECLKNIPQDLQKELLADMSVKAYKDCVSKARNEKEKQECEKLLTPEARKKLEQQVLDCLKNAK 663
Cdd:pfam02463  657 GLAEKSEVKASLSELTKELLEIQELQEKAESELAKEEILRRQLEIKKKEQREKEELKKLKLEAEELLADRVQEAQDKINE 736

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  664 TDEERKKCLKDLPKDLQSDILAKESLKAYKDCVSQAKTEAEKKEcekllTPEAKKLLEEEAKESVKAYLDCVSQAKTEAE 743
Cdd:pfam02463  737 ELKLLKQKIDEEEEEEEKSRLKKEEKEEEKSELSLKEKELAEER-----EKTEKLKVEEEKEEKLKAQEEELRALEEELK 811

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  744 KKECEKLLTPEAKKKLEEAKKSVKAYLdcvsrARNEKEKKECEKLLTPEAKKLLEQQALDCLKNAKTDKERKKCLKDLPK 823
Cdd:pfam02463  812 EEAELLEEEQLLIEQEEKIKEEELEEL-----ALELKEEQKLEKLAEEELERLEEEITKEELLQELLLKEEELEEQKLKD 886

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  824 DLQKKVLAKESVKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKTEAEKKECEKLLTPEARKL 903
Cdd:pfam02463  887 ELESKEEKEKEEKKELEEESQKLNLLEEKENEIEERIKEEAEILLKYEEEPEELLLEEADEKEKEENNKEEEEERNKRLL 966

                          810       820       830
                   ....*....|....*....|....*....|....*....
gi 2004286192  904 LEE*AKESVKAYLDCVSQAKNEAEKKECEKLLTLESKKK 942
Cdd:pfam02463  967 LAKEELGKVNLMAIEEFEEKEERYNKDELEKERLEEEKK 1005
 
Name Accession Description Interval E-value
VirB10 cd16429
VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains ...
 1692-1888 2.01e-53

VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains VirB10, a component of the type IV secretion system (T4SS), including homologs TrbI, TraF, TrwE and TraL. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10, interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both, the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. TrwE in R33 plasmid has been shown to be anchored to the inner membrane and its C-terminal is necessary for conjugation; the transmembrane domains of TrwB and TrwE are involved in TrwB-TrwE interactions. TraF protein of the RP4 plasmid is involved in circularization of pilin subunits of P-type pili. In gonococcal genetic island (GGI) of Neisseria gonorrhoeae, T4SS encodes TrbI and circularization occurs via a covalent intermediate between the C terminus of putative pilin protein TraA and TrbI.


Pssm-ID: 319755  Cd Length: 180  Bit Score: 185.40  E-value: 2.01e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1692 LAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGVII 1770
Cdd:cd16429      1 LPAGTVIPAVLETAINSDLPGQVRAQVTRDVYDSTGRVLLIPKGSRLIGEYNSgVAQG---QSRVFVVWTRLITPDGVSI 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1771 PLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdkliglgkgrSERTPEFNYALGQAINGSMQS 1850
Cdd:cd16429     78 DLDSMPGADALGRAGLKGDVDNHFWERFGGALLLSLISDGAQAA---------------SSSASNSNSAGQAAGSNTGQS 142

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1851 SAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFS 1888
Cdd:cd16429    143 LGQVASQILERNLNIPPTITIRQGTRINIFVARDLDFS 180
T4SS_VirB10 NF038091
type IV secretion system protein VirB10; Members of this family are VirB10, an outer ...
 1686-1893 1.49e-49

type IV secretion system protein VirB10; Members of this family are VirB10, an outer membrane-associated protein from the apparatus of protein type IV secretion systems (T4SS). The model attempts to exclude related TraI proteins of conjugal transfer systems as well as the ComB10 protein of a DNA-translocating competence protein of Helicobacter pylori. Because the N-terminal regions of VirB10 proteins are highly variable, the model


Pssm-ID: 468345  Cd Length: 197  Bit Score: 175.06  E-value: 1.49e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1686 SDPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAIT 1764
Cdd:NF038091     5 GDRDLLLTQGTMIPCVLETAIDSDLPGMVRCVVTRDVYSANGRVVLIERGSRVIGEYQSgLSQG---QARVFVLWTRIET 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1765 PDGVIIPLANAqAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdkligLGKGRSERTPEFNYalGQAI 1844
Cdd:NF038091    82 PDGVIVNLDSP-GTDELGRSGLPGYVDNHFWERFGGAILLSLIGDAGQYA----------ANKGQNGNGSGNGN--SVNF 148

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 2004286192 1845 NGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDV 1893
Cdd:NF038091   149 ENTSQAASDMASEALENTINIPPTLYKNQGDRINIFVARDLDFSGVYEL 197
VirB10 COG2948
Type IV secretory pathway, VirB10 component [Intracellular trafficking, secretion, and ...
 1687-1891 1.55e-43

Type IV secretory pathway, VirB10 component [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442191 [Multi-domain]  Cd Length: 309  Bit Score: 161.66  E-value: 1.55e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1687 DPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITP 1765
Cdd:COG2948    123 DSPYLLPAGTVIPAVLETGINSDLPGQITAQVTEDVYSATGRVLLIPQGSRLIGEYDSgVSFG---QSRVLVVWTRLITP 199

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1766 DGVIIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQtapiialdkligLGKGRSERTpefnyaLGQAI- 1844
Cdd:COG2948    200 DGVSIDLDSMPGTDALGRAGLEGQVDNHWWERFGAALLLSLLGDGAE------------LAASSDEGD------LSTAIr 261

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 2004286192 1845 NGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVY 1891
Cdd:COG2948    262 ENTAQSLSQAAQQILERNLNIPPTLTIRQGTRVRVIVARDLDFSSPY 308
TrbI pfam03743
Bacterial conjugation TrbI-like protein; Although not essential for conjugation, the TrbI ...
 1691-1886 5.68e-42

Bacterial conjugation TrbI-like protein; Although not essential for conjugation, the TrbI protein greatly increase the conjugational efficiency.


Pssm-ID: 427480  Cd Length: 187  Bit Score: 152.81  E-value: 5.68e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1691 VLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWN-MNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGV 1768
Cdd:pfam03743    1 YLPAGTVIPAVLITGINSDLPGQVTAQVTEPVYDsATGRALLIPKGSRLIGEYGSgVAYG---QERVLVVWTRLICPDGV 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1769 IIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdklIGLGKGRSERTPEFNYALGQAINGSM 1848
Cdd:pfam03743   78 SIDLDSPGGVDALGRAGLRGRVDNHFGQRFGAALLLSLLGGGGELA--------NAASSNSTSTSTGNDNLLGAVGSGAG 149

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1849 QSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDID 1886
Cdd:pfam03743  150 QALSQLAQQILERALNIPPTITVRQGTRVRIIVNRDLD 187
VirB10_subf NF041422
VirB10/TraB/TrbI family type IV secretion system protein;
1687-1895 4.23e-30

VirB10/TraB/TrbI family type IV secretion system protein;


Pssm-ID: 469313  Cd Length: 404  Bit Score: 125.13  E-value: 4.23e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1687 DPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS--VKGGtpiMTRLMIVFTKAIT 1764
Cdd:NF041422   210 DPDLYIPENTYIPCSLDRRFVSDVAGKISCTISEDVYSASGHVKLIPKGTTARGVYKTgtLKHG---QGRMFIIWTELRT 286

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1765 PD--GVIIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTAPiialdkliGLGKGRSERTpefNYAlgq 1842
Cdd:NF041422   287 PEppYLDIPLVDTQAAGQLGEAGIDGWIDTHFWERFGNALMLSTVQDVAAAAS--------GSAPGKDRNT---DYT--- 352

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2004286192 1843 aiNGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDVKI 1895
Cdd:NF041422   353 --ENSRQATAEMAKTALENSINIPPTLYKNQGDIIGLITGQDIDFSSIYQLRM 403
PRK13855 PRK13855
type IV secretion system protein VirB10; Provisional
 1688-1900 3.05e-29

type IV secretion system protein VirB10; Provisional


Pssm-ID: 172376  Cd Length: 376  Bit Score: 121.93  E-value: 3.05e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1688 PTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQsvKGGTPIMTRLMIVFTKAITPDG 1767
Cdd:PRK13855   178 PDFMVTQGTIIPCILQTAIDTNLAGYVKCVLPQDIRGTTNNVVLLDRGTTVVGEIQ--RGLQQGDARVFVLWDRAETPDH 255

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1768 VIIPLAnAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTAPIIAldkliglgkGRSERTPEFNyalgqaingS 1847
Cdd:PRK13855   256 AMISLS-SPGADELGRSGLPGTVDNHFWQRFSGAMLLSVVQGAFQAASTYA---------GSSGGGTSFN---------S 316

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2004286192 1848 MQSS-AQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDVKITNKSV 1900
Cdd:PRK13855   317 FQNNgEQTADTALKATINIPPTLKKNQGDTVSIFVARDLDFSGIYQLRMTGGAT 370
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 9-73 7.78e-28

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 107.80  E-value: 7.78e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSE 73
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 139-203 7.10e-26

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 102.41  E-value: 7.10e-26
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192  139 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSE 203
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 269-325 1.65e-21

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 89.70  E-value: 1.65e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 325
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 57
PTZ00121 PTZ00121
MAEBL; Provisional
 846-1348 5.07e-14

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 78.26  E-value: 5.07e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  846 KTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKteaEKKECEKLLTPEARKLLEE*AKESVKAYLDcvsqaknE 925
Cdd:PTZ00121  1237 KDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAE---EARKADELKKAEEKKKADEAKKAEEKKKAD-------E 1306

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  926 AEKKECEKLLTLESKKKLEEAKKSVKayldcvsqaktEAEKKECEKLLTPEAKKLLEQQALDCLKNA--KTEADKKRCVK 1003
Cdd:PTZ00121  1307 AKKKAEEAKKADEAKKKAEEAKKKAD-----------AAKKKAEEAKKAAEAAKAEAEAAADEAEAAeeKAEAAEKKKEE 1375

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1004 DLPKDLQKKVLAKESLKAykDCVSKARNEKEKKECEKLLTPEAKKLLEEAKKSVKAyldcvSQAKTEAEKKECEKLLTPE 1083
Cdd:PTZ00121  1376 AKKKADAAKKKAEEKKKA--DEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEE-----KKKADEAKKKAEEAKKADE 1448

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1084 ARKLLEEAKESVKAYKDCVSKAR-NEKEKKECEKLLTPEAKKLLEQqvldclknAKTEADKKRCVKDLPKDLQKKVLAKE 1162
Cdd:PTZ00121  1449 AKKKAEEAKKAEEAKKKAEEAKKaDEAKKKAEEAKKADEAKKKAEE--------AKKKADEAKKAAEAKKKADEAKKAEE 1520

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1163 SVKAyldcvSRARNEKEKKECEKLLTPEAKKLLEEAKESLKAYK----DCLSQARNEEERRACEKLLTPEARKLLEQEVK 1238
Cdd:PTZ00121  1521 AKKA-----DEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKaeekKKAEEAKKAEEDKNMALRKAEEAKKAEEARIE 1595

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1239 KSIKAYLDCVSRARNEKEKKECEKLLTPEARKFL-AKQVLNCLEKAGNEEERKAclKNLPKDLQENILAKESLKAY---- 1313
Cdd:PTZ00121  1596 EVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEeEKKKVEQLKKKEAEEKKKA--EELKKAEEENKIKAAEEAKKaeed 1673

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|....*
gi 2004286192 1314 KDCLSQARNEEE----------RRACEKLLTPEARKLLEQEVKKS 1348
Cdd:PTZ00121  1674 KKKAEEAKKAEEdekkaaealkKEAEEAKKAEELKKKEAEEKKKA 1718
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 17-331 4.13e-07

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 55.30  E-value: 4.13e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   17 DSPQDLSNEEATEANhfenllkESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADklfkkarkl 96
Cdd:NF033609   568 DSGSDSSNSDSGSDS-------GSDSTSDSGSDSASDSDSASDSDSASDSDSASDSDSASDSDSASDSDSA--------- 631

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   97 vdnkkpftQQKNLDEETQELNEEDDQENNEYQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH 176
Cdd:NF033609   632 --------SDSDSASDSDSDSDSDSDSDSDSDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 702

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  177 HLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGSLADklfKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNE 256
Cdd:NF033609   703 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD---SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 779

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192  257 YQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSN 331
Cdd:NF033609   780 SDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 853
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 9-214 2.59e-06

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 52.60  E-value: 2.59e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADK 88
Cdd:NF033609   665 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 744

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   89 LfKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDDETSkKTQQHSPQDLSNEEATEANHFENLLK 168
Cdd:NF033609   745 D-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS-DSDSDSDSDSDSDSDSDSDSDSDSDS 822

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 2004286192  169 ESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGS 214
Cdd:NF033609   823 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSESDSNSDSESGS 868
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 9-266 3.12e-06

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 52.60  E-value: 3.12e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADk 88
Cdd:NF033609   659 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD- 737

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   89 lfkkarKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLK 168
Cdd:NF033609   738 ------SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 810

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  169 ESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGSLADKLFKKARKLVDNKKPFTQQKNLDEETQELNE 248
Cdd:NF033609   811 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSESDSNSDSESGSNNNVVPPNSPKNGTNASNKNEA 890

                          250       260
                   ....*....|....*....|.
gi 2004286192  249 EDDQE---NNEYQEETQTDLI 266
Cdd:NF033609   891 KDSKEplpDTGSEDEANTSLI 911
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 1204-1235 2.04e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 40.22  E-value: 2.04e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192 1204 AYKDCLSQARNEEERRACEKLLTPEARKLLEQ 1235
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
tolA_full TIGR02794
TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the ...
 790-970 2.64e-04

TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274303 [Multi-domain]  Cd Length: 346  Bit Score: 45.22  E-value: 2.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  790 TPEAKKLLEQQALDCLKNAKTDKERKKCLKDLPKDLQKKVLAKESVKAYLDCVSQAKTEAEKKECEKLLTPEA---RKLL 866
Cdd:TIGR02794   66 EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAeaeRKAK 145

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  867 EEAKKsvKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEE*AKESVKAYldcVSQAKNEAEKKECEKlltlESKKKLEEA 946
Cdd:TIGR02794  146 EEAAK--QAEEEAKAKAAAEAKKKAEEAKKKAEAEAKAKAEAEAKAKAE---EAKAKAEAAKAKAAA----EAAAKAEAE 216

                          170       180
                   ....*....|....*....|....
gi 2004286192  947 KKsvkayldcvSQAKTEAEKKECE 970
Cdd:TIGR02794  217 AA---------AAAAAEAERKADE 231
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 622-653 4.51e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 39.45  E-value: 4.51e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  622 AYKDCVSKARNEKEKQECEKLLTPEARKKLEQ 653
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 553-584 6.62e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 38.68  E-value: 6.62e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  553 EYKDCIKNAKTEAEKNKCLKGLSKEAIERLKQ 584
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 109-942 7.90e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 44.58  E-value: 7.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  109 LDEETQELNEEDDQENNEYQEETQTDLIDDETSKKTQQHSpQDLSNEEATEANHFENLLKESKESSDhhldnpTETQTNF 188
Cdd:pfam02463  200 LKLKEQAKKALEYYQLKEKLELEEEYLLYLDYLKLNEERI-DLLQELLRDEQEEIESSKQEIEKEEE------KLAQVLK 272

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  189 DGDKSEETQTQMDSEGNETSessngSLADKLFKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDD 268
Cdd:pfam02463  273 ENKEEEKEKKLQEEELKLLA-----KEEEELKSELLKLERRKVDDEEKLKESEKEKKKAEKELKKEKEEIEELEKELKEL 347

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH-----HLDNPTETQTNFDGDKSEEITDDSNDQEIIKGSKKKY 343
Cdd:pfam02463  348 EIKREAEEEEEEELEKLQEKLEQLEEELLAKKKLESERlssaaKLKEEELELKSEEEKEAQLLLELARQLEDLLKEEKKE 427

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  344 IIGGIVVAVLIVIILFSRsifhyfmpLEDKSSRFSKDRNLYVNDEIQIRQEYNRLLKERNEKGNMIDKNLFFNDDPNRTL 423
Cdd:pfam02463  428 ELEILEEEEESIELKQGK--------LTEEKEELEKQELKLLKDELELKKSEDLLKETQLVKLQEQLELLLSRQKLEERS 499

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  424 YNYLNIAEIEDKNPLRAFYECISNGGNYEECLKLIKDKKLQDQMKKTLEAYNDCIKNAKTEEERIKCLDLIKDENLKKSL 503
Cdd:pfam02463  500 QKESKARSGLKVLLALIKDGVGGRIISAHGRLGDLGVAVENYKVAISTAVIVEVSATADEVEERQKLVRALTELPLGARK 579

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  504 LNQQKVQVALDCLKNAKtdEERNECLKLINDPEIREKFRKELELQKELQEYKDCIKNAKTEaEKNKCLKGLSKEAIERLK 583
Cdd:pfam02463  580 LRLLIPKLKLPLKSIAV--LEIDPILNLAQLDKATLEADEDDKRAKVVEGILKDTELTKLK-ESAKAKESGLRKGVSLEE 656

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  584 QQALDCLKNAKTDEERNECLKNIPQDLQKELLADMSVKAYKDCVSKARNEKEKQECEKLLTPEARKKLEQQVLDCLKNAK 663
Cdd:pfam02463  657 GLAEKSEVKASLSELTKELLEIQELQEKAESELAKEEILRRQLEIKKKEQREKEELKKLKLEAEELLADRVQEAQDKINE 736

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  664 TDEERKKCLKDLPKDLQSDILAKESLKAYKDCVSQAKTEAEKKEcekllTPEAKKLLEEEAKESVKAYLDCVSQAKTEAE 743
Cdd:pfam02463  737 ELKLLKQKIDEEEEEEEKSRLKKEEKEEEKSELSLKEKELAEER-----EKTEKLKVEEEKEEKLKAQEEELRALEEELK 811

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  744 KKECEKLLTPEAKKKLEEAKKSVKAYLdcvsrARNEKEKKECEKLLTPEAKKLLEQQALDCLKNAKTDKERKKCLKDLPK 823
Cdd:pfam02463  812 EEAELLEEEQLLIEQEEKIKEEELEEL-----ALELKEEQKLEKLAEEELERLEEEITKEELLQELLLKEEELEEQKLKD 886

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  824 DLQKKVLAKESVKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKTEAEKKECEKLLTPEARKL 903
Cdd:pfam02463  887 ELESKEEKEKEEKKELEEESQKLNLLEEKENEIEERIKEEAEILLKYEEEPEELLLEEADEKEKEENNKEEEEERNKRLL 966

                          810       820       830
                   ....*....|....*....|....*....|....*....
gi 2004286192  904 LEE*AKESVKAYLDCVSQAKNEAEKKECEKLLTLESKKK 942
Cdd:pfam02463  967 LAKEELGKVNLMAIEEFEEKEERYNKDELEKERLEEEKK 1005
 
Name Accession Description Interval E-value
VirB10 cd16429
VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains ...
 1692-1888 2.01e-53

VirB10 forms part of core complex in Type IV secretion system (T4SS); This family contains VirB10, a component of the type IV secretion system (T4SS), including homologs TrbI, TraF, TrwE and TraL. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10, interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both, the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. TrwE in R33 plasmid has been shown to be anchored to the inner membrane and its C-terminal is necessary for conjugation; the transmembrane domains of TrwB and TrwE are involved in TrwB-TrwE interactions. TraF protein of the RP4 plasmid is involved in circularization of pilin subunits of P-type pili. In gonococcal genetic island (GGI) of Neisseria gonorrhoeae, T4SS encodes TrbI and circularization occurs via a covalent intermediate between the C terminus of putative pilin protein TraA and TrbI.


Pssm-ID: 319755  Cd Length: 180  Bit Score: 185.40  E-value: 2.01e-53
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1692 LAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGVII 1770
Cdd:cd16429      1 LPAGTVIPAVLETAINSDLPGQVRAQVTRDVYDSTGRVLLIPKGSRLIGEYNSgVAQG---QSRVFVVWTRLITPDGVSI 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1771 PLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdkliglgkgrSERTPEFNYALGQAINGSMQS 1850
Cdd:cd16429     78 DLDSMPGADALGRAGLKGDVDNHFWERFGGALLLSLISDGAQAA---------------SSSASNSNSAGQAAGSNTGQS 142

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1851 SAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFS 1888
Cdd:cd16429    143 LGQVASQILERNLNIPPTITIRQGTRINIFVARDLDFS 180
T4SS_VirB10 NF038091
type IV secretion system protein VirB10; Members of this family are VirB10, an outer ...
 1686-1893 1.49e-49

type IV secretion system protein VirB10; Members of this family are VirB10, an outer membrane-associated protein from the apparatus of protein type IV secretion systems (T4SS). The model attempts to exclude related TraI proteins of conjugal transfer systems as well as the ComB10 protein of a DNA-translocating competence protein of Helicobacter pylori. Because the N-terminal regions of VirB10 proteins are highly variable, the model


Pssm-ID: 468345  Cd Length: 197  Bit Score: 175.06  E-value: 1.49e-49
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1686 SDPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAIT 1764
Cdd:NF038091     5 GDRDLLLTQGTMIPCVLETAIDSDLPGMVRCVVTRDVYSANGRVVLIERGSRVIGEYQSgLSQG---QARVFVLWTRIET 81

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1765 PDGVIIPLANAqAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdkligLGKGRSERTPEFNYalGQAI 1844
Cdd:NF038091    82 PDGVIVNLDSP-GTDELGRSGLPGYVDNHFWERFGGAILLSLIGDAGQYA----------ANKGQNGNGSGNGN--SVNF 148

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*....
gi 2004286192 1845 NGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDV 1893
Cdd:NF038091   149 ENTSQAASDMASEALENTINIPPTLYKNQGDRINIFVARDLDFSGVYEL 197
VirB10 COG2948
Type IV secretory pathway, VirB10 component [Intracellular trafficking, secretion, and ...
 1687-1891 1.55e-43

Type IV secretory pathway, VirB10 component [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442191 [Multi-domain]  Cd Length: 309  Bit Score: 161.66  E-value: 1.55e-43
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1687 DPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITP 1765
Cdd:COG2948    123 DSPYLLPAGTVIPAVLETGINSDLPGQITAQVTEDVYSATGRVLLIPQGSRLIGEYDSgVSFG---QSRVLVVWTRLITP 199

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1766 DGVIIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQtapiialdkligLGKGRSERTpefnyaLGQAI- 1844
Cdd:COG2948    200 DGVSIDLDSMPGTDALGRAGLEGQVDNHWWERFGAALLLSLLGDGAE------------LAASSDEGD------LSTAIr 261

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 2004286192 1845 NGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVY 1891
Cdd:COG2948    262 ENTAQSLSQAAQQILERNLNIPPTLTIRQGTRVRVIVARDLDFSSPY 308
TrbI pfam03743
Bacterial conjugation TrbI-like protein; Although not essential for conjugation, the TrbI ...
 1691-1886 5.68e-42

Bacterial conjugation TrbI-like protein; Although not essential for conjugation, the TrbI protein greatly increase the conjugational efficiency.


Pssm-ID: 427480  Cd Length: 187  Bit Score: 152.81  E-value: 5.68e-42
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1691 VLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWN-MNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGV 1768
Cdd:pfam03743    1 YLPAGTVIPAVLITGINSDLPGQVTAQVTEPVYDsATGRALLIPKGSRLIGEYGSgVAYG---QERVLVVWTRLICPDGV 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1769 IIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTApiialdklIGLGKGRSERTPEFNYALGQAINGSM 1848
Cdd:pfam03743   78 SIDLDSPGGVDALGRAGLRGRVDNHFGQRFGAALLLSLLGGGGELA--------NAASSNSTSTSTGNDNLLGAVGSGAG 149

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1849 QSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDID 1886
Cdd:pfam03743  150 QALSQLAQQILERALNIPPTITVRQGTRVRIIVNRDLD 187
VirB10_like cd16426
VirB10 and similar proteins form part of core complex in Type IV secretion system (T4SS); This ...
 1692-1888 1.28e-35

VirB10 and similar proteins form part of core complex in Type IV secretion system (T4SS); This family contains VirB10, a component of the type IV secretion system (T4SS) and its homologs, including TraB, TraF, IcmE, and similar proteins. T4S system is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. It forms a large multiprotein complex consisting of 12 proteins termed VirB1-11 and VirD4. VirB10 interacts with VirB7 and VirB9, forming the membrane-spanning 'core complex' (CC), around which all other components assemble. The CC is inserted in both the outer and inner membranes, playing a fundamental role as a scaffold for the rest of the T4SS components and actively participating in T4S substrate transfer through the bacterial envelope via conformational changes regulating channel opening and closing. In Gram-negative bacterial pathogen Helicobacter pylori, an important aetiological agent of gastroduodenal disease in humans, the comB3 gene encodes protein with best homologies to TraS/TraB from the Pseudomonas aeruginosa conjugative plasmid RP1 and TrbI of plasmid RP4 and VirB10 from the Ti plasmid of Agrobacterium tumefaciens, as well as DotG/IcmE of Legionella pneumophila.


Pssm-ID: 319754 [Multi-domain]  Cd Length: 151  Bit Score: 133.05  E-value: 1.28e-35
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1692 LAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQsvkGGTPIMTRLMIVFTKAITPDGVIIP 1771
Cdd:cd16426      1 LLPGTIIPAVLLTGIDSDLPGPVLARVTRDVYDPNGGRLLIPKGSRLIGEYY---GDLSSQERVLVRWTRLICPDGVSID 77

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1772 LANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVnsflqtapiialdkliglgkgrsertpefnyalgqaingsmqsS 1851
Cdd:cd16426     78 LDSVAGADALGRAGLRGDVDNHFGERFGGALLASLL-------------------------------------------S 114

                          170       180       190
                   ....*....|....*....|....*....|....*..
gi 2004286192 1852 AQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFS 1888
Cdd:cd16426    115 GQLAQQYLQRAENIPPTITVNAGTRVNIVVARDVDLP 151
VirB10_subf NF041422
VirB10/TraB/TrbI family type IV secretion system protein;
1687-1895 4.23e-30

VirB10/TraB/TrbI family type IV secretion system protein;


Pssm-ID: 469313  Cd Length: 404  Bit Score: 125.13  E-value: 4.23e-30
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1687 DPTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQS--VKGGtpiMTRLMIVFTKAIT 1764
Cdd:NF041422   210 DPDLYIPENTYIPCSLDRRFVSDVAGKISCTISEDVYSASGHVKLIPKGTTARGVYKTgtLKHG---QGRMFIIWTELRT 286

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1765 PD--GVIIPLANAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTAPiialdkliGLGKGRSERTpefNYAlgq 1842
Cdd:NF041422   287 PEppYLDIPLVDTQAAGQLGEAGIDGWIDTHFWERFGNALMLSTVQDVAAAAS--------GSAPGKDRNT---DYT--- 352

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|...
gi 2004286192 1843 aiNGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDVKI 1895
Cdd:NF041422   353 --ENSRQATAEMAKTALENSINIPPTLYKNQGDIIGLITGQDIDFSSIYQLRM 403
PRK13855 PRK13855
type IV secretion system protein VirB10; Provisional
 1688-1900 3.05e-29

type IV secretion system protein VirB10; Provisional


Pssm-ID: 172376  Cd Length: 376  Bit Score: 121.93  E-value: 3.05e-29
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1688 PTFVLAQYTPIEITLTSKVDATLTGIVSGVVAKDVWNMNGTMILLDKGTKVYGNYQsvKGGTPIMTRLMIVFTKAITPDG 1767
Cdd:PRK13855   178 PDFMVTQGTIIPCILQTAIDTNLAGYVKCVLPQDIRGTTNNVVLLDRGTTVVGEIQ--RGLQQGDARVFVLWDRAETPDH 255

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1768 VIIPLAnAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVVNSFLQTAPIIAldkliglgkGRSERTPEFNyalgqaingS 1847
Cdd:PRK13855   256 AMISLS-SPGADELGRSGLPGTVDNHFWQRFSGAMLLSVVQGAFQAASTYA---------GSSGGGTSFN---------S 316

                          170       180       190       200       210
                   ....*....|....*....|....*....|....*....|....*....|....
gi 2004286192 1848 MQSS-AQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVYDVKITNKSV 1900
Cdd:PRK13855   317 FQNNgEQTADTALKATINIPPTLKKNQGDTVSIFVARDLDFSGIYQLRMTGGAT 370
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 9-73 7.78e-28

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 107.80  E-value: 7.78e-28
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSE 73
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 139-203 7.10e-26

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 102.41  E-value: 7.10e-26
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192  139 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSE 203
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSNDQ 65
CagY_I pfam14585
CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the ...
 269-325 1.65e-21

CagY type 1 repeat; This repeat is found at the N-terminus of the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells.


Pssm-ID: 405299  Cd Length: 65  Bit Score: 89.70  E-value: 1.65e-21
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*..
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 325
Cdd:pfam14585    1 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEE 57
PTZ00121 PTZ00121
MAEBL; Provisional
 846-1348 5.07e-14

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 78.26  E-value: 5.07e-14
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  846 KTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKteaEKKECEKLLTPEARKLLEE*AKESVKAYLDcvsqaknE 925
Cdd:PTZ00121  1237 KDAEEAKKAEEERNNEEIRKFEEARMAHFARRQAAIKAE---EARKADELKKAEEKKKADEAKKAEEKKKAD-------E 1306

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  926 AEKKECEKLLTLESKKKLEEAKKSVKayldcvsqaktEAEKKECEKLLTPEAKKLLEQQALDCLKNA--KTEADKKRCVK 1003
Cdd:PTZ00121  1307 AKKKAEEAKKADEAKKKAEEAKKKAD-----------AAKKKAEEAKKAAEAAKAEAEAAADEAEAAeeKAEAAEKKKEE 1375

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1004 DLPKDLQKKVLAKESLKAykDCVSKARNEKEKKECEKLLTPEAKKLLEEAKKSVKAyldcvSQAKTEAEKKECEKLLTPE 1083
Cdd:PTZ00121  1376 AKKKADAAKKKAEEKKKA--DEAKKKAEEDKKKADELKKAAAAKKKADEAKKKAEE-----KKKADEAKKKAEEAKKADE 1448

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1084 ARKLLEEAKESVKAYKDCVSKAR-NEKEKKECEKLLTPEAKKLLEQqvldclknAKTEADKKRCVKDLPKDLQKKVLAKE 1162
Cdd:PTZ00121  1449 AKKKAEEAKKAEEAKKKAEEAKKaDEAKKKAEEAKKADEAKKKAEE--------AKKKADEAKKAAEAKKKADEAKKAEE 1520

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1163 SVKAyldcvSRARNEKEKKECEKLLTPEAKKLLEEAKESLKAYK----DCLSQARNEEERRACEKLLTPEARKLLEQEVK 1238
Cdd:PTZ00121  1521 AKKA-----DEAKKAEEAKKADEAKKAEEKKKADELKKAEELKKaeekKKAEEAKKAEEDKNMALRKAEEAKKAEEARIE 1595

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1239 KSIKAYLDCVSRARNEKEKKECEKLLTPEARKFL-AKQVLNCLEKAGNEEERKAclKNLPKDLQENILAKESLKAY---- 1313
Cdd:PTZ00121  1596 EVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEeEKKKVEQLKKKEAEEKKKA--EELKKAEEENKIKAAEEAKKaeed 1673

                          490       500       510       520
                   ....*....|....*....|....*....|....*....|....*
gi 2004286192 1314 KDCLSQARNEEE----------RRACEKLLTPEARKLLEQEVKKS 1348
Cdd:PTZ00121  1674 KKKAEEAKKAEEdekkaaealkKEAEEAKKAEELKKKEAEEKKKA 1718
PTZ00121 PTZ00121
MAEBL; Provisional
 386-1157 1.75e-13

MAEBL; Provisional


Pssm-ID: 173412 [Multi-domain]  Cd Length: 2084  Bit Score: 76.72  E-value: 1.75e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  386 NDEIQIRQEYNRLLKERNEKGNMIDKNLFFNDDPNRTLYNYLNIAEIEDKNPLRAFYECIsngGNYEECLKLIKDKKLQD 465
Cdd:PTZ00121  1038 NDDVLKEKDIIDEDIDGNHEGKAEAKAHVGQDEGLKPSYKDFDFDAKEDNRADEATEEAF---GKAEEAKKTETGKAEEA 1114

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  466 QMKKtlEAYNDCIKNAKTEEERiKCLDLIKDENLKKSLlNQQKVQVALDCLKNAKTDEERN-ECLKLINDPEIREKFRKE 544
Cdd:PTZ00121  1115 RKAE--EAKKKAEDARKAEEAR-KAEDARKAEEARKAE-DAKRVEIARKAEDARKAEEARKaEDAKKAEAARKAEEVRKA 1190

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  545 LELQKELQ----EYKDCIKNAKTEAEKNKCLKGLSKEAIERLKQQALDCLKNAKTDEERNEclknipQDLQKELLADMSV 620
Cdd:PTZ00121  1191 EELRKAEDarkaEAARKAEEERKAEEARKAEDAKKAEAVKKAEEAKKDAEEAKKAEEERNN------EEIRKFEEARMAH 1264

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  621 KAYKDCVSKArneKEKQECEKLLTPEARKKLEQqvldclknAKTDEERKKcLKDLPKDLQSDILAKESLKAYKDCVSQAK 700
Cdd:PTZ00121  1265 FARRQAAIKA---EEARKADELKKAEEKKKADE--------AKKAEEKKK-ADEAKKKAEEAKKADEAKKKAEEAKKKAD 1332

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  701 tEAEKKECEKLLTPEAKKLLEEEAKESVKAYLDCVSQA--KTEAEKKECEKLltpEAKKKLEEAKKSVKAYLDCVSRARN 778
Cdd:PTZ00121  1333 -AAKKKAEEAKKAAEAAKAEAEAAADEAEAAEEKAEAAekKKEEAKKKADAA---KKKAEEKKKADEAKKKAEEDKKKAD 1408

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  779 EKEKKECEKLLTPEAKKLLEQQALdcLKNAKTDKERKKCLKDLPKDLQKKVLAKESVKAyldcvsqaKTEAEKKECEKLL 858
Cdd:PTZ00121  1409 ELKKAAAAKKKADEAKKKAEEKKK--ADEAKKKAEEAKKADEAKKKAEEAKKAEEAKKK--------AEEAKKADEAKKK 1478

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  859 TPEARKLLEEAKKSVKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEE*AKESVKAYLDCVSQA---KNEAEKKECEKLL 935
Cdd:PTZ00121  1479 AEEAKKADEAKKKAEEAKKKADEAKKAAEAKKKADEAKKAEEAKKADEAKKAEEAKKADEAKKAeekKKADELKKAEELK 1558

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  936 TLESKKKLEEAKKSVKAYLDCVSQAKteaEKKECEKLLTPEAKKLLEQQALDCLKNAKTEADKKRCVKDLPKDLQKKVLA 1015
Cdd:PTZ00121  1559 KAEEKKKAEEAKKAEEDKNMALRKAE---EAKKAEEARIEEVMKLYEEEKKMKAEEAKKAEEAKIKAEELKKAEEEKKKV 1635

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1016 KESLKAYKDCVSKARNEKEKKECEKLLTPEAKKLLEEAKKSVKayldcvSQAKTEAEKKECEKLLTPEARKlLEEAKESV 1095
Cdd:PTZ00121  1636 EQLKKKEAEEKKKAEELKKAEEENKIKAAEEAKKAEEDKKKAE------EAKKAEEDEKKAAEALKKEAEE-AKKAEELK 1708

                          730       740       750       760       770       780
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 2004286192 1096 KAYKDCVSKARNEKEKKECEKLLTPEAKKLLEQQVLDClKNAKTEADKKRCVKDLPKDLQKK 1157
Cdd:PTZ00121  1709 KKEAEEKKKAEELKKAEEENKIKAEEAKKEAEEDKKKA-EEAKKDEEEKKKIAHLKKEEEKK 1769
PRK13881 PRK13881
conjugal transfer protein TrbI; Provisional
 1701-1891 1.25e-08

conjugal transfer protein TrbI; Provisional


Pssm-ID: 237541  Cd Length: 472  Bit Score: 59.79  E-value: 1.25e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1701 TLTSKVDATLTGIVSGVVAKDVWNM-NGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMIVFTKAITPDGVIIPLANAQAA 1778
Cdd:PRK13881   288 TLISGINSDLPGQIMAQVSQNVYDTaTGKHLLIPQGSRLVGSYSSdVAYG---QARVLVAWQRIVFPDGKAMDIGAMPGA 364

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1779 GMLGEAGVDGYVNNHFMKRIGFAVIASVVnsflqTAPiialdklIGLGKGRSERTPEFNY-----ALGQAINgsmQSSAQ 1853
Cdd:PRK13881   365 DSAGYAGFRDQVNNHYVRIFGSAFLMSGV-----TAG-------ITYSQDQNQNNNGYGQptassALSEALG---QQLGQ 429

                          170       180       190
                   ....*....|....*....|....*....|....*...
gi 2004286192 1854 MSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVY 1891
Cdd:PRK13881   430 VTAQLIAKNLNIAPTLEIRPGYRFNVIVTKDMTFSKPY 467
IcmE cd16431
DotG/IcmE is a homolog of VirB10 which forms part of core complex in Type IV secretion system; ...
 1734-1885 2.02e-08

DotG/IcmE is a homolog of VirB10 which forms part of core complex in Type IV secretion system; This family contains DotG/IcmE (VirB10 homolog) and a component of the type IV secretion system (T4SS), and similar proteins. The Dot/Icm system is a T4SS found in the pathogens Legionella and Coxiella and the conjugative apparatus of IncI plasmids; T4SS is employed by pathogenic bacteria to export virulence DNAs and/or proteins directly from the bacterial cytoplasm into the host cell. Similar to T4SS VirB/D components, the Legionella Dot/Icm secretion apparatus contains a critical five-protein sub-assembly that forms the membrane-spanning 'core-complex' (CC), around which all other components assemble. This transmembrane connection is mediated by protein dimer pairs consisting of two inner membrane proteins, DotF and DotG, each independently associating with DotH/DotC/DotD in the outer membrane.


Pssm-ID: 319757  Cd Length: 179  Bit Score: 56.05  E-value: 2.02e-08
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1734 KGTKVYGNYQSVKggtpimTRLMIVFTKAITPDGVIIPLaNAQAAGMLGEAGVDGYVNNHFMKRIGFAVIASVV----NS 1809
Cdd:cd16431     34 KGARLIGSFERSG------DGVVITFTTMVLPGGKSYPI-DAYALDDRTLSAVASDVDNHYLSRYGLPAAAAFLqglgQA 106

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2004286192 1810 FLQTAPIIAldkLIGLGKGRSER-TPEFNYALGQAINGSMQssaQMSnQILGQLMNIPPSFYKNEGDSIKILTMDDI 1885
Cdd:cd16431    107 YQQAGTTTT---STSGGTVTVTTgTPDGKQAAGAAAGGVGQ---QLG-QVLAQDANRPPTVTVPAGTPIGILFMSDV 176
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 17-331 4.13e-07

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 55.30  E-value: 4.13e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   17 DSPQDLSNEEATEANhfenllkESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADklfkkarkl 96
Cdd:NF033609   568 DSGSDSSNSDSGSDS-------GSDSTSDSGSDSASDSDSASDSDSASDSDSASDSDSASDSDSASDSDSA--------- 631

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   97 vdnkkpftQQKNLDEETQELNEEDDQENNEYQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH 176
Cdd:NF033609   632 --------SDSDSASDSDSDSDSDSDSDSDSDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 702

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  177 HLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGSLADklfKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNE 256
Cdd:NF033609   703 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD---SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 779

                          250       260       270       280       290       300       310
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 2004286192  257 YQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTNFDGDKSEEITDDSN 331
Cdd:NF033609   780 SDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD 853
PRK13831 PRK13831
conjugal transfer protein TrbI; Provisional
 1688-1891 4.24e-07

conjugal transfer protein TrbI; Provisional


Pssm-ID: 172358 [Multi-domain]  Cd Length: 432  Bit Score: 54.74  E-value: 4.24e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1688 PTFVLAQYTPIEITLTSKVDATL-TGIVSGV-------VAKDVWN-MNGTMILLDKGTKVYGNYQS-VKGGtpiMTRLMI 1757
Cdd:PRK13831   233 PNRVVPQQSPYELKRGSVIPATLiTGINSDLpgritaqVSQNVYDsATGHRLLIPQGTKLFGRYDSkVSFG---QSRVLV 309

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192 1758 VFTKAITPDGviiplANAQAAGMlgeAGVD--GY------VNNHFMKRIGFAVIasvvnsflqtapiIALdklIGLGKGR 1829
Cdd:PRK13831   310 VWTDIIFPNG-----STLQIGGM---AGTDaeGYggfkdkVDRHYLRTFGSAIL-------------IAL---IGTGIDM 365

                          170       180       190       200       210       220
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 2004286192 1830 SerTPEFNYALGQ------AINGSMQSSAQMSNQILGQLMNIPPSFYKNEGDSIKILTMDDIDFSGVY 1891
Cdd:PRK13831   366 A--VPESSTLATQdtasdaARRNFAETFGRVAERTISKNLNVQPTLEIRPGYKFNVLVDQDIVFPGAY 431
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 9-214 2.59e-06

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 52.60  E-value: 2.59e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADK 88
Cdd:NF033609   665 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 744

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   89 LfKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDDETSkKTQQHSPQDLSNEEATEANHFENLLK 168
Cdd:NF033609   745 D-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS-DSDSDSDSDSDSDSDSDSDSDSDSDS 822

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*.
gi 2004286192  169 ESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGS 214
Cdd:NF033609   823 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSESDSNSDSESGS 868
MSCRAMM_ClfA NF033609
MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial ...
 9-266 3.12e-06

MSCRAMM family adhesin clumping factor ClfA; Clumping factor A is an MSCRAMM (Microbial Surface Components Recognizing Adhesive Matrix Molecules). It is heavily studied in Staphylococcus aureus both for its biological role in adhesion and for its potential for vaccination. Features of the sequence, but also of other MSCRAMM adhesins, include a long run of Ser-Asp dipeptide repeats and a C-terminal cell wall anchoring LPXTG motif.


Pssm-ID: 468110 [Multi-domain]  Cd Length: 934  Bit Score: 52.60  E-value: 3.12e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192    9 ETSKKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSNGSLADk 88
Cdd:NF033609   659 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD- 737

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   89 lfkkarKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDlIDDETSKKTQQHSPQDLSNEEATEANHFENLLK 168
Cdd:NF033609   738 ------SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSD-SDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDS 810

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  169 ESKESSDHHLDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGSLADKLFKKARKLVDNKKPFTQQKNLDEETQELNE 248
Cdd:NF033609   811 DSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSDSESDSNSDSESGSNNNVVPPNSPKNGTNASNKNEA 890

                          250       260
                   ....*....|....*....|.
gi 2004286192  249 EDDQE---NNEYQEETQTDLI 266
Cdd:NF033609   891 KDSKEplpDTGSEDEANTSLI 911
PRK08581 PRK08581
amidase domain-containing protein;
21-347 4.12e-06

amidase domain-containing protein;


Pssm-ID: 236304 [Multi-domain]  Cd Length: 619  Bit Score: 51.71  E-value: 4.12e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   21 DLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGNETSESSN--GSLADKLFKKARKLVD 98
Cdd:PRK08581    29 DPQKDSTAKTTSHDSKKSNDDETSKDTSSKDTDKADNNNTSNQDNNDKKFSTIDSSTSDSNNiiDFIYKNLPQTNINQLL 108

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   99 NKKPFTQQKNLDEETQEL--NEEDDQENNEYQEETQTDLIDDETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH 176
Cdd:PRK08581   109 TKNKYDDNYSLTTLIQNLfnLNSDISDYEQPRNSEKSTNDSNKNSDSSIKNDTDTQSSKQDKADNQKAPSSNNTKPSTSN 188

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  177 hlDNPTETQTNFDGDKSEETQTQMDSeGNETSESSNGSLADKLfkkarklvdnkkpftqqknLDEETQELNEEDDQENNE 256
Cdd:PRK08581   189 --KQPNSPKPTQPNQSNSQPASDDTA-NQKSSSKDNQSMSDSA-------------------LDSILDQYSEDAKKTQKD 246

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  257 YQEETQTDliddeTSKKTQQHSPQDLSNEE----ATEANHFENLLKESKESSDHHLDNPTETQTNfDGDKSEEITDDSND 332
Cdd:PRK08581   247 YASQSKKD-----KTETSNTKNPQLPTQDElkhkSKPAQSFENDVNQSNTRSTSLFETGPSLSNN-DDSGSFNVVDSKDT 320

                          330
                   ....*....|....*.
gi 2004286192  333 QEIIKG-SKKKYIIGG 347
Cdd:PRK08581   321 RQFIKSiAKDAHRIGQ 336
PTZ00341 PTZ00341
Ring-infected erythrocyte surface antigen; Provisional
 12-260 9.58e-06

Ring-infected erythrocyte surface antigen; Provisional


Pssm-ID: 173534 [Multi-domain]  Cd Length: 1136  Bit Score: 50.94  E-value: 9.58e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   12 KKAQQDSPQDLSNEEATEANHFENLLKESKESSDHHLDNPTETQTHFDGDKSEETQTQMDSEGN---ETSESSNGSLADK 88
Cdd:PTZ00341   903 KKAKKKDAKDLSGNIAHEINLINKELKNQNENVPEHLKEHAEANIEEDAEENVEEDAEENVEENveeNVEENVEENVEEN 982

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192   89 LFKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDDETSKKTQQHSPQdlsNEEATEANHFENlLK 168
Cdd:PTZ00341   983 VEENVEENVEENVEENVEENIEENVEENVEENIEENVEEYDEENVEEVEENVEEYDEENVEE---IEENAEENVEEN-IE 1058

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  169 ESKESSDHhlDNPTETQTNFDGDKSEETQTQMDSEGNETSESSNGSLADKLFKKArklvdnkkpftqQKNLDEETQELNE 248
Cdd:PTZ00341  1059 ENIEEYDE--ENVEEIEENIEENIEENVEENVEENVEEIEENVEENVEENAEENA------------EENAEENAEEYDD 1124

                          250
                   ....*....|..
gi 2004286192  249 EDDQENNEYQEE 260
Cdd:PTZ00341  1125 ENPEEHNEEYDE 1136
tolA PRK09510
cell envelope integrity inner membrane protein TolA; Provisional
 807-1009 1.64e-04

cell envelope integrity inner membrane protein TolA; Provisional


Pssm-ID: 236545 [Multi-domain]  Cd Length: 387  Bit Score: 46.34  E-value: 1.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  807 NAKTDKERKKCLKDLPKDLQKKVLA-KESVKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEEAKKSVKAyldcVSQAKT 885
Cdd:PRK09510    74 AKRAEEQRKKKEQQQAEELQQKQAAeQERLKQLEKERLAAQEQKKQAEEAAKQAALKQKQAEEAAAKAAA----AAKAKA 149

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  886 EAEKKECE---KLLTPEARKLLEE*AKESVKAyldcvsQAKNEAEKKECEKLLTLESKKKLEEAKKSVKAyldcVSQAKT 962
Cdd:PRK09510   150 EAEAKRAAaaaKKAAAEAKKKAEAEAAKKAAA------EAKKKAEAEAAAKAAAEAKKKAEAEAKKKAAA----EAKKKA 219

                          170       180       190       200
                   ....*....|....*....|....*....|....*....|....*..
gi 2004286192  963 EAEKKECEKLLTPEAKKLLEQQALDCLKNAKTEADKKRCVKDLPKDL 1009
Cdd:PRK09510   220 AAEAKAAAAKAAAEAKAAAEKAAAAKAAEKAAAAKAAAEVDDLFGGL 266
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 1204-1235 2.04e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 40.22  E-value: 2.04e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192 1204 AYKDCLSQARNEEERRACEKLLTPEARKLLEQ 1235
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 1312-1343 2.04e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 40.22  E-value: 2.04e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192 1312 AYKDCLSQARNEEERRACEKLLTPEARKLLEQ 1343
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
tolA_full TIGR02794
TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the ...
 790-970 2.64e-04

TolA protein; TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB. [Transport and binding proteins, Other, Cellular processes, Pathogenesis]


Pssm-ID: 274303 [Multi-domain]  Cd Length: 346  Bit Score: 45.22  E-value: 2.64e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  790 TPEAKKLLEQQALDCLKNAKTDKERKKCLKDLPKDLQKKVLAKESVKAYLDCVSQAKTEAEKKECEKLLTPEA---RKLL 866
Cdd:TIGR02794   66 EQERQKKLEQQAEEAEKQRAAEQARQKELEQRAAAEKAAKQAEQAAKQAEEKQKQAEEAKAKQAAEAKAKAEAeaeRKAK 145

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  867 EEAKKsvKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEE*AKESVKAYldcVSQAKNEAEKKECEKlltlESKKKLEEA 946
Cdd:TIGR02794  146 EEAAK--QAEEEAKAKAAAEAKKKAEEAKKKAEAEAKAKAEAEAKAKAE---EAKAKAEAAKAKAAA----EAAAKAEAE 216

                          170       180
                   ....*....|....*....|....
gi 2004286192  947 KKsvkayldcvSQAKTEAEKKECE 970
Cdd:TIGR02794  217 AA---------AAAAAEAERKADE 231
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 622-653 4.51e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 39.45  E-value: 4.51e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  622 AYKDCVSKARNEKEKQECEKLLTPEARKKLEQ 653
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 553-584 6.62e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 38.68  E-value: 6.62e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  553 EYKDCIKNAKTEAEKNKCLKGLSKEAIERLKQ 584
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
SMC_N pfam02463
RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The ...
 109-942 7.90e-04

RecF/RecN/SMC N terminal domain; This domain is found at the N terminus of SMC proteins. The SMC (structural maintenance of chromosomes) superfamily proteins have ATP-binding domains at the N- and C-termini, and two extended coiled-coil domains separated by a hinge in the middle. The eukaryotic SMC proteins form two kind of heterodimers: the SMC1/SMC3 and the SMC2/SMC4 types. These heterodimers constitute an essential part of higher order complexes, which are involved in chromatin and DNA dynamics. This family also includes the RecF and RecN proteins that are involved in DNA metabolism and recombination.


Pssm-ID: 426784 [Multi-domain]  Cd Length: 1161  Bit Score: 44.58  E-value: 7.90e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  109 LDEETQELNEEDDQENNEYQEETQTDLIDDETSKKTQQHSpQDLSNEEATEANHFENLLKESKESSDhhldnpTETQTNF 188
Cdd:pfam02463  200 LKLKEQAKKALEYYQLKEKLELEEEYLLYLDYLKLNEERI-DLLQELLRDEQEEIESSKQEIEKEEE------KLAQVLK 272

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  189 DGDKSEETQTQMDSEGNETSessngSLADKLFKKARKLVDNKKPFTQQKNLDEETQELNEEDDQENNEYQEETQTDLIDD 268
Cdd:pfam02463  273 ENKEEEKEKKLQEEELKLLA-----KEEEELKSELLKLERRKVDDEEKLKESEKEKKKAEKELKKEKEEIEELEKELKEL 347

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  269 ETSKKTQQHSPQDLSNEEATEANHFENLLKESKESSDH-----HLDNPTETQTNFDGDKSEEITDDSNDQEIIKGSKKKY 343
Cdd:pfam02463  348 EIKREAEEEEEEELEKLQEKLEQLEEELLAKKKLESERlssaaKLKEEELELKSEEEKEAQLLLELARQLEDLLKEEKKE 427

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  344 IIGGIVVAVLIVIILFSRsifhyfmpLEDKSSRFSKDRNLYVNDEIQIRQEYNRLLKERNEKGNMIDKNLFFNDDPNRTL 423
Cdd:pfam02463  428 ELEILEEEEESIELKQGK--------LTEEKEELEKQELKLLKDELELKKSEDLLKETQLVKLQEQLELLLSRQKLEERS 499

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  424 YNYLNIAEIEDKNPLRAFYECISNGGNYEECLKLIKDKKLQDQMKKTLEAYNDCIKNAKTEEERIKCLDLIKDENLKKSL 503
Cdd:pfam02463  500 QKESKARSGLKVLLALIKDGVGGRIISAHGRLGDLGVAVENYKVAISTAVIVEVSATADEVEERQKLVRALTELPLGARK 579

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  504 LNQQKVQVALDCLKNAKtdEERNECLKLINDPEIREKFRKELELQKELQEYKDCIKNAKTEaEKNKCLKGLSKEAIERLK 583
Cdd:pfam02463  580 LRLLIPKLKLPLKSIAV--LEIDPILNLAQLDKATLEADEDDKRAKVVEGILKDTELTKLK-ESAKAKESGLRKGVSLEE 656

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  584 QQALDCLKNAKTDEERNECLKNIPQDLQKELLADMSVKAYKDCVSKARNEKEKQECEKLLTPEARKKLEQQVLDCLKNAK 663
Cdd:pfam02463  657 GLAEKSEVKASLSELTKELLEIQELQEKAESELAKEEILRRQLEIKKKEQREKEELKKLKLEAEELLADRVQEAQDKINE 736

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  664 TDEERKKCLKDLPKDLQSDILAKESLKAYKDCVSQAKTEAEKKEcekllTPEAKKLLEEEAKESVKAYLDCVSQAKTEAE 743
Cdd:pfam02463  737 ELKLLKQKIDEEEEEEEKSRLKKEEKEEEKSELSLKEKELAEER-----EKTEKLKVEEEKEEKLKAQEEELRALEEELK 811

                          650       660       670       680       690       700       710       720
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  744 KKECEKLLTPEAKKKLEEAKKSVKAYLdcvsrARNEKEKKECEKLLTPEAKKLLEQQALDCLKNAKTDKERKKCLKDLPK 823
Cdd:pfam02463  812 EEAELLEEEQLLIEQEEKIKEEELEEL-----ALELKEEQKLEKLAEEELERLEEEITKEELLQELLLKEEELEEQKLKD 886

                          730       740       750       760       770       780       790       800
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2004286192  824 DLQKKVLAKESVKAYLDCVSQAKTEAEKKECEKLLTPEARKLLEEAKKSVKAYLDCVSQAKTEAEKKECEKLLTPEARKL 903
Cdd:pfam02463  887 ELESKEEKEKEEKKELEEESQKLNLLEEKENEIEERIKEEAEILLKYEEEPEELLLEEADEKEKEENNKEEEEERNKRLL 966

                          810       820       830
                   ....*....|....*....|....*....|....*....
gi 2004286192  904 LEE*AKESVKAYLDCVSQAKNEAEKKECEKLLTLESKKK 942
Cdd:pfam02463  967 LAKEELGKVNLMAIEEFEEKEERYNKDELEKERLEEEKK 1005
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 952-983 9.34e-04

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 38.30  E-value: 9.34e-04
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  952 AYLDCVSQAKTEAEKKECEKLLTPEAKKLLEQ 983
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 691-722 1.06e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 38.30  E-value: 1.06e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  691 AYKDCVSQAKTEAEKKECEKLLTPEAKKLLEE 722
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 837-868 1.45e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 37.91  E-value: 1.45e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  837 AYLDCVSQAKTEAEKKECEKLLTPEARKLLEE 868
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 875-906 1.45e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 37.91  E-value: 1.45e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192  875 AYLDCVSQAKTEAEKKECEKLLTPEARKLLEE 906
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 1059-1090 1.45e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 37.91  E-value: 1.45e-03
                           10        20        30
                   ....*....|....*....|....*....|..
gi 2004286192 1059 AYLDCVSQAKTEAEKKECEKLLTPEARKLLEE 1090
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLLQ 32
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 585-615 1.57e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 37.91  E-value: 1.57e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2004286192  585 QALDCLKNAKTDEERNECLKNIPQDLQKELL 615
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLL 31
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 800-830 7.97e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 35.60  E-value: 7.97e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2004286192  800 QALDCLKNAKTDKERKKCLKDLPKDLQKKVL 830
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLL 31
CagY_M pfam07337
DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island ...
 1275-1305 8.71e-03

DC-EC Repeat; This repeat is found in the CagY proteins - part of the CAG pathogenicity island - and involved in delivery of the protein CagA into host cells. It forms part of a surface needle structure, and this repeat may form an alpha-helical rod structure. A conserved -DC- and -EC- can be seen in regularly spaced in the alignment.


Pssm-ID: 284699 [Multi-domain]  Cd Length: 32  Bit Score: 35.60  E-value: 8.71e-03
                           10        20        30
                   ....*....|....*....|....*....|.
gi 2004286192 1275 QVLNCLEKAGNEEERKACLKNLPKDLQENIL 1305
Cdd:pfam07337    1 QYKDCLKNAKTEEERNECLKGLSDEARKLLL 31
 
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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