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Conserved domains on  [gi|2642192364|ref|WP_323053557|]
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type IV secretion system protein, partial [Klebsiella variicola]

Protein Classification

VirB5_like domain-containing protein( domain architecture ID 10198047)

VirB5_like domain-containing protein

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
VirB5_like cd14262
VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog ...
 1-138 1.70e-24

VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog encoded by the pKM101 plasmid, and similar proteins. VirB5 is one of 11 conserved proteins (VirB1-VirB11) in Agrobacterium tumefaciens, the causative agent of crown gall disease, that span the inner and the outer membrane, and is involved in type IV DNA secretion systems (T4SS) which mediate the translocation of virulence factors (proteins and/or DNA) from Gram-negative bacteria into eukaryotic cells. VirB5 assembles extracellular pili by interacting with several essential proteins. VirB2-VirB5 complex formation precedes incorporation into pili; it depends on the inner membrane protein VirB4 to interact directly with and stabilize VirB8 in order for VirB5 to bind to VirB8 and VirB10. Mutagenesis studies show that VirB5 proteins participate in protein-protein interactions important for pilus assembly and function.


:

Pssm-ID: 271354 [Multi-domain]  Cd Length: 173  Bit Score: 92.02  E-value: 1.70e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   1 MAKTTNLGDLLgtSTSTLANNLPDNWKEIYSDAMNSSSS-VTPSVNSMMGQFNAEVDDMTPSEAITYMNKKLAEKgAYDR 79
Cdd:cd14262    27 ITGSRGLGDLL--NNPNLRSLLPLDPQSIYSAAKGGGSSgSSGSLAAIISQNEEERRLDSVGEAREAIDKRSQYA-AQDK 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2642192364  80 VMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:cd14262   104 AVSLQAYEEAEQRLKQIQSLLQQINTTQDPKAIADLQARIQAEQAMIQNEQTKLQMLAM 162
 
Name Accession Description Interval E-value
VirB5_like cd14262
VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog ...
 1-138 1.70e-24

VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog encoded by the pKM101 plasmid, and similar proteins. VirB5 is one of 11 conserved proteins (VirB1-VirB11) in Agrobacterium tumefaciens, the causative agent of crown gall disease, that span the inner and the outer membrane, and is involved in type IV DNA secretion systems (T4SS) which mediate the translocation of virulence factors (proteins and/or DNA) from Gram-negative bacteria into eukaryotic cells. VirB5 assembles extracellular pili by interacting with several essential proteins. VirB2-VirB5 complex formation precedes incorporation into pili; it depends on the inner membrane protein VirB4 to interact directly with and stabilize VirB8 in order for VirB5 to bind to VirB8 and VirB10. Mutagenesis studies show that VirB5 proteins participate in protein-protein interactions important for pilus assembly and function.


Pssm-ID: 271354 [Multi-domain]  Cd Length: 173  Bit Score: 92.02  E-value: 1.70e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   1 MAKTTNLGDLLgtSTSTLANNLPDNWKEIYSDAMNSSSS-VTPSVNSMMGQFNAEVDDMTPSEAITYMNKKLAEKgAYDR 79
Cdd:cd14262    27 ITGSRGLGDLL--NNPNLRSLLPLDPQSIYSAAKGGGSSgSSGSLAAIISQNEEERRLDSVGEAREAIDKRSQYA-AQDK 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2642192364  80 VMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:cd14262   104 AVSLQAYEEAEQRLKQIQSLLQQINTTQDPKAIADLQARIQAEQAMIQNEQTKLQMLAM 162
T4SS pfam07996
Type IV secretion system proteins; Members of this family are components of the type IV ...
 1-138 7.14e-17

Type IV secretion system proteins; Members of this family are components of the type IV secretion system. They mediate intracellular transfer of macromolecules via a mechanism ancestrally related to that of bacterial conjugation machineries.


Pssm-ID: 429777 [Multi-domain]  Cd Length: 189  Bit Score: 72.76  E-value: 7.14e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   1 MAKTTNLGDLLgtSTSTLANNLPDNWKEIYSDAMN--SSSSVTPSVNSMMGQfNAEVDDMTPSEAITYMnKKLAEKGAYD 78
Cdd:pfam07996  41 LTGARGLGDIL--NNPALRNYLPADWQDIYDLVKSggSYGSLSSAAQSLRDA-NKLYDVCTDDDRADAC-QQAANKAAQD 116

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  79 RVMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:pfam07996 117 KAFAEQAYDTATQRLDQIQQLMDQINTATDPKAIADLQARIQAEQAMLQNEQTRLQMLQM 176
VirB5 TIGR02791
P-type DNA transfer protein VirB5; The VirB5 protein is involved in the type IV DNA secretion ...
 3-138 5.27e-13

P-type DNA transfer protein VirB5; The VirB5 protein is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC as well as the P-type protein TrbJ and the F-type protein TraE.


Pssm-ID: 274302  Cd Length: 220  Bit Score: 63.37  E-value: 5.27e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   3 KTTNLGDLLgtSTSTLANNLPDNWKEIYsDAMNSSSSVTPSVNSMMGQFNAEVDDMTPSEAITYMN----KKLAEKGAYD 78
Cdd:TIGR02791  69 GNRGMGDLL--NDPALRRYLPFDWAAIY-EGVLSGGYTGVMGDWASIYSTGRVYDSCTRYAANSDRasceAKAVKMAAAD 145

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  79 RVMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:TIGR02791 146 KALAERAYDAATKRLSNIEQLRQKINEAGDPKAIADLQARIQVEQAMIQNEQTRLQNLQM 205
PRK14038 PRK14038
ADP-specific glucokinase;
25-109 4.60e-03

ADP-specific glucokinase;


Pssm-ID: 172532 [Multi-domain]  Cd Length: 453  Bit Score: 35.91  E-value: 4.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  25 NWKEIYSDAMNSSSSVTPSVNSMMGQFNAEVDdmtpseAITYMNKKLAEKgaydRVmaEKAYNNQMQELTDmqELTEQIK 104
Cdd:PRK14038    2 NWDELYASAFERVRNSIGKVKGVLLAYNTNID------AIKYLKREDLER----RI--EKAGKEEVLRYSE--ELPKRIN 67


                  ....*
gi 2642192364 105 TTPDL 109
Cdd:PRK14038   68 SIPQL 72
 
Name Accession Description Interval E-value
VirB5_like cd14262
VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog ...
 1-138 1.70e-24

VirB5 protein family; This family contains VirB5 domains, including TraC, a VirB5 homolog encoded by the pKM101 plasmid, and similar proteins. VirB5 is one of 11 conserved proteins (VirB1-VirB11) in Agrobacterium tumefaciens, the causative agent of crown gall disease, that span the inner and the outer membrane, and is involved in type IV DNA secretion systems (T4SS) which mediate the translocation of virulence factors (proteins and/or DNA) from Gram-negative bacteria into eukaryotic cells. VirB5 assembles extracellular pili by interacting with several essential proteins. VirB2-VirB5 complex formation precedes incorporation into pili; it depends on the inner membrane protein VirB4 to interact directly with and stabilize VirB8 in order for VirB5 to bind to VirB8 and VirB10. Mutagenesis studies show that VirB5 proteins participate in protein-protein interactions important for pilus assembly and function.


Pssm-ID: 271354 [Multi-domain]  Cd Length: 173  Bit Score: 92.02  E-value: 1.70e-24
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   1 MAKTTNLGDLLgtSTSTLANNLPDNWKEIYSDAMNSSSS-VTPSVNSMMGQFNAEVDDMTPSEAITYMNKKLAEKgAYDR 79
Cdd:cd14262    27 ITGSRGLGDLL--NNPNLRSLLPLDPQSIYSAAKGGGSSgSSGSLAAIISQNEEERRLDSVGEAREAIDKRSQYA-AQDK 103

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 2642192364  80 VMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:cd14262   104 AVSLQAYEEAEQRLKQIQSLLQQINTTQDPKAIADLQARIQAEQAMIQNEQTKLQMLAM 162
T4SS pfam07996
Type IV secretion system proteins; Members of this family are components of the type IV ...
 1-138 7.14e-17

Type IV secretion system proteins; Members of this family are components of the type IV secretion system. They mediate intracellular transfer of macromolecules via a mechanism ancestrally related to that of bacterial conjugation machineries.


Pssm-ID: 429777 [Multi-domain]  Cd Length: 189  Bit Score: 72.76  E-value: 7.14e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   1 MAKTTNLGDLLgtSTSTLANNLPDNWKEIYSDAMN--SSSSVTPSVNSMMGQfNAEVDDMTPSEAITYMnKKLAEKGAYD 78
Cdd:pfam07996  41 LTGARGLGDIL--NNPALRNYLPADWQDIYDLVKSggSYGSLSSAAQSLRDA-NKLYDVCTDDDRADAC-QQAANKAAQD 116

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  79 RVMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:pfam07996 117 KAFAEQAYDTATQRLDQIQQLMDQINTATDPKAIADLQARIQAEQAMLQNEQTRLQMLQM 176
VirB5 TIGR02791
P-type DNA transfer protein VirB5; The VirB5 protein is involved in the type IV DNA secretion ...
 3-138 5.27e-13

P-type DNA transfer protein VirB5; The VirB5 protein is involved in the type IV DNA secretion systems typified by the Agrobacterium Ti plasmid vir system where it interacts with several other proteins essential for proper pilus formation. VirB5 is homologous to the IncN (N-type) conjugation system protein TraC as well as the P-type protein TrbJ and the F-type protein TraE.


Pssm-ID: 274302  Cd Length: 220  Bit Score: 63.37  E-value: 5.27e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364   3 KTTNLGDLLgtSTSTLANNLPDNWKEIYsDAMNSSSSVTPSVNSMMGQFNAEVDDMTPSEAITYMN----KKLAEKGAYD 78
Cdd:TIGR02791  69 GNRGMGDLL--NDPALRRYLPFDWAAIY-EGVLSGGYTGVMGDWASIYSTGRVYDSCTRYAANSDRasceAKAVKMAAAD 145

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  79 RVMAEKAYNNQMQELTDMQELTEQIKTTPDLKSIADLQARIQTSQGAIQGEQAKLNLMNM 138
Cdd:TIGR02791 146 KALAERAYDAATKRLSNIEQLRQKINEAGDPKAIADLQARIQVEQAMIQNEQTRLQNLQM 205
PRK14038 PRK14038
ADP-specific glucokinase;
25-109 4.60e-03

ADP-specific glucokinase;


Pssm-ID: 172532 [Multi-domain]  Cd Length: 453  Bit Score: 35.91  E-value: 4.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2642192364  25 NWKEIYSDAMNSSSSVTPSVNSMMGQFNAEVDdmtpseAITYMNKKLAEKgaydRVmaEKAYNNQMQELTDmqELTEQIK 104
Cdd:PRK14038    2 NWDELYASAFERVRNSIGKVKGVLLAYNTNID------AIKYLKREDLER----RI--EKAGKEEVLRYSE--ELPKRIN 67


                  ....*
gi 2642192364 105 TTPDL 109
Cdd:PRK14038   68 SIPQL 72
 
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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