NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|758502330|gb|KIU27257|]
View 

Type IV secretory pathway AvhB2 protein [Methylobacterium radiotolerans]

Protein Classification

TrbC/VirB2 family protein( domain architecture ID 10522976)

TrbC/VirB2 family protein may function a major pilus subunit; similar to type IV secretion system protein PtlA, which is a component of the type IV secretion system ptl required for secretion of assembled pertussis toxin (PTX) through the outer membrane

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TrbC pfam04956
TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein ...
 6-95 2.78e-19

TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein undergoes three processing steps before gaining its mature cyclic structure. This family also contains VIRB2 type IV secretion proteins. This alignment contains two predicted transmembrane helices.


:

Pssm-ID: 398559  Cd Length: 98  Bit Score: 75.33  E-value: 2.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330   6 RHAACLGLTAALICLAWAEPASAQSLG-GVEKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLDLRKAGYVIFGVAI 84
Cdd:pfam04956  8 LRRLALALALAALLLLLASPAFAQGSGdPVETALQNIVDSLTGPIARVIATIAIIIAGIMLAFGRLSWRTLVYVVIGIVI 87

                         90
                 ....*....|.
gi 758502330  85 LFGASEIVSTI 95
Cdd:pfam04956 88 IFGASTIVSTL 98
 
Name Accession Description Interval E-value
TrbC pfam04956
TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein ...
 6-95 2.78e-19

TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein undergoes three processing steps before gaining its mature cyclic structure. This family also contains VIRB2 type IV secretion proteins. This alignment contains two predicted transmembrane helices.


Pssm-ID: 398559  Cd Length: 98  Bit Score: 75.33  E-value: 2.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330   6 RHAACLGLTAALICLAWAEPASAQSLG-GVEKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLDLRKAGYVIFGVAI 84
Cdd:pfam04956  8 LRRLALALALAALLLLLASPAFAQGSGdPVETALQNIVDSLTGPIARVIATIAIIIAGIMLAFGRLSWRTLVYVVIGIVI 87

                         90
                 ....*....|.
gi 758502330  85 LFGASEIVSTI 95
Cdd:pfam04956 88 IFGASTIVSTL 98
VirB2 COG3838
Type IV secretory pathway, VirB2 component (pilin) [Intracellular trafficking, secretion, and ...
 11-98 3.22e-18

Type IV secretory pathway, VirB2 component (pilin) [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443049  Cd Length: 109  Bit Score: 72.68  E-value: 3.22e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330  11 LGLTAALICLAWAEPASAQSLGG-VEKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLD--LRKAGYVIFGVAILFG 87
Cdd:COG3838   13 LLLALAALLLLLASPAFAAGSGMpWEGPLQQIVNSLTGPVAKAIAVIAIIVAGLMLAFGELNggFRRAIQVVLGISIAFG 92

                         90
                 ....*....|.
gi 758502330  88 ASEIVSTITGK 98
Cdd:COG3838   93 ASSIVLSFFSF 103
PRK13857 PRK13857
pilin major subunit VirB2;
24-97 2.10e-07

pilin major subunit VirB2;


Pssm-ID: 172378  Cd Length: 120  Bit Score: 45.24  E-value: 2.10e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 758502330  24 EPASAQSLGGVE--KVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLDLRKAGYVIFGVAILFGASEIVSTITG 97
Cdd:PRK13857  43 GPAAAQSAGGTDpaTMVNNICTFILGPFGQSLAVLGIVAIGISWMFGRASLGLVAGVVGGIVIMFGASFLGQTLTG 118
 
Name Accession Description Interval E-value
TrbC pfam04956
TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein ...
 6-95 2.78e-19

TrbC/VIRB2 pilin; TrbC is a pilin found in bacterial type IV secretion systems. The protein undergoes three processing steps before gaining its mature cyclic structure. This family also contains VIRB2 type IV secretion proteins. This alignment contains two predicted transmembrane helices.


Pssm-ID: 398559  Cd Length: 98  Bit Score: 75.33  E-value: 2.78e-19
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330   6 RHAACLGLTAALICLAWAEPASAQSLG-GVEKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLDLRKAGYVIFGVAI 84
Cdd:pfam04956  8 LRRLALALALAALLLLLASPAFAQGSGdPVETALQNIVDSLTGPIARVIATIAIIIAGIMLAFGRLSWRTLVYVVIGIVI 87

                         90
                 ....*....|.
gi 758502330  85 LFGASEIVSTI 95
Cdd:pfam04956 88 IFGASTIVSTL 98
VirB2 COG3838
Type IV secretory pathway, VirB2 component (pilin) [Intracellular trafficking, secretion, and ...
 11-98 3.22e-18

Type IV secretory pathway, VirB2 component (pilin) [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 443049  Cd Length: 109  Bit Score: 72.68  E-value: 3.22e-18
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330  11 LGLTAALICLAWAEPASAQSLGG-VEKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLD--LRKAGYVIFGVAILFG 87
Cdd:COG3838   13 LLLALAALLLLLASPAFAAGSGMpWEGPLQQIVNSLTGPVAKAIAVIAIIVAGLMLAFGELNggFRRAIQVVLGISIAFG 92

                         90
                 ....*....|.
gi 758502330  88 ASEIVSTITGK 98
Cdd:COG3838   93 ASSIVLSFFSF 103
PRK13857 PRK13857
pilin major subunit VirB2;
24-97 2.10e-07

pilin major subunit VirB2;


Pssm-ID: 172378  Cd Length: 120  Bit Score: 45.24  E-value: 2.10e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 758502330  24 EPASAQSLGGVE--KVLQNIVDTLTGNVAKLLATLAVIVTGMAWMFGYLDLRKAGYVIFGVAILFGASEIVSTITG 97
Cdd:PRK13857  43 GPAAAQSAGGTDpaTMVNNICTFILGPFGQSLAVLGIVAIGISWMFGRASLGLVAGVVGGIVIMFGASFLGQTLTG 118
PRK13871 PRK13871
conjugal transfer protein TrbC; Provisional
 1-93 8.71e-05

conjugal transfer protein TrbC; Provisional


Pssm-ID: 172391  Cd Length: 135  Bit Score: 38.72  E-value: 8.71e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 758502330   1 MSHAHRHAACLGLTAALICLAWAEPASAQSLGGV---EKVLQNIVDTLTGNVAKLLATLAVIVTGMAWMF-GYLD--LRK 74
Cdd:PRK13871   1 MSRKTRITLALAALAAVSFIGLADPAFASSGGGSlpwESPLQQIQQSITGPVAGFIALAAVAIAGAMLIFgGELNdfARR 80

                         90
                 ....*....|....*....
gi 758502330  75 AGYVIFGVAILFGASEIVS 93
Cdd:PRK13871  81 LCYVALVGGVLLGATQIVA 99
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
Help | Disclaimer | Write to the Help Desk
NCBI | NLM | NIH