NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|1905476624|gb|QNT35935|]
View 

TrbM-like protein (plasmid) [Escherichia coli]

Protein Classification

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
TrbM super family cl21715
TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In ...
 1-85 1.46e-07

TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In Comamonas testosteroni T-2, TrbM is derived from the IncP1beta plasmid pTSA, which encodes the widespread genes for p-toluenesulfonate (TSA) degradation. This family also includes MPFK and its functional homolog kikA, which are required for efficient conjugative transfer in IncP-9 plasmids.


The actual alignment was detected with superfamily member PRK13893:

Pssm-ID: 451366  Cd Length: 193  Bit Score: 47.08  E-value: 1.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1905476624   1 MTGKNRVVLPALLALGLISTNANASD--------PCASVLCLygkAVGQGGgSECRSAEKDFFNILKKKkgsirWSKTFD 72
Cdd:PRK13893    1 MKKKLLALAALVAALGSTAGTASAQDvltgdtrlACEAILCL---SSGTRP-SECTPSLSRYFSITKRK-----LSDTIK 71

                          90
                  ....*....|...
gi 1905476624  73 ARKAFLNQCSTAD 85
Cdd:PRK13893   72 ARLNFLQLCPVAN 84
 
Name Accession Description Interval E-value
PRK13893 PRK13893
conjugal transfer protein TrbM; Provisional
 1-85 1.46e-07

conjugal transfer protein TrbM; Provisional


Pssm-ID: 237548  Cd Length: 193  Bit Score: 47.08  E-value: 1.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1905476624   1 MTGKNRVVLPALLALGLISTNANASD--------PCASVLCLygkAVGQGGgSECRSAEKDFFNILKKKkgsirWSKTFD 72
Cdd:PRK13893    1 MKKKLLALAALVAALGSTAGTASAQDvltgdtrlACEAILCL---SSGTRP-SECTPSLSRYFSITKRK-----LSDTIK 71

                          90
                  ....*....|...
gi 1905476624  73 ARKAFLNQCSTAD 85
Cdd:PRK13893   72 ARLNFLQLCPVAN 84
TrbM pfam07424
TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In ...
 28-85 1.03e-06

TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In Comamonas testosteroni T-2, TrbM is derived from the IncP1beta plasmid pTSA, which encodes the widespread genes for p-toluenesulfonate (TSA) degradation. This family also includes MPFK and its functional homolog kikA, which are required for efficient conjugative transfer in IncP-9 plasmids.


Pssm-ID: 429457  Cd Length: 153  Bit Score: 44.02  E-value: 1.03e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1905476624  28 CASVLCLygkAVGQGGGsECRSAEKDFFNILKKKkgsirWSKTFDARKAFLNQCSTAD 85
Cdd:pfam07424  10 CEAILCL---SSSTRPG-ECSPSLDRYFSIKKKK-----WSDTVNARRNFLSLCPVAG 58
 
Name Accession Description Interval E-value
PRK13893 PRK13893
conjugal transfer protein TrbM; Provisional
 1-85 1.46e-07

conjugal transfer protein TrbM; Provisional


Pssm-ID: 237548  Cd Length: 193  Bit Score: 47.08  E-value: 1.46e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1905476624   1 MTGKNRVVLPALLALGLISTNANASD--------PCASVLCLygkAVGQGGgSECRSAEKDFFNILKKKkgsirWSKTFD 72
Cdd:PRK13893    1 MKKKLLALAALVAALGSTAGTASAQDvltgdtrlACEAILCL---SSGTRP-SECTPSLSRYFSITKRK-----LSDTIK 71

                          90
                  ....*....|...
gi 1905476624  73 ARKAFLNQCSTAD 85
Cdd:PRK13893   72 ARLNFLQLCPVAN 84
TrbM pfam07424
TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In ...
 28-85 1.03e-06

TrbM; This family contains the bacterial protein TrbM (approximately 180 residues long). In Comamonas testosteroni T-2, TrbM is derived from the IncP1beta plasmid pTSA, which encodes the widespread genes for p-toluenesulfonate (TSA) degradation. This family also includes MPFK and its functional homolog kikA, which are required for efficient conjugative transfer in IncP-9 plasmids.


Pssm-ID: 429457  Cd Length: 153  Bit Score: 44.02  E-value: 1.03e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1905476624  28 CASVLCLygkAVGQGGGsECRSAEKDFFNILKKKkgsirWSKTFDARKAFLNQCSTAD 85
Cdd:pfam07424  10 CEAILCL---SSSTRPG-ECSPSLDRYFSIKKKK-----WSDTVNARRNFLSLCPVAG 58
 
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