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Conserved domains on  [gi|1933719656|gb|QPE96828|]
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baseplate protein (plasmid) [Escherichia coli O152:H23]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Phage_base_V super family cl17812
Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage ...
 8-79 1.10e-05

Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage baseplate assembly proteins responsible for forming the small spike at the end of the tail or bacterial pathogenic needle-shaft. This entry represents the OB fold part of the structure. This structure contains an unusual extra beta hairpin that forms the foundation of the spike protein's beta helix.


The actual alignment was detected with superfamily member pfam04717:

Pssm-ID: 473094 [Multi-domain]  Cd Length: 75  Bit Score: 42.18  E-value: 1.10e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1933719656   8 YRAVVVSVDDPKGLMRTQIRVVGMMDGLPDASLPWAEAILSNANTFSpFLP--GDKVWVEFPyNGDSRWPLIIG 79
Cdd:pfam04717   1 RLGVVTDVDDPDKLGRVKVGVPWLTDEEESGWARWAAPRAGAGRGLW-FLPevGEQVLVLFE-GGDPSRPVVLG 72
 
Name Accession Description Interval E-value
Phage_base_V pfam04717
Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage ...
 8-79 1.10e-05

Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage baseplate assembly proteins responsible for forming the small spike at the end of the tail or bacterial pathogenic needle-shaft. This entry represents the OB fold part of the structure. This structure contains an unusual extra beta hairpin that forms the foundation of the spike protein's beta helix.


Pssm-ID: 428084 [Multi-domain]  Cd Length: 75  Bit Score: 42.18  E-value: 1.10e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1933719656   8 YRAVVVSVDDPKGLMRTQIRVVGMMDGLPDASLPWAEAILSNANTFSpFLP--GDKVWVEFPyNGDSRWPLIIG 79
Cdd:pfam04717   1 RLGVVTDVDDPDKLGRVKVGVPWLTDEEESGWARWAAPRAGAGRGLW-FLPevGEQVLVLFE-GGDPSRPVVLG 72
 
Name Accession Description Interval E-value
Phage_base_V pfam04717
Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage ...
 8-79 1.10e-05

Type VI secretion system/phage-baseplate injector OB domain; Family of bacterial and phage baseplate assembly proteins responsible for forming the small spike at the end of the tail or bacterial pathogenic needle-shaft. This entry represents the OB fold part of the structure. This structure contains an unusual extra beta hairpin that forms the foundation of the spike protein's beta helix.


Pssm-ID: 428084 [Multi-domain]  Cd Length: 75  Bit Score: 42.18  E-value: 1.10e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1933719656   8 YRAVVVSVDDPKGLMRTQIRVVGMMDGLPDASLPWAEAILSNANTFSpFLP--GDKVWVEFPyNGDSRWPLIIG 79
Cdd:pfam04717   1 RLGVVTDVDDPDKLGRVKVGVPWLTDEEESGWARWAAPRAGAGRGLW-FLPevGEQVLVLFE-GGDPSRPVVLG 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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