NCBI Home Page NCBI Site Search page NCBI Guide that lists and describes the NCBI resources
Conserved domains on  [gi|880811648|ref|WP_048663340|]
View 

DUF3820 family protein [Vibrio crassostreae]

Protein Classification

DUF3820 family protein( domain architecture ID 10007522)

DUF3820 family protein similar to the C-terminal domain of DNA polymerase III subunit epsilon, may interact with DNA

Graphical summary

 Zoom to residue level

show extra options »

Show site features     Horizontal zoom: ×

List of domain hits

 Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 7.25e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


:

Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 110.21  E-value: 7.25e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 880811648  1 MLEKENLIKLAKMQMPFGKYAGRTLIDLPEEYLLWFDKKGFPSGELGDLLKLCLALKIEGLDSVVKPLKRM 71
Cdd:COG3530   2 MMDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKGFPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
 
Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 7.25e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 110.21  E-value: 7.25e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 880811648  1 MLEKENLIKLAKMQMPFGKYAGRTLIDLPEEYLLWFDKKGFPSGELGDLLKLCLALKIEGLDSVVKPLKRM 71
Cdd:COG3530   2 MMDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKGFPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
QSregVF_b pfam12843
Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas ...
 3-68 5.89e-31

Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas proteins that are potential virulence factors. The structure of UniProtKB:Q9HY15 a secreted protein has been solved and deposited as PDB:3npd, from pfam13652. It is predicted that these two adjacent proteins form a single transcriptional unit based on the prediction that together they interact with their adjacent protein PotD, which is the putrescine-binding periplasmic protein in the polyamine uptake system comprising PotABCD. These two adjacent proteins are predicted to be quroum-sensing-regulated virulence factors.


Pssm-ID: 463727 [Multi-domain]  Cd Length: 66  Bit Score: 102.53  E-value: 5.89e-31
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 880811648   3 EKENLIKLAKMQMPFGKYAGRTLIDLPEEYLLWFDKKGFPSGELGDLLKLCLALKIEGLDSVVKPL 68
Cdd:pfam12843  1 DPEILIELATTKMPFGKYKGRLLIDLPEPYLVWFARKGFPKGKLGRLLALMYEIKLNGLEYLLRPL 66
PRK06310 PRK06310
DNA polymerase III subunit epsilon; Validated
 4-50 4.72e-05

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180525 [Multi-domain]  Cd Length: 250  Bit Score: 39.04  E-value: 4.72e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 880811648   4 KENLIKLAKMQ-MPFGKYAGRTLIDLPEEYLLWFDKKGFPSgelgDLL 50
Cdd:PRK06310 181 KQILSKPIKMKyMPLGKHKGRLFSEIPLEYLQWASKMDFDQ----DLL 224
 
Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 7.25e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 110.21  E-value: 7.25e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 880811648  1 MLEKENLIKLAKMQMPFGKYAGRTLIDLPEEYLLWFDKKGFPSGELGDLLKLCLALKIEGLDSVVKPLKRM 71
Cdd:COG3530   2 MMDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKGFPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
QSregVF_b pfam12843
Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas ...
 3-68 5.89e-31

Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas proteins that are potential virulence factors. The structure of UniProtKB:Q9HY15 a secreted protein has been solved and deposited as PDB:3npd, from pfam13652. It is predicted that these two adjacent proteins form a single transcriptional unit based on the prediction that together they interact with their adjacent protein PotD, which is the putrescine-binding periplasmic protein in the polyamine uptake system comprising PotABCD. These two adjacent proteins are predicted to be quroum-sensing-regulated virulence factors.


Pssm-ID: 463727 [Multi-domain]  Cd Length: 66  Bit Score: 102.53  E-value: 5.89e-31
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 880811648   3 EKENLIKLAKMQMPFGKYAGRTLIDLPEEYLLWFDKKGFPSGELGDLLKLCLALKIEGLDSVVKPL 68
Cdd:pfam12843  1 DPEILIELATTKMPFGKYKGRLLIDLPEPYLVWFARKGFPKGKLGRLLALMYEIKLNGLEYLLRPL 66
PRK06310 PRK06310
DNA polymerase III subunit epsilon; Validated
 4-50 4.72e-05

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180525 [Multi-domain]  Cd Length: 250  Bit Score: 39.04  E-value: 4.72e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*...
gi 880811648   4 KENLIKLAKMQ-MPFGKYAGRTLIDLPEEYLLWFDKKGFPSgelgDLL 50
Cdd:PRK06310 181 KQILSKPIKMKyMPLGKHKGRLFSEIPLEYLQWASKMDFDQ----DLL 224
PRK06309 PRK06309
DNA polymerase III subunit epsilon; Validated
 14-40 6.29e-05

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180524 [Multi-domain]  Cd Length: 232  Bit Score: 38.64  E-value: 6.29e-05
                         10        20
                 ....*....|....*....|....*..
gi 880811648  14 QMPFGKYAGRTLIDLPEEYLLWFDKKG 40
Cdd:PRK06309 185 KMPFGKYKGKPLSEVPKSYIAWLEKQG 211
 
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