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Conserved domains on  [gi|489128311|ref|WP_003038102|]
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MULTISPECIES: DUF3820 family protein [Citrobacter]

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

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List of domain hits

 Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 1.31e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


:

Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 112.14  E-value: 1.31e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489128311  1 MEKEQLVEIANTVMPFGKYKGRRLIDVPEEYLLWFARKDeFPPGKLGELMQITLLIKTEGLTQLVQPLKRP 71
Cdd:COG3530   3 MDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKG-FPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
 
Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 1.31e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 112.14  E-value: 1.31e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489128311  1 MEKEQLVEIANTVMPFGKYKGRRLIDVPEEYLLWFARKDeFPPGKLGELMQITLLIKTEGLTQLVQPLKRP 71
Cdd:COG3530   3 MDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKG-FPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
QSregVF_b pfam12843
Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas ...
 2-68 5.74e-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: 5.74e-31
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489128311   2 EKEQLVEIANTVMPFGKYKGRRLIDVPEEYLLWFARKDeFPPGKLGELMQITLLIKTEGLTQLVQPL 68
Cdd:pfam12843  1 DPEILIELATTKMPFGKYKGRLLIDLPEPYLVWFARKG-FPKGKLGRLLALMYEIKLNGLEYLLRPL 66
PRK06309 PRK06309
DNA polymerase III subunit epsilon; Validated
 12-41 3.35e-06

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180524 [Multi-domain]  Cd Length: 232  Bit Score: 42.10  E-value: 3.35e-06
                         10        20        30
                 ....*....|....*....|....*....|
gi 489128311  12 TVMPFGKYKGRRLIDVPEEYLLWFARKDEF 41
Cdd:PRK06309 184 FKMPFGKYKGKPLSEVPKSYIAWLEKQGAL 213
 
Name Accession Description Interval E-value
COG3530 COG3530
Uncharacterized conserved protein, DUF3820 family [Function unknown];
1-71 1.31e-34

Uncharacterized conserved protein, DUF3820 family [Function unknown];


Pssm-ID: 442752 [Multi-domain]  Cd Length: 73  Bit Score: 112.14  E-value: 1.31e-34
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 489128311  1 MEKEQLVEIANTVMPFGKYKGRRLIDVPEEYLLWFARKDeFPPGKLGELMQITLLIKTEGLTQLVQPLKRP 71
Cdd:COG3530   3 MDPEDLIELANTKMPFGKYKGRLLIDLPEPYLVWFARKG-FPKGKLGQLLALMYEIKLNGLEGLLRPLRKR 72
QSregVF_b pfam12843
Putative quorum-sensing-regulated virulence factor; QSregVF_b is a family of short Pseudomonas ...
 2-68 5.74e-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: 5.74e-31
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489128311   2 EKEQLVEIANTVMPFGKYKGRRLIDVPEEYLLWFARKDeFPPGKLGELMQITLLIKTEGLTQLVQPL 68
Cdd:pfam12843  1 DPEILIELATTKMPFGKYKGRLLIDLPEPYLVWFARKG-FPKGKLGRLLALMYEIKLNGLEYLLRPL 66
PRK06309 PRK06309
DNA polymerase III subunit epsilon; Validated
 12-41 3.35e-06

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180524 [Multi-domain]  Cd Length: 232  Bit Score: 42.10  E-value: 3.35e-06
                         10        20        30
                 ....*....|....*....|....*....|
gi 489128311  12 TVMPFGKYKGRRLIDVPEEYLLWFARKDEF 41
Cdd:PRK06309 184 FKMPFGKYKGKPLSEVPKSYIAWLEKQGAL 213
PRK06310 PRK06310
DNA polymerase III subunit epsilon; Validated
 14-39 1.96e-05

DNA polymerase III subunit epsilon; Validated


Pssm-ID: 180525 [Multi-domain]  Cd Length: 250  Bit Score: 40.20  E-value: 1.96e-05
                         10        20
                 ....*....|....*....|....*.
gi 489128311  14 MPFGKYKGRRLIDVPEEYLLWFARKD 39
Cdd:PRK06310 193 MPLGKHKGRLFSEIPLEYLQWASKMD 218
PRK07983 PRK07983
exodeoxyribonuclease X; Provisional
 4-43 3.65e-03

exodeoxyribonuclease X; Provisional


Pssm-ID: 181186 [Multi-domain]  Cd Length: 219  Bit Score: 33.54  E-value: 3.65e-03
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*....
gi 489128311   4 EQLVEIAN-----TVMPFGKYKGRRLIDVPEE---YLLW-FARKDEFPP 43
Cdd:PRK07983 159 EEMADITGrpsllTTFTFGKYRGKAVSDVAERdpgYLRWlFNNLDDMSP 207
 
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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