Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

P28632 (HOLD_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 118. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA polymerase III subunit psi

EC=2.7.7.7
Gene names
Name:holD
Ordered Locus Names:b4372, JW4334
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length137 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. The exact function of the psi subunit is unknown.

Catalytic activity

Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1).

Subunit structure

The DNA polymerase holoenzyme is a complex that contains 10 different types of subunits. These subunits are organized into 3 functionally essential subassemblies: the pol III core, the beta sliding clamp processivity factor and the clamp-loading complex. The pol III core (subunits alpha,epsilon and theta) contains the polymerase and the 3'-5' exonuclease proofreading activities. The polymerase is tethered to the template via the sliding clamp processivity factor. The clamp-loading complex assembles the beta processivity factor onto the primer template and plays a central role in the organization and communication at the replication fork. This complex contains delta, delta', psi and chi, and copies of either or both of two different DnaX proteins, gamma and tau. The composition of the holoenzyme is, therefore: (alpha,epsilon,theta)[2]-(gamma/tau)[3]-delta,delta', psi,chi-beta[4].

Binary interactions

With

Entry

#Exp.

IntAct

Notes

dnaXP0671018EBI-549176,EBI-549140
holCP2890522EBI-549176,EBI-549169

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 137137DNA polymerase III subunit psi
PRO_0000105520

Secondary structure

............................ 137
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P28632 [UniParc].

Last modified December 1, 1992. Version 1.
Checksum: 5B7356201E7E27FE

FASTA13715,174
        10         20         30         40         50         60 
MTSRRDWQLQ QLGITQWSLR RPGALQGEIA IAIPAHVRLV MVANDLPALT DPLVSDVLRA 

        70         80         90        100        110        120 
LTVSPDQVLQ LTPEKIAMLP QGSHCNSWRL GTDEPLSLEG AQVASPALTD LRANPTARAA 

       130 
LWQQICTYEH DFFPRND 

« Hide

References

« Hide 'large scale' references
[1]"DNA polymerase III accessory proteins. III. holC and holD encoding chi and psi."
Xiao H., Crombie R., Dong Z., Onrust R., O'Donnell M.
J. Biol. Chem. 268:11773-11778(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[2]"Identification, isolation, and overexpression of the gene encoding the psi subunit of DNA polymerase III holoenzyme."
Carter J.R., Franden M.A., Aebersold R.H., McHenry C.S.
J. Bacteriol. 175:5604-5610(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[3]"Cloning and nucleotide sequencing of the genes rimI and rimJ which encode enzymes acetylating ribosomal proteins S18 and S5 of Escherichia coli K12."
Yoshikawa A., Isono S., Sheback A., Isono K.
Mol. Gen. Genet. 209:481-488(1987) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: K12.
[4]"Analysis of the Escherichia coli genome VI: DNA sequence of the region from 92.8 through 100 minutes."
Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L., Blattner F.R.
Nucleic Acids Res. 23:2105-2119(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[5]"The complete genome sequence of Escherichia coli K-12."
Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y.
Science 277:1453-1462(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / MG1655 / ATCC 47076.
[6]"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[7]"DNA polymerase III accessory proteins. IV. Characterization of chi and psi."
Xiao H., Dong Z., O'Donnell M.
J. Biol. Chem. 268:11779-11784(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: CHARACTERIZATION.
[8]"Accessory protein function in the DNA polymerase III holoenzyme from E. coli."
O'Donnell M.
Bioessays 14:105-111(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
[9]"Crystal structure of the chi:psi sub-assembly of the Escherichia coli DNA polymerase clamp-loader complex."
Gulbis J.M., Kazmirski S.L., Finkelstein J., Kelman Z., O'Donnell M., Kuriyan J.
Eur. J. Biochem. 271:439-449(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 26-137.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
L04575 Genomic DNA. Translation: AAA24435.1.
L05387 Unassigned DNA. Translation: AAA03076.1.
X06117 Genomic DNA. No translation available.
U14003 Genomic DNA. Translation: AAA97268.1.
U00096 Genomic DNA. Translation: AAC77325.1.
AP009048 Genomic DNA. Translation: BAE78360.1.
PIRA48647.
RefSeqNP_418789.1. NC_000913.3.
YP_492501.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1EM8X-ray2.10B/D26-137[»]
3GLIX-ray3.50O/P2-28[»]
3SXUX-ray1.85B2-137[»]
ProteinModelPortalP28632.
SMRP28632. Positions 2-137.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-9934N.
IntActP28632. 22 interactions.
MINTMINT-1224283.
STRING511145.b4372.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC77325; AAC77325; b4372.
BAE78360; BAE78360; BAE78360.
GeneID12933791.
948890.
KEGGecj:Y75_p4255.
eco:b4372.
PATRIC32124354. VBIEscCol129921_4517.

Organism-specific databases

EchoBASEEB1386.
EcoGeneEG11414. holD.

Phylogenomic databases

eggNOGCOG3050.
HOGENOMHOG000218328.
KOK02344.
OMAITQWTLR.
OrthoDBEOG6WDSJJ.
ProtClustDBPRK06856.

Enzyme and pathway databases

BioCycEcoCyc:EG11414-MONOMER.
ECOL316407:JW4334-MONOMER.

Gene expression databases

GenevestigatorP28632.

Family and domain databases

Gene3D3.40.50.10220. 1 hit.
InterProIPR004615. DNA_pol_III_psi.
IPR018382. DNA_pol_III_psi_subgr.
[Graphical view]
PfamPF03603. DNA_III_psi. 1 hit.
[Graphical view]
PIRSFPIRSF029225. DNA_pol_III_psi. 1 hit.
ProDomPD032475. DNA_pol_III_psi. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMSSF102220. SSF102220. 1 hit.
TIGRFAMsTIGR00664. DNA_III_psi. 1 hit.
ProtoNetSearch...

Other

EvolutionaryTraceP28632.
PROP28632.

Entry information

Entry nameHOLD_ECOLI
AccessionPrimary (citable) accession number: P28632
Secondary accession number(s): Q2M5U6
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: April 16, 2014
This is version 118 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene