1DPI

STRUCTURE OF LARGE FRAGMENT OF ESCHERICHIA COLI DNA POLYMERASE I COMPLEXED WITH D/TMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP.

Ollis, D.L.Brick, P.Hamlin, R.Xuong, N.G.Steitz, T.A.

(1985) Nature 313: 762-766


  • PubMed Abstract: 
  • The 3.3-A resolution crystal structure of the large proteolytic fragment of Escherichia coli DNA polymerase I complexed with deoxythymidine monophosphate consists of two domains, the smaller of which binds zinc-deoxythymidine monophosphate. The most ...

    The 3.3-A resolution crystal structure of the large proteolytic fragment of Escherichia coli DNA polymerase I complexed with deoxythymidine monophosphate consists of two domains, the smaller of which binds zinc-deoxythymidine monophosphate. The most striking feature of the larger domain is a deep crevice of the appropriate size and shape for binding double-stranded B-DNA. A flexible subdomain may allow the enzyme to surround completely the DNA substrate, thereby allowing processive nucleotide polymerization without enzyme dissociation.


    Related Citations: 
    • Crystallization and 7 Angstroms Resolution Electron Density Map of the Large Fragment of Escherichia Coli DNA Polymerase I
      Brick, P.,Ollis, D.,Steitz, T.A.
      (1983) J.Mol.Biol. 166: 453
    • Escherichia Coli DNA Polymerase I. Sequence Characterization and Secondary Structure Prediction
      Brown, W.E.,Stump, K.H.,Kelley, W.S.
      (1982) J.Biol.Chem. 257: 1965
    • Domain of E. Coli DNA Polymerase I Showing Sequence Homology to T7 DNA Polymerase
      Ollis, D.L.,Kline, C.,Steitz, T.A.
      (1985) Nature 313: 818
    • Nucleotide Sequence of the Escherichia Coli Pola Gene and Primary Structure of DNA Polymerase I
      Joyce, C.M.,Kelley, W.S.,Grindley, N.D.F.
      (1982) J.Biol.Chem. 257: 1958



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA POLYMERASE I KLENOW FRAGMENT
A
605Escherichia coli (strain K12)Mutation(s): 0 
Gene Names: polA (resA)
EC: 2.7.7.7
Find proteins for P00582 (Escherichia coli (strain K12))
Go to UniProtKB:  P00582
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • Space Group: P 43
Unit Cell:
Length (Å)Angle (°)
a = 102.900α = 90.00
b = 102.900β = 90.00
c = 85.800γ = 90.00
Software Package:
Software NamePurpose
PROLSQrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1987-10-16
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance