3V7J Transferase Dna date Dec 21, 2011
title Co-Crystal Structure Of Wild Type Rat Polymerase Beta: Enzym Binary Complex
authors S.Rangarajan, J.Jaeger
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7, 4.2.99.-
Engineered: Yes
Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta2(De3)
Expression_system_plasmid: Pet28a

Molecule: Dna (5'-D(Paptpgptpgpapgpt)-3')
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'-D(Pcpapapapcptpcpapcpaptpa)-3
Chain: T
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.211 R_Free 0.243
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.779 77.114 116.653 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.25 Å
ligand CL, NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (133 Kb) [Save to disk]
  • Biological Unit Coordinates (3v7j.pdb1.gz) 127 Kb
  • LPC: Ligand-Protein Contacts for 3V7J
  • CSU: Contacts of Structural Units for 3V7J
  • Structure Factors (150 Kb)
  • Retrieve 3V7J in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3V7J from S2C, [Save to disk]
  • Re-refined 3v7j structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3V7J in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3V7J
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3V7J, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3v7j_P] [3v7j_A] [3v7j_T] [3v7j]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3V7J: [HhH1] [POLXc ] by SMART
  • Other resources with information on 3V7J
  • Community annotation for 3V7J at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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