3LQC Dna-Binding Protein date Feb 09, 2010
title X-Ray Crystal Structure Of Oxidized Xrcc1 Bound To Dna Pol B Thumb Domain
authors M.J.Cuneo, J.M.Krahn, R.E.London
compound source
Molecule: Dna Repair Protein Xrcc1
Chain: A
Synonym: X-Ray Repair Cross-Complementing Protein 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Strain: Homo Sapiens
Gene: Xrcc1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a

Molecule: Dna Polymerase Beta
Chain: B
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: Bl21 Ril
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a
symmetry Space Group: P 31 2 1
R_factor 0.189 R_Free 0.250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.240 75.240 126.160 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.35 Å
ligand CO3, NA enzyme Transferase E.C.2.7.7.7 BRENDA
Primary referenceOxidation state of the XRCC1 N-terminal domain regulates DNA polymerase beta binding affinity., Cuneo MJ, London RE, Proc Natl Acad Sci U S A. 2010 Apr 13;107(15):6805-10. Epub 2010 Mar 29. PMID:20351257
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (66 Kb) [Save to disk]
  • Biological Unit Coordinates (3lqc.pdb1.gz) 61 Kb
  • LPC: Ligand-Protein Contacts for 3LQC
  • CSU: Contacts of Structural Units for 3LQC
  • Structure Factors (137 Kb)
  • Retrieve 3LQC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LQC from S2C, [Save to disk]
  • Re-refined 3lqc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LQC 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 3LQC
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3LQC, from MSDmotif at EBI
  • Fold representative 3lqc from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3lqc_B] [3lqc] [3lqc_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 3LQC: [POLXc ] by SMART
  • Alignments of the sequence of 3LQC with the sequences similar proteins can be viewed for 3LQC's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3LQC
  • Community annotation for 3LQC at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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