3K75 Dna-Binding Protein date Oct 12, 2009
title X-Ray Crystal Structure Of Reduced Xrcc1 Bound To Dna Pol Be Catalytic Domain
authors M.J.Cuneo, R.E.London
compound source
Molecule: Dna Repair Protein Xrcc1
Chain: B, C
Fragment: N-Terminal Domain (Unp Residues 1 To 183)
Synonym: X-Ray Repair Cross-Complementing Protein 1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Strain: Human
Gene: Xrcc1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a

Molecule: Dna Polymerase Beta
Chain: D, E
Fragment: Unp Residues 91 To 335
Ec: 2.7.7.7, 4.2.99.-
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Strain: Rattus
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a
symmetry Space Group: C 1 2 1
R_factor 0.242 R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
140.770 44.050 152.770 90.00 107.21 90.00
method X-Ray Diffractionresolution 2.95 Å
ligand
enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
C, B


D, E


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] (269 Kb) [Save to disk]
  • Biological Unit Coordinates (3k75.pdb1.gz) 133 Kb
  • Biological Unit Coordinates (3k75.pdb2.gz) 132 Kb
  • CSU: Contacts of Structural Units for 3K75
  • Structure Factors (152 Kb)
  • Retrieve 3K75 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3K75 from S2C, [Save to disk]
  • Re-refined 3k75 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3K75 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 3K75
  • 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 3K75, from MSDmotif at EBI
  • Fold representative 3k75 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3k75_C] [3k75_E] [3k75] [3k75_D] [3k75_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3K75 with the sequences similar proteins can be viewed for 3K75'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 3K75
  • Community annotation for 3K75 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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