6CR4 Transferase Dna date Mar 16, 2018
title Ternary Complex Crystal Structure Of Dna Polymerase Beta Wit Dideoxy Terminated Primer With Datp
authors V.K.Batra, S.H.Wilson
compound source
Molecule: Template Strand
Chain: T
Engineered: Yes
Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Primer Strand
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Downstream Primer Strand
Chain: D
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606

Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7,4.2.99.-
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Tap56
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pwl-11
symmetry Space Group: P 1 21 1
R_factor 0.173 R_Free 0.214
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.847 79.564 55.647 90.00 107.69 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand CL, DOC, DTP, MG, NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceMapping functional substrate-enzyme interactions in the pol beta active site through chemical biology: Structural responses to acidity modification of incoming dNTPs., Batra VK, Oertell K, Beard WA, Kashemirov BA, McKenna CE, Goodman MF, Wilson SH, Biochemistry. 2018 Jun 6. doi: 10.1021/acs.biochem.8b00418. PMID:29874056
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (82 Kb) [Save to disk]
  • Biological Unit Coordinates (6cr4.pdb1.gz) 77 Kb
  • LPC: Ligand-Protein Contacts for 6CR4
  • CSU: Contacts of Structural Units for 6CR4
  • Structure Factors (459 Kb)
  • Retrieve 6CR4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6CR4 from S2C, [Save to disk]
  • View 6CR4 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 6CR4
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6cr4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6cr4_A] [6cr4_T] [6cr4_D] [6cr4_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6CR4
  • Community annotation for 6CR4 at PDBWiki (http://pdbwiki.org)

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