3RH6 Transferase Dna date Apr 11, 2011
title Dna Polymerase Beta Mutant (Y271) With A Dideoxy-Terminated With An Incoming Ribonucleotide (Rctp)
authors N.A.Cavanaugh, W.A.Beard, V.K.Batra, L.Perera, L.G.Pedersen, S.H.
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec:, 4.2.99.-
Engineered: Yes
Mutation: 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: Pwl11

Molecule: 5'-D(Cpcpgpapcpgpcpcpgpcpaptpcpapg
Chain: T
Engineered: Yes

Synthetic: Yes

Molecule: (5'-D(Gpcptpgpaptpgpcpgp(Ddg))-3')
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: (5'-D(Pgptpcpgpg)-3')
Chain: D
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 1 21 1
R_factor 0.195 R_Free 0.266
length a length b length c angle alpha angle beta angle gamma
51.060 79.810 55.060 90.00 107.68 90.00
method X-Ray Diffractionresolution 2.05 Å
ligand CL, CTP, DDG, MN, NA enzyme Transferase E.C. BRENDA

Primary referenceMolecular insights into DNA polymerase deterrents for Ribonucleotide insertion., Cavanaugh NA, Beard WA, Batra VK, Perera L, Pedersen LG, Wilson SH, J Biol Chem. 2011 Jul 6. PMID:21733843
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (3rh6.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 3RH6
  • CSU: Contacts of Structural Units for 3RH6
  • Structure Factors (349 Kb)
  • Retrieve 3RH6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3RH6 from S2C, [Save to disk]
  • Re-refined 3rh6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3RH6 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 3RH6
  • 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 3RH6, from MSDmotif at EBI
  • Fold representative 3rh6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3rh6_A] [3rh6] [3rh6_T] [3rh6_P] [3rh6_D]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3RH6: [HhH1] [POLXc ] by SMART
  • Other resources with information on 3RH6
  • Community annotation for 3RH6 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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