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: 2.7.7.7, 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
crystal
cell
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.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


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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