3OHA Transferase Dna date Aug 17, 2010
title Yeast Dna Polymerase Eta Inserting Dctp Opposite An 8oxog Le
authors T.D.Silverstein, R.Jain, A.K.Aggarwal
compound source
Molecule: Dna Polymerase Eta
Chain: A
Fragment: Unp Residues 1-513
Synonym: Radiation-Sensitive Protein 30
Engineered: Yes
Mutation: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Dbh1, Rad30, Ydr419w
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Er2566
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Psl414

Molecule: 5'-D(Gptpcpcptpcpcpcpcptp(Doc))-3'
Chain: P
Engineered: Yes

Synthetic: Yes

Molecule: 5'-D(Ptp(8og)Pgpapgpgpgpgpapgpgpapc)
Chain: T
Engineered: Yes

Synthetic: Yes
symmetry Space Group: C 2 2 21
R_factor 0.157 R_Free 0.195
length a length b length c angle alpha angle beta angle gamma
88.039 227.635 86.077 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand 8OG, DCP, DOC, MG, SO4 enzyme Transferase E.C. BRENDA

Primary referenceStructural basis for error-free replication of oxidatively damaged DNA by yeast DNA polymerase eta., Silverstein TD, Jain R, Johnson RE, Prakash L, Prakash S, Aggarwal AK, Structure. 2010 Nov 10;18(11):1463-70. PMID:21070945
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (216 Kb) [Save to disk]
  • Biological Unit Coordinates (3oha.pdb1.gz) 209 Kb
  • LPC: Ligand-Protein Contacts for 3OHA
  • CSU: Contacts of Structural Units for 3OHA
  • Structure Factors (1355 Kb)
  • Retrieve 3OHA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3OHA from S2C, [Save to disk]
  • Re-refined 3oha structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3OHA 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 3OHA
  • 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 3OHA, from MSDmotif at EBI
  • Fold representative 3oha from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3oha_A] [3oha] [3oha_T] [3oha_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3OHA
  • Community annotation for 3OHA 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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