2WTF Transferase Dna date Sep 16, 2009
title Dna Polymerase Eta In Complex With The Cis-Diammineplatinum (II) 1,3-Gtg Intrastrand Cross-Link
authors T.Reissner, S.Schneider, O.Ziv, S.Schorr, Z.Livneh, T.Carell
compound source
Molecule: Dna Polymerase Eta
Chain: A, B
Fragment: Residues 1-513
Synonym: Dna Polymerase Eta Rad30, Radiation-Sensitive Protein 30;
Ec: 2.7.7.7
Engineered: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Baker'S Yeast
Organism_taxid: 4932
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pdest007 Derivative

Molecule: 5'-D(Tpcptptpcptpgptpgpcp Tpcpapcpcpapcp)-3';
Chain: O, S
Other_details: Cisplatin 1,3 Gtg Intrastrand Cross-Link Between O 3 And O 5, S 3 And S 5;

Synthetic: Yes

Molecule: 5'-D(Gptpgpgptpgpapgpcp)-3'
Chain: P, T

Synthetic: Yes
symmetry Space Group: P 41 21 2
R_factor 0.22712 R_Free 0.26871
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.240 103.240 292.740 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand CA, CPT, DTP enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal Structure of a Cisplatin-(1,3-GTG) Cross-Link within DNA Polymerase eta., Reissner T, Schneider S, Schorr S, Carell T, Angew Chem Int Ed Engl. 2010 Mar 23. PMID:20333640
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (192 Kb) [Save to disk]
  • Biological Unit Coordinates (2wtf.pdb1.gz) 94 Kb
  • Biological Unit Coordinates (2wtf.pdb2.gz) 95 Kb
  • LPC: Ligand-Protein Contacts for 2WTF
  • CSU: Contacts of Structural Units for 2WTF
  • Structure Factors (404 Kb)
  • Retrieve 2WTF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WTF from S2C, [Save to disk]
  • Re-refined 2wtf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WTF 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 2WTF
  • 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 2WTF, from MSDmotif at EBI
  • Fold representative 2wtf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wtf_O] [2wtf] [2wtf_B] [2wtf_S] [2wtf_T] [2wtf_P] [2wtf_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2WTF
  • Community annotation for 2WTF 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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