4FS1 Transferase Dna date Jun 26, 2012
title Base Pairing Mechanism Of N2,3-Ethenoguanine With Dttp By Hu Polymerase Iota
authors L.Zhao
compound source
Molecule: Dna 5'-D(Tpcptp(Efg) Pgpgpgptpcpcptpapgpgpapcpcp(Doc))-3';
Chain: B, C
Engineered: Yes
Synthetic: Yes
Organism_taxid: 32630
Other_details: Site-Specifically Modified Oligonucleotide

Molecule: Dna Polymerase Iota
Chain: A
Synonym: Eta2, Rad30 Homolog B
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Poli, Rad30b
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21 Gold (De3)
symmetry Space Group: P 65 2 2
R_factor 0.215 R_Free 0.270
length a length b length c angle alpha angle beta angle gamma
97.470 97.470 203.541 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.50 Å
ligand DOC, EFG, MG, NA, TTP enzyme Transferase E.C. BRENDA

Primary referenceBasis of Miscoding of the DNA Adduct N2,3-Ethenoguanine by Human Y-family DNA Polymerases., Zhao L, Pence MG, Christov PP, Wawrzak Z, Choi JY, Rizzo CJ, Egli M, Guengerich FP, J Biol Chem. 2012 Aug 21. PMID:22910910
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (143 Kb) [Save to disk]
  • Biological Unit Coordinates (4fs1.pdb1.gz) 136 Kb
  • LPC: Ligand-Protein Contacts for 4FS1
  • CSU: Contacts of Structural Units for 4FS1
  • Structure Factors (317 Kb)
  • Retrieve 4FS1 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FS1 from S2C, [Save to disk]
  • Re-refined 4fs1 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4FS1 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 4FS1
  • 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 4FS1, from MSDmotif at EBI
  • Fold representative 4fs1 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fs1_A] [4fs1] [4fs1_C] [4fs1_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4FS1
  • Community annotation for 4FS1 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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