5EWF Transferase Dna date Nov 20, 2015
title Ternary Complex Of Human Dna Polymerase Eta Inserting Rctp O 8-Oxodeoxyguanosine Lesion
authors Y.Su, M.Egli, F.P.Guengerich
compound source
Molecule: Dna Polymerase Eta
Chain: A
Fragment: Unp Residues 1-432
Synonym: Rad30 Homolog A,Xeroderma Pigmentosum Variant Type
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polh, Rad30, Rad30a, Xpv
Expression_system: Escherichia Coli 'Bl21-Gold(De3)Plyss Ag
Expression_system_taxid: 866768

Molecule: Dna (5'-D(Cpaptp(8og)Paptpgpapcpgpcpt
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Apgpcpgptpcpapt)-3')
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 61
R_factor 0.180 R_Free 0.216
length a length b length c angle alpha angle beta angle gamma
99.124 99.124 81.384 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.78 Å
ligand 8OG, CA, CTP, GOL enzyme Transferase E.C. BRENDA

Primary referenceMechanism of Ribonucleotide Incorporation by Human DNA Polymerase eta., Su Y, Egli M, Guengerich FP, J Biol Chem. 2016 Jan 6. pii: jbc.M115.706226. PMID:26740629
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (93 Kb) [Save to disk]
  • Biological Unit Coordinates (5ewf.pdb1.gz) 87 Kb
  • LPC: Ligand-Protein Contacts for 5EWF
  • CSU: Contacts of Structural Units for 5EWF
  • Structure Factors (2438 Kb)
  • Retrieve 5EWF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5EWF from S2C, [Save to disk]
  • Re-refined 5ewf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5EWF 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 5EWF
  • 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
  • Fold representative 5ewf from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5ewf_A] [5ewf] [5ewf_T] [5ewf_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5EWF
  • Community annotation for 5EWF at PDBWiki (http://pdbwiki.org)

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