4YQW Transferase Dna date Mar 13, 2015
title Mutant Human Dna Polymerase Eta Q38ar61a Inserting Dctp Opp Template G
authors Y.Su, A.Patra, J.M.Harp, M.Egli, F.P.Guengerich
compound source
Molecule: Dna Polymerase Eta
Chain: A
Synonym: Rad30 Homolog A,Xeroderma Pigmentosum Variant Type
Ec: 2.7.7.7
Engineered: Yes
Mutation: 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(Aptpgpaptpgpapcpgpcpt)-3')
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 0.174 R_Free 0.227
crystal
cell
length a length b length c angle alpha angle beta angle gamma
99.238 99.238 82.378 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.06 Å
ligand CA, DCP, GOL enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceRoles of Residues Arg-61 and Gln-38 of Human DNA Polymerase Eta in Bypass of Deoxyguanosine and 7,8-Dihydro-8-oxo-2'-deoxyguanosine., Su Y, Patra A, Harp JM, Egli M, Guengerich FP, J Biol Chem. 2015 May 6. pii: jbc.M115.653691. PMID:25947374
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (4yqw.pdb1.gz) 84 Kb
  • LPC: Ligand-Protein Contacts for 4YQW
  • CSU: Contacts of Structural Units for 4YQW
  • Structure Factors (1404 Kb)
  • Retrieve 4YQW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4YQW from S2C, [Save to disk]
  • Re-refined 4yqw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4YQW 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 4YQW
  • 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 4YQW, from MSDmotif at EBI
  • Fold representative 4yqw from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4yqw_A] [4yqw_P] [4yqw] [4yqw_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4YQW
  • Community annotation for 4YQW at PDBWiki (http://pdbwiki.org)

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