5WNX Dna Ligase Dna, Transferase date Aug 01, 2017
title Dna Polymerase Beta Substrate Complex With Incoming 6-Tdgtp
authors M.A.Schaich, M.R.Smith, A.S.Cloud, S.M.Holloran, B.D.Freudenthal
compound source
Molecule: Dna (5'-D(Cpcpgpapcpcpgpcpgpcpaptpcp 3');
Chain: T
Engineered: Yes
 Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Gpcptpgpaptpgpcpgpc)-3')
Chain: P
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Pgptpcpgpg)-3')
Chain: D
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7,4.2.99.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.206 R_Free 0.290
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.243 79.203 55.625 90.00 107.36 90.00
method X-Ray Diffractionresolution 2.55 Å
ligand CA, CL, NA, SGT enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of a DNA Polymerase Inserting Therapeutic Nucleotide Analogues., Schaich MA, Smith MR, Cloud AS, Holloran SM, Freudenthal BD, Chem Res Toxicol. 2017 Sep 1. doi: 10.1021/acs.chemrestox.7b00173. PMID:28862449
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (72 Kb) [Save to disk]
  • Biological Unit Coordinates (5wnx.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 5WNX
  • CSU: Contacts of Structural Units for 5WNX
  • Structure Factors (147 Kb)
  • Retrieve 5WNX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WNX from S2C, [Save to disk]
    • View 5WNX 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 5WNX
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5wnx_P] [5wnx_A] [5wnx_D] [5wnx_T]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5WNX
  • Community annotation for 5WNX at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science