6PKZ Dna Binding Protein Dna date Jun 30, 2019
title Structure Of Human Dna Polymerase Beta N279a Complexed With Template Base Paired With Incoming Non-Hydrolyzable Gtp
authors M.C.Koag, S.Lee
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7,4.2.99.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Polb
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna (5'-D(Cpcpgpapcp(A38) Ptpcpgpcpaptpcpapgpc)-3');
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Gpcptpgpaptpgpcpgpa)-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
symmetry Space Group: P 1 21 1
R_factor 0.175 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.609 78.555 54.776 90.00 106.83 90.00
method X-Ray Diffractionresolution 2.74 Å
ligand A38, MG, NA, XG4 enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (6pkz.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 6PKZ
  • CSU: Contacts of Structural Units for 6PKZ
  • Structure Factors (127 Kb)
  • Retrieve 6PKZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6PKZ from S2C, [Save to disk]
  • View 6PKZ 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 6PKZ
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • Fold representative 6pkz from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6pkz_A] [6pkz_T] [6pkz_D] [6pkz_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6PKZ
  • Community annotation for 6PKZ at PDBWiki (http://pdbwiki.org)

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