6P5C Replication Dna date May 30, 2019
title Bacillus Fragment Dna Polymerase Mutant I716m
authors E.Y.Wu
compound source
Molecule: Dna (5'-D(Cpgpaptpcpapcpgpc)-3')
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna (5'-D(Pgpcpgptpgpaptpcpg)-3')
Chain: C
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna Polymerase I
Chain: A
Ec: 2.7.7.7
Engineered: Yes
Mutation: Yes

Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
Gene: Dpo1, Pola
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21a(+)
symmetry Space Group: P 21 21 21
R_factor 0.228 R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
88.217 93.521 105.279 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand SO4 enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • DNA-directed DNA polymerase ...
  • 3'-5' exonuclease activity


  • Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (109 Kb) [Save to disk]
  • Biological Unit Coordinates (6p5c.pdb1.gz) 105 Kb
  • LPC: Ligand-Protein Contacts for 6P5C
  • CSU: Contacts of Structural Units for 6P5C
  • Structure Factors (1283 Kb)
  • Retrieve 6P5C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6P5C from S2C, [Save to disk]
  • View 6P5C 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 6P5C
  • 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 6p5c from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [6p5c_A] [6p5c_B] [6p5c_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 6P5C
  • Community annotation for 6P5C at PDBWiki (http://pdbwiki.org)

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