4FJL Transferase Dna date Jun 11, 2012
title Rb69 Dna Polymerase Ternary Complex With Dgtpda
authors S.Xia, J.Wang, W.H.Konigsberg
compound source
Molecule: Dna Polymerase
Chain: A
Synonym: Gp43
Ec: 2.7.7.7
Engineered: Yes
Mutation: Yes
Organism_scientific: Enterobacteria Phage Rb69
Organism_taxid: 12353
Gene: 43
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Template
Chain: T
Engineered: Yes

Synthetic: Yes

Molecule: Dna Primer
Chain: P
Engineered: Yes

Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.179 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
74.884 120.511 130.788 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.87 Å
ligand CA, DGT enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • DNA-directed DNA polymerase ...
  • nuclease activity
  • exonuclease activity
  • 3'-5' exonuclease activity


  • Primary referenceDNA Mismatch Synthesis Complexes Provide Insights into Base Selectivity of a B Family DNA Polymerase., Xia S, Wang J, Konigsberg WH, J Am Chem Soc. 2012 Dec 6. PMID:23214497
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (348 Kb) [Save to disk]
  • Biological Unit Coordinates (4fjl.pdb1.gz) 341 Kb
  • LPC: Ligand-Protein Contacts for 4FJL
  • CSU: Contacts of Structural Units for 4FJL
  • Structure Factors (1399 Kb)
  • Retrieve 4FJL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4FJL from S2C, [Save to disk]
  • Re-refined 4fjl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4FJL 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 4FJL
  • 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 4FJL, from MSDmotif at EBI
  • Fold representative 4fjl from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4fjl_T] [4fjl_P] [4fjl_A] [4fjl]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 4FJL: [POLBc ] by SMART
  • Other resources with information on 4FJL
  • Community annotation for 4FJL at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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