5OMV Transferase date Aug 01, 2017
title Ternary Complex Of 9n Dna Polymerase In The Replicative Stat Metal Ions In The Active Site
authors K.Betz, A.Marx, K.Diederichs
compound source
Molecule: Dna Polymerase
Chain: A
Ec: 2.7.7.7
Engineered: Yes
Mutation: Yes
Organism_scientific: Thermococcus Sp. 9on-7
Organism_taxid: 103799
Gene: Pol, Pola
Expression_system: Escherichia Coli
Expression_system_taxid: 562

Molecule: Dna Template
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630

Molecule: Dna Primer
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: P 21 21 21
R_factor 0.189 R_Free 0.233
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.688 94.964 158.735 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand DTP, GOL, MG, MN, PGE enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A
  • DNA-directed DNA polymerase ...


  • Primary referenceCrystal structures of ternary complexes of archaeal B-family DNA polymerases., Kropp HM, Betz K, Wirth J, Diederichs K, Marx A, PLoS One. 2017 Dec 6;12(12):e0188005. doi: 10.1371/journal.pone.0188005., eCollection 2017. PMID:29211756
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (297 Kb) [Save to disk]
  • Biological Unit Coordinates (5omv.pdb1.gz) 290 Kb
  • LPC: Ligand-Protein Contacts for 5OMV
  • CSU: Contacts of Structural Units for 5OMV
  • Structure Factors (1543 Kb)
  • Retrieve 5OMV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OMV from S2C, [Save to disk]
  • View 5OMV 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 5OMV
  • 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 5omv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5omv_A] [5omv_T] [5omv_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5OMV
  • Community annotation for 5OMV 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
    Bioinformatics Unit
    Weizmann Institute of Science