5OMQ Transferase date Aug 01, 2017
title Ternary Complex Of 9n Dna Polymerase In The Replicative Stat Three 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. (Strain 9on-7)
Organism_taxid: 103799
Strain: 9on-7
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 0.193 R_Free 0.248
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.793 93.678 158.205 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 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] (290 Kb) [Save to disk]
  • Biological Unit Coordinates (5omq.pdb1.gz) 283 Kb
  • LPC: Ligand-Protein Contacts for 5OMQ
  • CSU: Contacts of Structural Units for 5OMQ
  • Structure Factors (1257 Kb)
  • Retrieve 5OMQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5OMQ from S2C, [Save to disk]
    • View 5OMQ 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 5OMQ
  • 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: [5omq_A] [5omq_T] [5omq_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5OMQ
  • Community annotation for 5OMQ 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