5DBA Transferase Dna date Aug 21, 2015
title Structure Of Human Dna Polymerase Beta Host-Guest Complex Wi Base Paired With A Dt
authors M.C.Koag, S.Lee
compound source
Molecule: Dna Polymerase Beta
Chain: A
Ec: 2.7.7.7,4.2.99.-
Engineered: 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(Cpcpgpapcpgptpcpgpcpaptptp 3');
Chain: T
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

Molecule: Dna (5'-D(Gpcptpgpaptpgpcpgpa)-3')
Chain: P
Engineered: Yes

Synthetic: Yes
Organism_scientific: Homo Sapiens
Organism_taxid: 9606

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

Synthetic: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.202 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
54.344 79.345 54.584 90.00 106.14 90.00
method X-Ray Diffractionresolution 1.97 Å
ligand NA enzyme Transferase E.C.2.7.7.7 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (74 Kb) [Save to disk]
  • Biological Unit Coordinates (5dba.pdb1.gz) 69 Kb
  • LPC: Ligand-Protein Contacts for 5DBA
  • CSU: Contacts of Structural Units for 5DBA
  • Structure Factors (302 Kb)
  • Retrieve 5DBA in mmCIF format [Save to disk]
  • Re-refined 5dba structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5DBA 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 5DBA
  • 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
  • Fold representative 5dba from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5dba] [5dba_T] [5dba_P] [5dba_D] [5dba_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5DBA: [HhH1] [POLXc ] by SMART
  • Other resources with information on 5DBA
  • Community annotation for 5DBA 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