5TBA Postcatalytic ternary complex of Human DNA Polymerase Beta with Gapped DNA substrate, incorporated (-)3TC and PPi. date
authors Vyas, R., Suo, Z.
compound source
symmetry
R_factor
R_Free 0.273
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.49
ligand 42E, NA, PPV enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural Insights into the Post-Chemistry Steps of Nucleotide Incorporation Catalyzed by a DNA Polymerase., Reed AJ, Vyas R, Raper AT, Suo Z, J Am Chem Soc. 2017 Jan 11;139(1):465-471. doi: 10.1021/jacs.6b11258. Epub 2016, Dec 27. PMID:27959534
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (73 Kb) [Save to disk]
  • Biological Unit Coordinates (5tba.pdb1.gz) 68 Kb
  • LPC: Ligand-Protein Contacts for 5TBA
  • CSU: Contacts of Structural Units for 5TBA
  • Structure Factors (262 Kb)
  • Retrieve 5TBA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5TBA from S2C, [Save to disk]
  • Re-refined 5tba structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5TBA 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 5TBA
  • 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 5tba from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5tba_D] [5tba_A] [5tba] [5tba_T] [5tba_P]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5TBA
  • Community annotation for 5TBA at PDBWiki (http://pdbwiki.org)

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