9ICO DNA POLYMERASE BETA (E.C.2.7.7.7)/DNA COMPLEX, SOAKED IN THE PRESENCE OF DTTP AND MGCL2 date 1995-12-16
authors Pelletier, H., Sawaya, M.R.
compound source
symmetry
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.90
ligand NA enzyme
related structures by homologous chain: 7ICH, 7ICK
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceA structural basis for metal ion mutagenicity and nucleotide selectivity in human DNA polymerase beta., Pelletier H, Sawaya MR, Wolfle W, Wilson SH, Kraut J, Biochemistry 1996 Oct 1;35(39):12762-77. PMID:8841119
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (71 Kb) [Save to disk]
  • Biological Unit Coordinates (9ico.pdb1.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 9ICO
  • CSU: Contacts of Structural Units for 9ICO
  • Likely Quarternary Molecular Structure file(s) for 9ICO
  • Structure Factors (77 Kb)
  • Retrieve 9ICO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 9ICO from S2C, [Save to disk]
  • Re-refined 9ico structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 9ICO 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 9ICO
  • 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
  • 3D motif for 9ICO, from MSDmotif at EBI
  • Genome occurence of 9ICO's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d9icoa4, region A:149-335 [Jmol] [rasmolscript] [script source]
        - Domain d9icoa1, region A:9-91 [Jmol] [rasmolscript] [script source]
        - Domain d9icoa3, region A:92-148 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [9ico] [9ico_P] [9ico_A] [9ico_T]
  • SWISS-PROT database: [P06746]
  • Domain organization of [DPOLB_HUMAN] by SWISSPFAM
  • Domains found in 9ICO: [HhH1] [POLXc ] by SMART
    • Other resources with information on 9ICO
  • Community annotation for 9ICO at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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