2BPF Transferase Dna date May 19, 1994
title Structures Of Ternary Complexes Of Rat Dna Polymerase Beta, A Dna Template-Primer, And Ddctp
authors H.Pelletier, M.R.Sawaya, A.Kumar, S.H.Wilson, J.Kraut
compound source
Molecule: Dna (5'-D(Gpgpgpcpgpcpcpg)-3')
Chain: T
Engineered: Yes
Synthetic: Yes

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

Synthetic: Yes

Molecule: Protein (Dna Polymerase Beta (E.C.2.7.7.7))
Chain: A
Engineered: Yes

Organism_scientific: Rattus Norvegicus
Organism_common: Norway Rat
Organism_taxid: 10116
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 61
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
94.900 94.900 117.600 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand DCT, MG enzyme Transferase E.C.2.7.7.7 BRENDA
related structures by homologous chain: 8ICF, 9ICN
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructures of ternary complexes of rat DNA polymerase beta, a DNA template-primer, and ddCTP., Pelletier H, Sawaya MR, Kumar A, Wilson SH, Kraut J, Science 1994 Jun 24;264(5167):1891-903. PMID:7516580
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (2bpf.pdb1.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 2BPF
  • CSU: Contacts of Structural Units for 2BPF
  • Likely Quarternary Molecular Structure file(s) for 2BPF
  • Retrieve 2BPF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BPF from S2C, [Save to disk]
  • View 2BPF 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 2BPF
  • 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
  • 3D motif for 2BPF, from MSDmotif at EBI
  • Genome occurence of 2BPF's fold from GeneCensus
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d2bpfa4, region A:149-335 [Jmol] [rasmolscript] [script source]
        - Domain d2bpfa1, region A:9-91 [Jmol] [rasmolscript] [script source]
        - Domain d2bpfa3, region A:92-148 [Jmol] [rasmolscript] [script source]
  • Fold representative 2bpf from FSSP and Dali (Families of Structurally Similar Proteins)
  • 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: [2bpf_A] [2bpf] [2bpf_T] [2bpf_P]
  • SWISS-PROT database: [P06766]
  • Domain organization of [DPOLB_RAT] by SWISSPFAM
  • Domains found in 2BPF: [HhH1] [POLXc ] by SMART
  • Other resources with information on 2BPF
  • Community annotation for 2BPF 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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