1BRW Transferase date Aug 25, 1998
title The Crystal Structure Of Pyrimidine Nucleoside Phosphorylase Closed Conformation
authors M.J.Pugmire, S.E.Ealick
compound source
Molecule: Protein (Pyrimidine Nucleoside Phosphorylase)
Chain: A, B
Synonym: Pynp
Ec: 2.4.2.2
Organism_scientific: Geobacillus Stearothermophilus
Organism_taxid: 1422
symmetry Space Group: P 1 21 1
R_factor 0.232 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
53.570 70.450 122.780 90.00 98.02 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CA, MES, PO4, URA enzyme Transferase E.C.2.4.2.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceThe crystal structure of pyrimidine nucleoside phosphorylase in a closed conformation., Pugmire MJ, Ealick SE, Structure 1998 Nov 15;6(11):1467-79. PMID:9817849
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (136 Kb) [Save to disk]
  • Biological Unit Coordinates (1brw.pdb1.gz) 131 Kb
  • LPC: Ligand-Protein Contacts for 1BRW
  • CSU: Contacts of Structural Units for 1BRW
  • Likely Quarternary Molecular Structure file(s) for 1BRW
  • Structure Factors (897 Kb)
  • Retrieve 1BRW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1BRW from S2C, [Save to disk]
  • Re-refined 1brw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1BRW 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 1BRW
  • 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 1BRW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1brwa1, region A:1-70 [Jmol] [rasmolscript] [script source]
        - Domain d1brwa3, region A:331-433 [Jmol] [rasmolscript] [script source]
        - Domain d1brwa2, region A:71-330 [Jmol] [rasmolscript] [script source]
        - Domain d1brwb1, region B:1001-1070 [Jmol] [rasmolscript] [script source]
        - Domain d1brwb2, region B:1071-1330 [Jmol] [rasmolscript] [script source]
        - Domain d1brwb3, region B:1331-1433 [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: [1brw] [1brw_B] [1brw_A]
  • SWISS-PROT database: [P77836]
  • Domain organization of [PDP_BACST] by SWISSPFAM
  • Domain found in 1BRW: [PYNP_C ] by SMART
  • Other resources with information on 1BRW
  • Community annotation for 1BRW 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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