1RFG Transferase date Nov 09, 2003
title Crystal Structure Of Human Purine Nucleoside Phosphorylase C With Guanosine
authors F.Canduri, R.G.Silva, D.M.Dos Santos, M.S.Palma, L.A.Basso, D.S.S W.F.De Azevedo
compound source
Molecule: Purine Nucleoside Phosphorylase
Chain: E
Synonym: Inosine Phosphorylase, Pnp
Ec: 2.4.2.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Np, Pnp
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-23a+
symmetry Space Group: H 3 2
R_factor 0.206 R_Free 0.267
crystal
cell
length a length b length c angle alpha angle beta angle gamma
139.380 139.380 160.400 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.90 Å
ligand GMP, SO4 enzyme Transferase E.C.2.4.2.1 BRENDA
related structures by homologous chain: 1V45
Gene
Ontology
ChainFunctionProcessComponent
E


Primary referenceStructure of human PNP complexed with ligands., Canduri F, Silva RG, Dos Santos DM, Palma MS, Basso LA, Santos DS, de Azevedo WF Jr, Acta Crystallogr D Biol Crystallogr 2005 Jul;61(Pt 7):856-62. Epub 2005, Jun 24. PMID:15983407
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (1rfg.pdb1.gz) 141 Kb
  • LPC: Ligand-Protein Contacts for 1RFG
  • CSU: Contacts of Structural Units for 1RFG
  • Likely Quarternary Molecular Structure file(s) for 1RFG
  • Structure Factors (92 Kb)
  • Retrieve 1RFG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1RFG from S2C, [Save to disk]
  • Re-refined 1rfg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1RFG 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 1RFG
  • 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
  • 3D motif for 1RFG, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1rfge_, region E [Jmol] [rasmolscript] [script source]
  • Fold representative 1rfg from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1rfg] [1rfg_E]
  • SWISS-PROT database: [P00491]
  • Domain organization of [PNPH_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 1RFG with the sequences similar proteins can be viewed for 1RFG's classification [PNPH_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [PNPH_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 1RFG
  • Community annotation for 1RFG 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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