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 Diffraction	resolution	2.90 Å
ligand	GMP, SO4	enzyme	Transferase E.C.2.4.2.1 BRENDA
related structures	by homologous chain: 1V45
Gene Ontology	Chain Function Process Component E nucleoside binding purine nucleobase binding purine-nucleoside phosphoryl... drug binding transferase activity transferase activity, transf... phosphate ion binding nucleobase-containing compou... purine nucleobase metabolic ... inosine catabolic process purine nucleotide catabolic ... nicotinamide riboside catabo... immune response NAD biosynthesis via nicotin... urate biosynthetic process positive regulation of T cel... response to drug purine-containing compound s... small molecule metabolic pro... positive regulation of alpha... nucleobase-containing small ... interleukin-2 secretion intracellular cytoplasm cytosol cytoskeleton
Primary reference	Structure 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

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_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)

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