2A0Y	Transferase	date	Jun 17, 2005
title	Structure Of Human Purine Nucleoside Phosphorylase H257d Mut
authors	A.S.Murkin, W.Shi, V.L.Schramm
compound		source
Molecule: Purine Nucleoside Phosphorylase Chain: A Synonym: Inosine Phosphorylase, Pnp Ec: 2.4.2.1 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Np, Pnp Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: H 3 2	R_factor 0.243 R_Free 0.266
crystal cell	length a length b length c angle alpha angle beta angle gamma 142.467 142.467 166.029 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	2.28 Å
ligand	DIH, SO4 BindingDB	enzyme	Transferase E.C.2.4.2.1 BRENDA
Gene Ontology	Chain Function Process Component A 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	Neighboring group participation in the transition state of human purine nucleoside phosphorylase., Murkin AS, Birck MR, Rinaldo-Matthis A, Shi W, Taylor EA, Almo SC, Schramm VL, Biochemistry. 2007 May 1;46(17):5038-49. Epub 2007 Apr 4. PMID:17407325

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (51 Kb) [Save to disk] Biological Unit Coordinates (2a0y.pdb1.gz) 138 Kb LPC: Ligand-Protein Contacts for 2A0Y CSU: Contacts of Structural Units for 2A0Y Likely Quarternary Molecular Structure file(s) for 2A0Y Structure Factors (439 Kb) Retrieve 2A0Y in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2A0Y from S2C, [Save to disk] Re-refined 2a0y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2A0Y 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 2A0Y

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 2A0Y, from MSDmotif at EBI Fold representative 2a0y from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2a0y_A] SWISS-PROT database: [P00491] Domain organization of [PNPH_HUMAN] by SWISSPFAM Alignments of the sequence of 2A0Y with the sequences similar proteins can be viewed for 2A0Y'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 2A0Y

Community annotation for 2A0Y at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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