1ODI	Transferase	date	Feb 19, 2003
title	Purine Nucleoside Phosphorylase From Thermus Thermophilus
authors	T.H.Tahirov, E.Inagaki, M.Miyano
compound		source
Molecule: Purine Nucleoside Phosphorylase Chain: A, B, C, D, E, F Ec: 2.4.2.28 Engineered: Yes		Organism_scientific: Thermus Thermophilus Organism_taxid: 300852 Strain: Hb8 Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008
symmetry	Space Group: P 43 21 2	R_factor 0.176 R_Free 0.234
crystal cell	length a length b length c angle alpha angle beta angle gamma 132.365 132.365 171.009 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.40 Å
ligand	ADN, SO4	enzyme	Transferase E.C.2.4.2.28 BRENDA
related structures	by homologous chain: 1ODJ, 1ODL
Gene Ontology	Chain Function Process Component F, A, D, C, E, B
Primary reference	Crystal structure of purine nucleoside phosphorylase from Thermus thermophilus., Tahirov TH, Inagaki E, Ohshima N, Kitao T, Kuroishi C, Ukita Y, Takio K, Kobayashi M, Kuramitsu S, Yokoyama S, Miyano M, J Mol Biol. 2004 Apr 9;337(5):1149-60. PMID:15046984

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (232 Kb) [Save to disk] Biological Unit Coordinates (1odi.pdb1.gz) 226 Kb LPC: Ligand-Protein Contacts for 1ODI CSU: Contacts of Structural Units for 1ODI Likely Quarternary Molecular Structure file(s) for 1ODI Structure Factors (505 Kb) Retrieve 1ODI in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1ODI from S2C, [Save to disk] Re-refined 1odi structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1ODI 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 1ODI

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 1ODI, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1odia_, region A [Jmol] [rasmolscript] [script source]     - Domain d1odib_, region B [Jmol] [rasmolscript] [script source]     - Domain d1odic_, region C [Jmol] [rasmolscript] [script source]     - Domain d1odid_, region D [Jmol] [rasmolscript] [script source]     - Domain d1odie_, region E [Jmol] [rasmolscript] [script source]     - Domain d1odif_, region F [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: [1odi_E] [1odi_B] [1odi_C] [1odi_A] [1odi_F] [1odi_D] [1odi] SWISS-PROT database: [Q5SID9] Domain organization of [Q5SID9_THET8] by SWISSPFAM

Other resources with information on 1ODI

Community annotation for 1ODI at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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