1Q8F	Hydrolase	date	Aug 21, 2003
title	Crystal Structure Of The E.Coli Pyrimidine Nucleoside Hydrol
authors	B.Giabbai, M.Degano
compound		source
Molecule: Pyrimidine Nucleoside Hydrolase Chain: A, B, C, D Synonym: Pyrimidine Nucleosidase, Cu-Nh, Hypothetical Prote Ec: 3.2.2.8 Engineered: Yes		Organism_scientific: Escherichia Coli Organism_taxid: 562 Gene: Yeik Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet28
symmetry	Space Group: P 1	R_factor 0.153 R_Free 0.170
crystal cell	length a length b length c angle alpha angle beta angle gamma 44.808 85.707 90.678 112.95 101.95 85.92
method	X-Ray Diffraction	resolution	1.70 Å
ligand	CA, GOL	enzyme	Hydrolase E.C.3.2.2.8 BRENDA
Gene Ontology	Chain Function Process Component A, D, C, B
Primary reference	Crystal structure to 1.7 a of the Escherichia coli pyrimidine nucleoside hydrolase YeiK, a novel candidate for cancer gene therapy., Giabbai B, Degano M, Structure (Camb) 2004 May;12(5):739-49. PMID:15130467

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (211 Kb) [Save to disk] Biological Unit Coordinates (1q8f.pdb1.gz) 203 Kb LPC: Ligand-Protein Contacts for 1Q8F CSU: Contacts of Structural Units for 1Q8F Likely Quarternary Molecular Structure file(s) for 1Q8F Structure Factors (1735 Kb) Retrieve 1Q8F in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1Q8F from S2C, [Save to disk] Re-refined 1q8f structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1Q8F 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 1Q8F

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 1Q8F, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1q8fa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1q8fb_, region B [Jmol] [rasmolscript] [script source]     - Domain d1q8fc_, region C [Jmol] [rasmolscript] [script source]     - Domain d1q8fd_, region D [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1q8f_D] [1q8f_B] [1q8f_C] [1q8f_A] [1q8f] SWISS-PROT database: [P33022] Domain organization of [RIHB_ECOLI] by SWISSPFAM

Other resources with information on 1Q8F

Community annotation for 1Q8F at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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