1VD5	Hydrolase	date	Mar 18, 2004
title	Crystal Structure Of Unsaturated Glucuronyl Hydrolase, Respo The Degradation Of Glycosaminoglycan, From Bacillus Sp. Gl1 Resolution
authors	T.Itoh, S.Akao, W.Hashimoto, B.Mikami, K.Murata
compound		source
Molecule: Unsaturated Glucuronyl Hydrolase Chain: A Ec: 3.2.1.- Engineered: Yes		Organism_scientific: Bacillus Sp. Organism_taxid: 84635 Strain: Gl1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet3a
symmetry	Space Group: P 65 2 2	R_factor 0.168 R_Free 0.189
crystal cell	length a length b length c angle alpha angle beta angle gamma 103.012 103.012 223.039 90.00 90.00 120.00
method	X-Ray Diffraction	resolution	1.80 Å
ligand	DTT, GLY, MPD	enzyme	Hydrolase E.C.3.2.1 BRENDA
Gene Ontology	Chain Function Process Component A
Primary reference	Crystal structure of unsaturated glucuronyl hydrolase, responsible for the degradation of glycosaminoglycan, from Bacillus sp. GL1 at 1.8 A resolution., Itoh T, Akao S, Hashimoto W, Mikami B, Murata K, J Biol Chem 2004 Jul 23;279(30):31804-12. Epub 2004 May 17. PMID:15148314

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk] Biological Unit Coordinates (1vd5.pdb1.gz) 72 Kb LPC: Ligand-Protein Contacts for 1VD5 CSU: Contacts of Structural Units for 1VD5 Likely Quarternary Molecular Structure file(s) for 1VD5 Structure Factors (595 Kb) Retrieve 1VD5 in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1VD5 from S2C, [Save to disk] Re-refined 1vd5 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1VD5 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 1VD5

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 1VD5, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1vd5a_, region A [Jmol] [rasmolscript] [script source]

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [1vd5_A] [1vd5] SWISS-PROT database: [Q9RC92] Domain organization of [UGL_BACGL] by SWISSPFAM

Other resources with information on 1VD5

Community annotation for 1VD5 at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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