1NYW	Isomerase	date	Feb 14, 2003
title	The High Resolution Structures Of Rmlc From Streptoccus Suis Complex With Dtdp-D-Glucose
authors	C.Dong, L.L.Major, A.Allen, W.Blankenfeldt, D.Maskell, J.H.Naismi
compound		source
Molecule: Dtdp-6-Deoxy-D-Xylo-4-Hexulose 3,5-Epimerase Chain: A, B Synonym: Dtdp-4-Dehydrorhamnose 3,5-Epimerase Ec: 5.1.3.13 Engineered: Yes		Organism_scientific: Streptococcus Suis Organism_taxid: 1307 Strain: Serotype 2 Gene: Rmlc Expression_system: Escherichia Coli Bl21(De3) Expression_system_taxid: 469008 Expression_system_strain: Bl21(De3) Expression_system_vector_type: Plasmid Expression_system_plasmid: Pet21(+)
symmetry	Space Group: P 1 21 1	R_factor 0.173 R_Free 0.217
crystal cell	length a length b length c angle alpha angle beta angle gamma 50.586 47.895 72.417 90.00 99.02 90.00
method	X-Ray Diffraction	resolution	1.60 Å
ligand	DAU	enzyme	Isomerase E.C.5.1.3.13 BRENDA
related structures	by homologous chain: 1NXM, 1NZC
Gene Ontology	Chain Function Process Component A, B
Primary reference	High-resolution structures of RmlC from Streptococcus suis in complex with substrate analogs locate the active site of this class of enzyme., Dong C, Major LL, Allen A, Blankenfeldt W, Maskell D, Naismith JH, Structure (Camb) 2003 Jun;11(6):715-23. PMID:12791259

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk] Biological Unit Coordinates (1nyw.pdb1.gz) 143 Kb LPC: Ligand-Protein Contacts for 1NYW CSU: Contacts of Structural Units for 1NYW Likely Quarternary Molecular Structure file(s) for 1NYW Structure Factors (627 Kb) Retrieve 1NYW in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 1NYW from S2C, [Save to disk] Re-refined 1nyw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 1NYW 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 1NYW

Ramachandran plot from PDBSum

Structure-derived information

Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 1NYW, from MSDmotif at EBI Classification of representative domains in scop (Structural Classification of Proteins)     - Domain d1nywa_, region A [Jmol] [rasmolscript] [script source]     - Domain d1nywb_, region B [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: [1nyw] [1nyw_A] [1nyw_B] SWISS-PROT database: [Q8GIQ0] Domain organization of [Q8GIQ0_STRSU] by SWISSPFAM

Other resources with information on 1NYW

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

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