1NZC Isomerase date Feb 17, 2003
title The High Resolution Structures Of Rmlc From Streptococcus Su Complex With Dtdp-D-Xylose
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, C, D
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 0.164 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
50.850 140.866 53.699 90.00 92.72 90.00
method X-Ray Diffractionresolution 1.80 Å
ligand NI, TDX enzyme Isomerase E.C.5.1.3.13 BRENDA
related structures by homologous chain: 1NYW
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceHigh-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] (281 Kb) [Save to disk]
  • Biological Unit Coordinates (1nzc.pdb1.gz) 137 Kb
  • Biological Unit Coordinates (1nzc.pdb2.gz) 138 Kb
  • LPC: Ligand-Protein Contacts for 1NZC
  • CSU: Contacts of Structural Units for 1NZC
  • Likely Quarternary Molecular Structure file(s) for 1NZC
  • Structure Factors (956 Kb)
  • Retrieve 1NZC in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1NZC from S2C, [Save to disk]
  • Re-refined 1nzc structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1NZC 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 1NZC
  • 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 1NZC, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1nzca_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1nzcb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1nzcc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1nzcd_, region D [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: [1nzc_D] [1nzc_C] [1nzc] [1nzc_B] [1nzc_A]
  • SWISS-PROT database: [Q8GIQ0]
  • Domain organization of [Q8GIQ0_STRSU] by SWISSPFAM
  • Other resources with information on 1NZC
  • Community annotation for 1NZC at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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