1G1A Lyase date Oct 11, 2000
title The Crystal Structure Of Dtdp-D-Glucose 4,6-Dehydratase (Rml Salmonella Enterica Serovar Typhimurium
authors S.T.M.Allard, M.F.Giraud, C.Whitfield, M.Graninger, P.Messner, J.H.Naismith
compound source
Molecule: Dtdp-D-Glucose 4,6-Dehydratase
Chain: A, B, C, D
Ec: 4.2.1.46
Engineered: Yes
Organism_scientific: Salmonella Enterica Subsp. Enterica Se Typhimurium;
Organism_taxid: 90371
Strain: Subsp. Enterica Serovar Typhimurium
Variant: Serovar Typhimurium
Gene: Rmlb
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a(+)
symmetry Space Group: P 1 21 1
R_factor 0.202 R_Free 0.249
crystal
cell
length a length b length c angle alpha angle beta angle gamma
110.623 87.533 111.304 90.00 98.04 90.00
method X-Ray Diffractionresolution 2.47 Å
ligand NAD, SO4 enzyme Lyase E.C.4.2.1.46 BRENDA
related structures by homologous chain: 1KEU
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThe crystal structure of dTDP-D-Glucose 4,6-dehydratase (RmlB) from Salmonella enterica serovar Typhimurium, the second enzyme in the dTDP-l-rhamnose pathway., Allard ST, Giraud MF, Whitfield C, Graninger M, Messner P, Naismith JH, J Mol Biol 2001 Mar 16;307(1):283-95. PMID:11243820
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (243 Kb) [Save to disk]
  • Biological Unit Coordinates (1g1a.pdb1.gz) 120 Kb
  • Biological Unit Coordinates (1g1a.pdb2.gz) 120 Kb
  • LPC: Ligand-Protein Contacts for 1G1A
  • CSU: Contacts of Structural Units for 1G1A
  • Likely Quarternary Molecular Structure file(s) for 1G1A
  • Retrieve 1G1A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1G1A from S2C, [Save to disk]
  • View 1G1A 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 1G1A
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1G1A, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1g1aa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1g1ab_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1g1ac_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1g1ad_, 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: [1g1a_A] [1g1a_B] [1g1a_C] [1g1a_D] [1g1a]
  • SWISS-PROT database: [Q9EU31] [P26391]
  • Domain organization of [Q9EU31_SALCH] [RFBB_SALTY] by SWISSPFAM
  • Other resources with information on 1G1A
  • Community annotation for 1G1A 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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