5VBF Oxidoreductase date Mar 29, 2017
title Crystal Structure Of Succinate Semialdehyde Dehydrogenase Fr Burkholderia Vietnamiensis
authors Seattle Structural Genomics Center For Infectious Disease (S
compound source
Molecule: Nad-Dependent Succinate-Semialdehyde Dehydrogenas
Chain: A, B, C, D, E, F, G, H
Fragment: Buvia.00020.V.B1
Engineered: Yes
 Organism_scientific: Burkholderia Vietnamiensis
Organism_taxid: 60552
Gene: Wk24_04400
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Buvia.00104.B.B2
symmetry Space Group: P 21 21 21
R_factor 0.147 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
106.620 191.760 219.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand FMT, GOL, MES, UNX enzyme
Gene WK24
Gene
Ontology
ChainFunctionProcessComponent
F, A, E, B, H, C, D, G


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1203 Kb) [Save to disk]
  • Biological Unit Coordinates (5vbf.pdb1.gz) 599 Kb
  • Biological Unit Coordinates (5vbf.pdb2.gz) 599 Kb
  • LPC: Ligand-Protein Contacts for 5VBF
  • CSU: Contacts of Structural Units for 5VBF
  • Structure Factors (4474 Kb)
  • Retrieve 5VBF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5VBF from S2C, [Save to disk]
  • Re-refined 5vbf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5VBF 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 5VBF
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5vbf_A] [5vbf] [5vbf_E] [5vbf_F] [5vbf_G] [5vbf_D] [5vbf_H] [5vbf_B] [5vbf_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5VBF
  • Community annotation for 5VBF at PDBWiki (http://pdbwiki.org)

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