3L0S Transferase date Dec 10, 2009
title Crystal Structures Of Zinc, Cobalt And Iron Containing Adeny Kinase From Gram-Negative Bacteria Desulfovibrio Gigas
authors A.Mukhopadhyay, J.Trincao, M.J.Romao
compound source
Molecule: Adenylate Kinase
Chain: A, C
Ec: 2.7.4.3
Engineered: Yes
 Organism_scientific: Desulfovibrio Gigas
Organism_taxid: 879
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-22b(+)
symmetry Space Group: C 1 2 1
R_factor 0.190 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
131.430 39.490 94.200 90.00 109.31 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand CO, TAR enzyme Transferase E.C.2.7.4.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C
  • adenylate kinase activity


    • Primary referenceCrystal structure of the zinc-, cobalt-, and iron-containing adenylate kinase from Desulfovibrio gigas: a novel metal-containing adenylate kinase from Gram-negative bacteria., Mukhopadhyay A, Kladova AV, Bursakov SA, Gavel OY, Calvete JJ, Shnyrov VL, Moura I, Moura JJ, Romao MJ, Trincao J, J Biol Inorg Chem. 2010 Sep 7. PMID:20821240
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (150 Kb) [Save to disk]
  • Biological Unit Coordinates (3l0s.pdb1.gz) 71 Kb
  • Biological Unit Coordinates (3l0s.pdb2.gz) 73 Kb
  • LPC: Ligand-Protein Contacts for 3L0S
  • CSU: Contacts of Structural Units for 3L0S
  • Structure Factors (461 Kb)
  • Retrieve 3L0S in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3L0S from S2C, [Save to disk]
  • Re-refined 3l0s structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3L0S 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 3L0S
  • 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 3L0S, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3l0s_A] [3l0s_C] [3l0s]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3L0S
  • Community annotation for 3L0S at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
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  • Adenylate Kinase (the movie)
  • Images from IMB Jena Image Library of Biological Macromolecules.

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