1VJ2 Crystal structure of a novel family of manganese-containing cupin (tm1459) from thermotoga maritima at 1.65 A resolution date
authors JCSG, Joint.Center.for.Structural.Genomics.
compound source
symmetry
R_factor
R_Free 0.24859
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 1.65
ligand MN, UNL enzyme
note 1VJ2 supersedes 1O5N
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of a novel manganese-containing cupin (TM1459) from Thermotoga maritima at 1.65 A resolution., Jaroszewski L, Schwarzenbacher R, von Delft F, McMullan D, Brinen LS, Canaves JM, Dai X, Deacon AM, DiDonato M, Elsliger MA, Eshagi S, Floyd R, Godzik A, Grittini C, Grzechnik SK, Hampton E, Levin I, Karlak C, Klock HE, Koesema E, Kovarik JS, Kreusch A, Kuhn P, Lesley SA, McPhillips TM, Miller MD, Morse A, Moy K, Ouyang J, Page R, Quijano K, Reyes R, Rezezadeh F, Robb A, Sims E, Spraggon G, Stevens RC, van den Bedem H, Velasquez J, Vincent J, Wang X, West B, Wolf G, Xu Q, Hodgson KO, Wooley J, Wilson IA, Proteins 2004 Aug 15;56(3):611-4. PMID:15229893
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (47 Kb) [Save to disk]
  • Biological Unit Coordinates (1vj2.pdb1.gz) 41 Kb
  • LPC: Ligand-Protein Contacts for 1VJ2
  • CSU: Contacts of Structural Units for 1VJ2
  • Likely Quarternary Molecular Structure file(s) for 1VJ2
  • Structure Factors (249 Kb)
  • Retrieve 1VJ2 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1VJ2 from S2C, [Save to disk]
  • Re-refined 1vj2 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1VJ2 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 1VJ2
  • 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 1VJ2, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1vj2a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1vj2b_, 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: [1vj2] [1vj2_B] [1vj2_A]
  • SWISS-PROT database: [Q9X1H0]
  • Domain organization of [Q9X1H0_THEMA] by SWISSPFAM
    • Other resources with information on 1VJ2
  • Community annotation for 1VJ2 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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