2JII Transferase date Jun 28, 2007
title Structure Of Vaccinia Related Kinase 3
authors G.Bunkoczi, J.Eswaran, A.C.W.Pike, J.Uppenberg, E.Ugochukwu, F.Vo C.Cooper, E.Salah, P.Savitsky, N.Burgess-Brown, T.Keates, O.Fedo F.Sobott, C.H.Arrowsmith, A.Edwards, M.Sundstrom, J.Weigelt, S.K
compound source
Molecule: Serinethreonine-Protein Kinase Vrk3 Molecule: Va Related Kinase 3;
Chain: A, B
Fragment: Kinase Domain, Residues 146-474
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: R3
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pnic28-Bsa4
symmetry Space Group: P 1 21 1
R_factor 0.179 R_Free 0.223
crystal
cell
length a length b length c angle alpha angle beta angle gamma
91.258 54.423 91.822 90.00 91.22 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand EDO enzyme Transferase E.C.2.7.11.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructure of the pseudokinase VRK3 reveals a degraded catalytic site, a highly conserved kinase fold, and a putative regulatory binding site., Scheeff ED, Eswaran J, Bunkoczi G, Knapp S, Manning G, Structure. 2009 Jan 14;17(1):128-38. PMID:19141289
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk]
  • Biological Unit Coordinates (2jii.pdb1.gz) 58 Kb
  • Biological Unit Coordinates (2jii.pdb2.gz) 60 Kb
  • LPC: Ligand-Protein Contacts for 2JII
  • CSU: Contacts of Structural Units for 2JII
  • Likely Quarternary Molecular Structure file(s) for 2JII
  • Structure Factors (813 Kb)
  • Retrieve 2JII in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2JII from S2C, [Save to disk]
  • Re-refined 2jii structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2JII 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 2JII
  • 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 2JII, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2jii_B] [2jii_A] [2jii]
  • SWISS-PROT database: [Q8IV63]
  • Domain organization of [VRK3_HUMAN] by SWISSPFAM
  • Domain found in 2JII: [STYKc ] by SMART
  • Other resources with information on 2JII
  • Community annotation for 2JII 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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