3T9C Transferase date Aug 02, 2011
title Crystal Structure Of The Catalytic Domain Of Human Diphospho Pentakisphosphate Kinase 2 (Ppip5k2) In Complex With Amppnp Inositol Hexakisphosphate (Ip6)
authors H.Wang, J.Falck, T.M.T.Hall, S.B.Shears
compound source
Molecule: Inositol Pyrophosphate Kinase
Chain: A
Fragment: Atp-Grasp Kinase Domain
Ec: 2.7.4.24
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ppip5k2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Arctic Express (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pdest566
symmetry Space Group: P 21 21 21
R_factor 0.185 R_Free 0.217
crystal
cell
length a length b length c angle alpha angle beta angle gamma
89.037 110.489 41.339 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand ANP, IHP, MG enzyme Transferase E.C.2.7.4.24 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for an inositol pyrophosphate kinase surmounting phosphate crowding., Wang H, Falck JR, Hall TM, Shears SB, Nat Chem Biol. 2011 Nov 27. doi: 10.1038/nchembio.733. PMID:22119861
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (69 Kb) [Save to disk]
  • Biological Unit Coordinates (3t9c.pdb1.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 3T9C
  • CSU: Contacts of Structural Units for 3T9C
  • Structure Factors (807 Kb)
  • Retrieve 3T9C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3T9C from S2C, [Save to disk]
  • Re-refined 3t9c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3T9C 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 3T9C
  • 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 3T9C, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3t9c_A] [3t9c]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3T9C
  • Community annotation for 3T9C at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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