2UVM Transferase date Mar 12, 2007
title Structure Of Pkbalpha Ph Domain In Complex With A Novel Inositol Headgroup Surrogate, Benzene 1,2,3,4- Tetrakisphosphate
authors D.Komander, S.J.Mills, M.N.Trusselle, S.T.Safrany, D.M.F.Van Aalten, B.V.L.Potter
compound source
Molecule: Rac-Alpha Serinethreonine-Protein Kinase
Chain: A
Fragment: Pleckstrin Homology (Ph) Domain, Residues 1-123
Synonym: Protein Kinase B Alpha, Rac-Pk-Alpha, Protein Kinase B, Pkb, C-Akt;
Ec: 2.7.11.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_plasmid: Pgex4t
symmetry Space Group: C 1 2 1
R_factor 0.252 R_Free 0.269
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.029 34.040 44.944 90.00 112.25 90.00
method X-Ray Diffractionresolution 1.94 Å
ligand GVF, NA BindingDB enzyme Transferase E.C.2.7.11.1 BRENDA
Primary referenceNovel inositol phospholipid headgroup surrogate crystallized in the pleckstrin homology domain of protein kinase Balpha., Mills SJ, Komander D, Trusselle MN, Safrany ST, van Aalten DM, Potter BV, ACS Chem Biol. 2007 Apr 24;2(4):242-6. PMID:17432822
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (26 Kb) [Save to disk]
  • Biological Unit Coordinates (2uvm.pdb1.gz) 21 Kb
  • LPC: Ligand-Protein Contacts for 2UVM
  • CSU: Contacts of Structural Units for 2UVM
  • Likely Quarternary Molecular Structure file(s) for 2UVM
  • Structure Factors (55 Kb)
  • Retrieve 2UVM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2UVM from S2C, [Save to disk]
  • Re-refined 2uvm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2UVM 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 2UVM
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2UVM, from MSDmotif at EBI
  • Fold representative 2uvm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2uvm_A] [2uvm]
  • SWISS-PROT database: [P31749]
  • Domain organization of [AKT1_HUMAN] by SWISSPFAM
  • Domain found in 2UVM: [PH ] by SMART
  • Alignments of the sequence of 2UVM with the sequences similar proteins can be viewed for 2UVM's classification [AKT1_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [AKT1_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2UVM
  • Community annotation for 2UVM 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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