1YI4 Transferase date Jan 11, 2005
title Structure Of Pim-1 Bound To Adenosine
authors M.D.Jacobs, J.Black, O.Futer, L.Swenson, B.Hare, M.Fleming, K.Saxena
compound source
Molecule: Proto-Oncogene Serinethreonine-Protein Kinase Pim-1;
Chain: A
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pim1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21de3 Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbev1
symmetry Space Group: P 65
R_factor 0.210 R_Free 0.246
length a length b length c angle alpha angle beta angle gamma
98.269 98.269 80.386 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand ADN, CME, SEP enzyme Transferase E.C. BRENDA
related structures by homologous chain: 1YI3, 1YXU

Primary referencePim-1 ligand-bound structures reveal the mechanism of serine/threonine kinase inhibition by LY294002., Jacobs MD, Black J, Futer O, Swenson L, Hare B, Fleming M, Saxena K, J Biol Chem 2005 Apr 8;280(14):13728-34. Epub 2005 Jan 17. PMID:15657054
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (52 Kb) [Save to disk]
  • Biological Unit Coordinates (1yi4.pdb1.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 1YI4
  • CSU: Contacts of Structural Units for 1YI4
  • Likely Quarternary Molecular Structure file(s) for 1YI4
  • Structure Factors (120 Kb)
  • Retrieve 1YI4 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YI4 from S2C, [Save to disk]
  • Re-refined 1yi4 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1YI4 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 1YI4
  • 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 1YI4, from MSDmotif at EBI
  • Fold representative 1yi4 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yi4_A] [1yi4]
  • SWISS-PROT database: [P11309]
  • Domain organization of [PIM1_HUMAN] by SWISSPFAM
  • Domain found in 1YI4: [S_TKc ] by SMART
  • Other resources with information on 1YI4
  • Community annotation for 1YI4 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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