1YXU Transferase date Feb 22, 2005
title Crystal Structure Of Kinase Pim1 In Complex With Amp
authors A.Kumar, V.Mandiyan, Y.Suzuki, C.Zhang, J.Rice, J.Tsai, D.R.Artis, P.Ibrahim, R.Bremer
compound source
Molecule: Proto-Oncogene Serinethreonine-Protein Kinase Pi
Chain: A, B, C, D
Fragment: Catalytic Domain
Ec: 2.7.1.37
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pim1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 65
R_factor 0.228 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
195.745 195.745 80.564 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.24 Å
ligand AMP, IMD enzyme Transferase E.C.2.7.1.37 BRENDA
related structures by homologous chain: 1YI4, 1YXS
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceCrystal structures of proto-oncogene kinase Pim1: a target of aberrant somatic hypermutations in diffuse large cell lymphoma., Kumar A, Mandiyan V, Suzuki Y, Zhang C, Rice J, Tsai J, Artis DR, Ibrahim P, Bremer R, J Mol Biol 2005 Apr 22;348(1):183-93. PMID:15808862
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (189 Kb) [Save to disk]
  • Biological Unit Coordinates (1yxu.pdb1.gz) 49 Kb
  • Biological Unit Coordinates (1yxu.pdb2.gz) 48 Kb
  • Biological Unit Coordinates (1yxu.pdb3.gz) 47 Kb
  • Biological Unit Coordinates (1yxu.pdb4.gz) 48 Kb
  • LPC: Ligand-Protein Contacts for 1YXU
  • CSU: Contacts of Structural Units for 1YXU
  • Likely Quarternary Molecular Structure file(s) for 1YXU
  • Structure Factors (646 Kb)
  • Retrieve 1YXU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1YXU from S2C, [Save to disk]
  • Re-refined 1yxu structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1YXU 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 1YXU
  • 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 1YXU, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1yxu_A] [1yxu_B] [1yxu_C] [1yxu_D] [1yxu]
  • SWISS-PROT database: [P11309]
  • Domain organization of [PIM1_HUMAN] by SWISSPFAM
  • Domain found in 1YXU: [S_TKc ] by SMART
    • Other resources with information on 1YXU
  • Community annotation for 1YXU 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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