1T4E Ligase date Apr 29, 2004
title Structure Of Human Mdm2 In Complex With A Benzodiazepine Inh
authors B.L.Grasberger, C.Schubert, H.K.Koblish, T.E.Carver, C.F.Franks, T.Lu, L.V.Lafrance, D.J.Parks
compound source
Molecule: Ubiquitin-Protein Ligase E3 Mdm2
Chain: A, B
Fragment: P53-Binding Domain
Synonym: P53-Binding Protein Mdm2, Oncoprotein Mdm2, Double Protein, Hdm2;
Ec: 6.3.2.-
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Mdm2
Expression_system: Escherichia Coli Bl21
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pgex4t-3
symmetry Space Group: P 32 2 1
R_factor 0.239 R_Free 0.276
length a length b length c angle alpha angle beta angle gamma
98.486 98.486 74.038 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.60 Å
ligand DIZ BindingDB enzyme Ligase E.C.6.3.2 BRENDA
related structures by homologous chain: 1TTV, 1YCR
A, B

Primary referenceDiscovery and cocrystal structure of benzodiazepinedione HDM2 antagonists that activate p53 in cells., Grasberger BL, Lu T, Schubert C, Parks DJ, Carver TE, Koblish HK, Cummings MD, LaFrance LV, Milkiewicz KL, Calvo RR, Maguire D, Lattanze J, Franks CF, Zhao S, Ramachandren K, Bylebyl GR, Zhang M, Manthey CL, Petrella EC, Pantoliano MW, Deckman IC, Spurlino JC, Maroney AC, Tomczuk BE, Molloy CJ, Bone RF, J Med Chem 2005 Feb 24;48(4):909-12. PMID:15715460
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (39 Kb) [Save to disk]
  • Biological Unit Coordinates (1t4e.pdb1.gz) 35 Kb
  • LPC: Ligand-Protein Contacts for 1T4E
  • CSU: Contacts of Structural Units for 1T4E
  • Likely Quarternary Molecular Structure file(s) for 1T4E
  • Structure Factors (173 Kb)
  • Retrieve 1T4E in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1T4E from S2C, [Save to disk]
  • Re-refined 1t4e structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1T4E 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 1T4E
  • 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 1T4E, from MSDmotif at EBI
  • Fold representative 1t4e from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1t4e_A] [1t4e_B] [1t4e]
  • SWISS-PROT database: [Q00987]
  • Domain organization of [MDM2_HUMAN] by SWISSPFAM
  • Other resources with information on 1T4E
  • Community annotation for 1T4E 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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