3IJJ Isomerase date Aug 04, 2009
title Ternary Complex Of Macrophage Migration Inhibitory Factor (M Both To 4-Hydroxyphenylpyruvate And To The Allosteric Inhib Av1013 (R-Stereoisomer)
authors G.V.Crichlow, Y.Cho, E.J.Lolis
compound source
Molecule: Macrophage Migration Inhibitory Factor
Chain: A, B, C
Synonym: Mif, Phenylpyruvate Tautomerase, L-Dopachrome Taut L-Dopachrome Isomerase, Glycosylation-Inhibiting Factor, Gi
Ec: 5.3.2.1, 5.3.3.12
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Glif, Mif, Mmif
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11b
symmetry Space Group: P 21 21 21
R_factor 0.162 R_Free 0.185
crystal
cell
length a length b length c angle alpha angle beta angle gamma
67.236 67.908 87.329 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.25 Å
ligand AVR, CL, EN1, ENO enzyme Isomerase E.C.5.3.2.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceAllosteric inhibition of macrophage migration inhibitory factor revealed by ibudilast., Cho Y, Crichlow GV, Vermeire JJ, Leng L, Du X, Hodsdon ME, Bucala R, Cappello M, Gross M, Gaeta F, Johnson K, Lolis EJ, Proc Natl Acad Sci U S A. 2010 Jun 22;107(25):11313-8. Epub 2010 Jun 8. PMID:20534506
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (130 Kb) [Save to disk]
  • Biological Unit Coordinates (3ijj.pdb1.gz) 125 Kb
  • LPC: Ligand-Protein Contacts for 3IJJ
  • CSU: Contacts of Structural Units for 3IJJ
  • Structure Factors (1380 Kb)
  • Retrieve 3IJJ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IJJ from S2C, [Save to disk]
  • Re-refined 3ijj structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IJJ 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 3IJJ
  • 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 3IJJ, from MSDmotif at EBI
  • Fold representative 3ijj from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ijj_C] [3ijj_B] [3ijj_A] [3ijj]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3IJJ
  • Community annotation for 3IJJ 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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