5MJ3 Immune System date Nov 29, 2016
title Interleukin-23 Complex With An Antagonistic Alphabody, Cryst
authors J.Desmet, K.Verstraete, Y.Bloch, E.Lorent, Y.Wen, B.Devreese, K.Vandenbroucke, S.Loverix, T.Hettmann, S.Deroo, K.Somers, P.Hen I.Lasters, S.N.Savvides
compound source
Molecule: Interleukin-12 Subunit Beta
Chain: A
Synonym: Il-12b,Cytotoxic Lymphocyte Maturation Factor 40 K Subunit,Clmf P40,Il-12 Subunit P40,Nk Cell Stimulatory Fact 2,Nksf2;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il12b, Nksf2
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293t
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phlsec

Molecule: Interleukin-23 Subunit Alpha
Chain: B
Synonym: Il-23-A,Interleukin-23 Subunit P19,Il-23p19
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il23a, Sgrf, Unq2498pro5798
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293t
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phlsec

Molecule: Alphabody Ma12
Chain: C
Engineered: Yes

Organism_scientific: Synthetic Construct
Organism_taxid: 32630
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_variant: Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet16b
symmetry Space Group: P 1 21 1
R_factor 0.165 R_Free 0.198
crystal
cell
length a length b length c angle alpha angle beta angle gamma
56.960 56.740 100.070 90.00 99.73 90.00
method X-Ray Diffractionresolution 1.74 Å
ligand BMA, MAN, NA, NAG, PG4, PGE, YCM enzyme
note 5MJ3 supersedes 4OE8
Gene
Ontology
ChainFunctionProcessComponent
A
  • positive regulation of inter...
  • positive regulation of inter...

  • B
  • positive regulation of inter...
  • positive regulation of inter...

  • Primary referenceStructural basis of IL-23 antagonism by an Alphabody protein scaffold., Desmet J, Verstraete K, Bloch Y, Lorent E, Wen Y, Devreese B, Vandenbroucke K, Loverix S, Hettmann T, Deroo S, Somers K, Henderikx P, Lasters I, Savvides SN, Nat Commun. 2014 Oct 30;5:5237. doi: 10.1038/ncomms6237. PMID:25354530
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (273 Kb) [Save to disk]
  • Biological Unit Coordinates (5mj3.pdb1.gz) 264 Kb
  • LPC: Ligand-Protein Contacts for 5MJ3
  • CSU: Contacts of Structural Units for 5MJ3
  • Structure Factors (1002 Kb)
  • Retrieve 5MJ3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5MJ3 from S2C, [Save to disk]
  • Re-refined 5mj3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5MJ3 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 5MJ3
  • 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
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5mj3_C] [5mj3] [5mj3_A] [5mj3_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5MJ3
  • Community annotation for 5MJ3 at PDBWiki (http://pdbwiki.org)

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