1P9M Signaling Protein Cytokine date May 12, 2003
title Crystal Structure Of The Hexameric Human Il-6il-6 Alpha Receptorgp130 Complex
authors M.J.Boulanger, D.C.Chow, E.E.Brevnova, K.C.Garcia
compound source
Molecule: Interleukin-6 Receptor Beta Chain
Chain: A
Fragment: Extracellular Domains D1 - D3
Synonym: Il-6r-Beta, Interleukin 6 Signal Transducer, Membr Glycoprotein 130, Gp130, Oncostatin M Receptor, Cdw130, Cd1 Antigen;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il6st
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacgp67a

Molecule: Interleukin-6
Chain: B
Synonym: Il-6, B-Cell Stimulatory Factor 2, Bsf-2, Interfer Hybridoma Growth Factor;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il6 Or Ifnb2
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacgp67a

Molecule: Interleukin-6 Receptor Alpha Chain
Chain: C
Fragment: Extracellular Domains D2 - D3
Synonym: Il-6r-Alpha, Il-6r 1, Cd126 Antigen
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Il6r
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pacgp67a
symmetry Space Group: H 3 2
R_factor 0.282 R_Free 0.334
crystal
cell
length a length b length c angle alpha angle beta angle gamma
279.800 279.800 96.700 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.65 Å
Gene
Ontology
ChainFunctionProcessComponent
B


C


Primary referenceHexameric structure and assembly of the interleukin-6/IL-6 alpha-receptor/gp130 complex., Boulanger MJ, Chow DC, Brevnova EE, Garcia KC, Science 2003 Jun 27;300(5628):2101-4. PMID:12829785
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk]
  • Biological Unit Coordinates (1p9m.pdb1.gz) 205 Kb
  • CSU: Contacts of Structural Units for 1P9M
  • Likely Quarternary Molecular Structure file(s) for 1P9M
  • Retrieve 1P9M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1P9M from S2C, [Save to disk]
  • View 1P9M 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 1P9M
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 1P9M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1p9ma2, region A:102-196 [Jmol] [rasmolscript] [script source]
        - Domain d1p9ma3, region A:197-299 [Jmol] [rasmolscript] [script source]
        - Domain d1p9ma1, region A:2-101 [Jmol] [rasmolscript] [script source]
        - Domain d1p9mb_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1p9mc2, region C:196-296 [Jmol] [rasmolscript] [script source]
        - Domain d1p9mc1, region C:96-195 [Jmol] [rasmolscript] [script source]
  • Fold representative 1p9m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1p9m_A] [1p9m_C] [1p9m] [1p9m_B]
  • SWISS-PROT database: [P08887] [P40189] [P05231]
  • Domain organization of [IL6RA_HUMAN] [IL6RB_HUMAN] [IL6_HUMAN] by SWISSPFAM
  • Domains found in 1P9M: [FN3] [IL6 ] by SMART
  • Other resources with information on 1P9M
  • Community annotation for 1P9M 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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