1CD9 Cytokine date Mar 08, 1999
title 2:2 Complex Of G-Csf With Its Receptor
authors M.Aritomi, N.Kunishima, T.Okamoto, R.Kuroki, Y.Ota, K.Morikawa
compound source
Molecule: Protein (Granulocyte Colony-Stimulating Factor)
Chain: A, C
Synonym: G-Csf
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Cellular_location: Extracellular
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid

Molecule: Protein (G-Csf Receptor)
Chain: B, D
Fragment: Crh Region (Bn Domain:D1-108, Bc Domain:D109-215)
Synonym: G-Csf-R
Engineered: Yes
Other_details: N-Linked Glycosylation At B10

Organism_scientific: Mus Musculus
Organism_common: House Mouse
Organism_taxid: 10090
Cellular_location: Cellular Membrane
Expression_system: Spodoptera Frugiperda
Expression_system_common: Fall Armyworm
Expression_system_taxid: 7108
Expression_system_cell_line: Sf-9
Expression_system_cellular_location: Nucleus
Expression_system_vector_type: Virus
Expression_system_vector: Autographa Californica Nuclear Polyhedrosis Virus
symmetry Space Group: I 41 2 2
R_factor 0.237 R_Free 0.319
length a length b length c angle alpha angle beta angle gamma
125.467 125.467 372.771 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand NAG enzyme
note 1CD9 is a representative structure
related structures by homologous chain: 1BGD, 1GCF, 1GNC, 1HNC, 3GTU
A, C

Primary referenceAtomic structure of the GCSF-receptor complex showing a new cytokine-receptor recognition scheme., Aritomi M, Kunishima N, Okamoto T, Kuroki R, Ota Y, Morikawa K, Nature 1999 Oct 14;401(6754):713-7. PMID:10537111
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk]
  • Biological Unit Coordinates (1cd9.pdb1.gz) 122 Kb
  • LPC: Ligand-Protein Contacts for 1CD9
  • CSU: Contacts of Structural Units for 1CD9
  • Likely Quarternary Molecular Structure file(s) for 1CD9
  • Structure Factors (242 Kb)
  • Retrieve 1CD9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1CD9 from S2C, [Save to disk]
  • Re-refined 1cd9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1CD9 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 1CD9
  • 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 1CD9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1cd9a_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1cd9b1, region B:1-107 [Jmol] [rasmolscript] [script source]
        - Domain d1cd9b2, region B:108-213 [Jmol] [rasmolscript] [script source]
        - Domain d1cd9c_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1cd9d2, region D:108-213 [Jmol] [rasmolscript] [script source]
        - Domain d1cd9d1, region D:2-107 [Jmol] [rasmolscript] [script source]
  • Fold representative 1cd9 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: [1cd9_A] [1cd9_C] [1cd9] [1cd9_B] [1cd9_D]
  • SWISS-PROT database: [P40223] [P09919]
  • Domain organization of [CSF3R_MOUSE] [CSF3_HUMAN] by SWISSPFAM
  • Domain found in 1CD9: [IL6 ] by SMART
  • Other resources with information on 1CD9
  • Community annotation for 1CD9 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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