1PGR | pdb_00001pgr

2:2 COMPLEX OF G-CSF WITH ITS RECEPTOR

• PDB DOI: https://doi.org/10.2210/pdb1PGR/pdb

• Classification: CYTOKINE
• Organism(s): Homo sapiens, Mus musculus
• Expression System: Escherichia coli, Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 1999-03-08 Released: 2000-03-08 
• Deposition Author(s): Aritomi, M., Kunishima, N., Okamoto, T., Kuroki, R., Ota, Y., Morikawa, K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 
  0.281 (DCC) 
• R-Value Work: 
  0.317 (Depositor), 0.290 (DCC) 

Starting Model: experimental

Literature

Atomic 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.

(1999) Nature 401: 713-717

• PubMed: 10537111 
• DOI: https://doi.org/10.1038/44394
• Primary Citation Related Structures: 
  1CD9, 1PGR


• PubMed Abstract: 
  

  Granulocyte colony-stimulating factor (GCSF) is the principal growth factor regulating the maturation, proliferation and differentiation of the precursor cells of neutrophilic granulocytes and is used to treat neutropenia. GCSF is a member of the long-chain subtype of the class 1 cytokine superfamily, which includes growth hormone, erythropoietin, interleukin 6 and oncostatin M. Here we have determined the crystal structure of GCSF complexed to the BN-BC domains, the principal ligand-binding region of the GCSF receptor (GCSFR). The two receptor domains form a complex in a 2:2 ratio with the ligand, with a non-crystallographic pseudo-twofold axis through primarily the interdomain region and secondarily the BC domain. This structural view of a gp130-type receptor-ligand complex presents a new molecular basis for cytokine-receptor recognition.

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Organizational Affiliation: 
• Biomolecular Engineering Research Institute, Suita-city, Osaka, Japan.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 173.11 kDa 
• Atom Count: 11,424 
• Modeled Residue Count: 1,471 
• Deposited Residue Count: 1,560 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (GRANULOCYTE COLONY-STIMULATING FACTOR)	A, C, E, G	175	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P09919 (Homo sapiens) Explore P09919  Go to UniProtKB:  P09919
PHAROS:  P09919 GTEx:  ENSG00000108342

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
PROTEIN (G-CSF RECEPTOR)	B, D, F, H	215	Mus musculus	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P40223 (Mus musculus) Explore P40223  Go to UniProtKB:  P40223
IMPC:  MGI:1339755

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free:  0.281 (DCC) 
• R-Value Work:  0.317 (Depositor), 0.290 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 125.725	α = 90
b = 125.725	β = 90
c = 373.305	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
X-PLOR	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2000-03-08 
Deposition Author(s): Aritomi, M., Kunishima, N., Okamoto, T., Kuroki, R., Ota, Y., Morikawa, K.

Revision History  

• Version 1.0: 2000-03-08
  Type: Initial release
  
• Version 1.1: 2008-04-26
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-08-16
  Changes: Data collection, Database references, Refinement description
• Version 1.4: 2024-11-13
  Changes: Structure summary