1PDG

CRYSTAL STRUCTURE OF HUMAN PLATELET-DERIVED GROWTH FACTOR BB

• PDB DOI: https://doi.org/10.2210/pdb1PDG/pdb

• Classification: GROWTH FACTOR
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 1992-07-14 Released: 1994-01-31 
• Deposition Author(s): Oefner, C., Darcy, A.D., Winkler, F.K., Eggimann, B., Hosnag, M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Observed: 0.209 

Literature

Crystal structure of human platelet-derived growth factor BB.

Oefner, C., D'Arcy, A., Winkler, F.K., Eggimann, B., Hosang, M.

(1992) EMBO J 11: 3921-3926

• PubMed: 1396586 
• DOI: https://doi.org/10.1002/j.1460-2075.1992.tb05485.x
• Primary Citation of Related Structures:  
  1PDG


• PubMed Abstract: 
  

  The crystal structure of the homodimeric BB isoform of human recombinant platelet-derived growth factor (PDGF-BB) has been determined by X-ray analysis to 3.0 A resolution. The polypeptide chain is folded into two highly twisted antiparallel pairs of beta-strands and contains an unusual knotted arrangement of three intramolecular disulfide bonds. Dimerization leads to the clustering of three surface loops at each end of the elongated dimer, which most probably form the receptor recognition sites.

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Organizational Affiliation: 

Department of Pharmaceutical Research--New Technologies, F. Hoffmann-La Roche Ltd., Basel, Switzerland.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 36.94 kDa 
• Atom Count: 2,035 
• Modelled Residue Count: 256 
• Deposited Residue Count: 327 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
PLATELET-DERIVED GROWTH FACTOR BB	A, B, C	109	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P01127 (Homo sapiens) Explore P01127  Go to UniProtKB:  P01127
PHAROS:  P01127 GTEx:  ENSG00000100311

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Observed: 0.209 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 147.3	α = 90
b = 31.8	β = 98.7
c = 90.1	γ = 90

Software Package:

Software Name	Purpose
PROLSQ	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 1994-01-31 
Deposition Author(s): Oefner, C., Darcy, A.D., Winkler, F.K., Eggimann, B., Hosnag, M.

Revision History  

• Version 1.0: 1994-01-31
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-11-29
  Changes: Derived calculations, Other