Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 6-mer - A2B2C2 Pseudo Symmetry: Cyclic - C2  (3D View)
Pseudo Stoichiometry: Hetero 6-mer - A4B2 

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

Macromolecule Content

• Total Structure Weight: 134.41 kDa 
• Atom Count: 8549 
• Residue Count: 1089 
• Unique protein chains: 3

1SGF

CRYSTAL STRUCTURE OF 7S NGF: A COMPLEX OF NERVE GROWTH FACTOR WITH FOUR BINDING PROTEINS (SERINE PROTEINASES)

• DOI: 10.2210/pdb1SGF/pdb

• Classification: GROWTH FACTOR
• Organism(s): Mus musculus
• Mutation(s): No 


• Deposited: 1997-08-08 Released: 1998-05-27 
• Deposition Author(s): Bax, B.D.V., Blundell, T.L., Murray-Rust, J., Mcdonald, N.Q.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.15 Å
• R-Value Free: 0.282 
• R-Value Work: 0.246 
• R-Value Observed: 0.246 

Literature

Structure of mouse 7S NGF: a complex of nerve growth factor with four binding proteins.

Bax, B., Blundell, T.L., Murray-Rust, J., McDonald, N.Q.

(1997) Structure 5: 1275-1285

• PubMed: 9351801 
• DOI: 10.1016/s0969-2126(97)00280-3
• Primary Citation of Related Structures:  
  1SGF


• PubMed Abstract: 
  

Nerve growth factor (NGF) is a neurotrophic factor that promotes the differentiation and survival of certain populations of neurons in the central and peripheral nervous systems. 7S NGF is an alpha 2 beta 2 gamma 2 complex in which the beta-NGF dimer (the active neurotrophin) is associated with two alpha-NGF and two gamma-NGF subunits, which belong to the glandular kallikrein family of serine proteinases. The gamma-NGF subunit is an active serine proteinase capable of processing the precursor form of beta-NGF, whereas alpha-NGF is an inactive serine proteinase. The structure of 7S NGF could be used as a starting point to design inhibitors that prevent NGF binding to its receptors, as a potential treatment of neurodegenerative diseases.

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Related Citations: 

• Crystallization and Characterization of the High Molecular Weight Form of Nerve Growth Factor (7 S Ngf)
  Mcdonald, N.Q., Blundell, T.L.
  (1991) J Mol Biol 219: 595

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Organizational Affiliation: 

Department of Crystallography, Birkbeck College, London, UK. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NERVE GROWTH FACTOR	A, X	240	Mus musculus	Mutation(s): 0  Gene Names: Klk1b4, Klk-4, Klk4, Ngfa EC: 3.4.21.35
Find proteins for P00757 (Mus musculus) Explore P00757  Go to UniProtKB:  P00757

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
NERVE GROWTH FACTOR	B, Y	118	Mus musculus	Mutation(s): 0  Gene Names: Ngf, Ngfb EC: 3.4.21.35
Find proteins for P01139 (Mus musculus) Explore P01139  Go to UniProtKB:  P01139

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
NERVE GROWTH FACTOR	G, Z	237	Mus musculus	Mutation(s): 0  Gene Names: Klk1b3, Klk-3, Klk3, Ngfg EC: 3.4.21.35
Find proteins for P00756 (Mus musculus) Explore P00756  Go to UniProtKB:  P00756

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	C, D	2		N-Glycosylation

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	A, X	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
ZN	A, X	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.15 Å
• R-Value Free: 0.282 
• R-Value Work: 0.246 
• R-Value Observed: 0.246 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.68	α = 90
b = 96.59	β = 90
c = 147	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
ROTAVATA/AGROVATA	data reduction
TFFC	model building
X-PLOR	model building
X-PLOR	refinement
CCP4	data scaling
ROTAVATA	data scaling
TFFC	phasing
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1997-08-08 
• Released Date: 1998-05-27 
Deposition Author(s): Bax, B.D.V., Blundell, T.L., Murray-Rust, J., Mcdonald, N.Q.

Revision History 

• Version 1.0: 1998-05-27
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Refinement description, Structure summary