Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 52972.30 
• Atom Count: 3478 
• Residue Count: 468 
• Unique protein chains: 1

2OO4

Structure of LNR-HD (Negative Regulatory Region) from human Notch 2

• DOI: 10.2210/pdb2OO4/pdb

• Classification: CELL CYCLESIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2007-01-25 Released: 2007-04-03 
• Deposition Author(s): Gordon, W.R., Vardar-Ulu, D., Histen, G., Sanchez-Irizarry, C., Aster, J.C., Blacklow, S.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.003 Å
• R-Value Free: 0.268 
• R-Value Work: 0.226 

Literature

Structural basis for autoinhibition of Notch

Gordon, W.R., Vardar-Ulu, D., Histen, G., Sanchez-Irizarry, C., Aster, J.C., Blacklow, S.C.

(2007) Nat.Struct.Mol.Biol. 14: 295-300

• PubMed: 17401372 
• DOI: 10.1038/nsmb1227


• PubMed Abstract: 
  

Notch receptors transmit signals between adjacent cells. Signaling is initiated when ligand binding induces metalloprotease cleavage of Notch within an extracellular negative regulatory region (NRR). We present here the X-ray structure of the human NOTCH2 NRR, which adopts an autoinhibited conformation. Extensive interdomain interactions within the NRR bury the metalloprotease site, showing that a substantial conformational movement is necessary to expose this site during activation by ligand. Leukemia-associated mutations in NOTCH1 probably release autoinhibition by destabilizing the conserved hydrophobic core of the NRR.

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Organizational Affiliation: 

Department of Pathology, Brigham and Women's Hospital and Harvard Medical School, 77 Ave. Louis Pasteur, Boston, Massachusetts 02115, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Neurogenic locus notch homolog protein 2	A, B	234	Homo sapiens	Mutation(s): 0  Gene Names: NOTCH2
Find proteins for Q04721 (Homo sapiens) Go to Gene View: NOTCH2 Go to UniProtKB:  Q04721

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
GOL	A, B	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CA	A, B	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.003 Å
• R-Value Free: 0.268 
• R-Value Work: 0.226 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 45.372	α = 90.00
b = 74.706	β = 90.00
c = 139.412	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data reduction
REFMAC	refinement
DENZO	data reduction
SHARP	phasing
PDB_EXTRACT	data extraction
SOLOMON	phasing
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-01-25 
• Released Date: 2007-04-03 
• Deposition Author(s): Gordon, W.R., Vardar-Ulu, D., Histen, G., Sanchez-Irizarry, C., Aster, J.C., Blacklow, S.C.

Revision History 

• Version 1.0: 2007-04-03
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Non-polymer description, Version format compliance
• Version 1.3: 2015-04-08
  Type: Database references
• Version 1.4: 2017-10-18
  Type: Refinement description