Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 4.45 kDa 
• Atom Count: 310 
• Modelled Residue Count: 43 
• Deposited Residue Count: 43 
• Unique protein chains: 1

2LLM

Structure of amyloid precursor protein's transmembrane domain

• PDB DOI: 10.2210/pdb2LLM/pdb
• BMRB: 18080

• Classification: PROTEIN FIBRIL
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 
• Membrane Protein: Yes  OPMPDBTMMemProtMD


• Deposited: 2011-11-15 Released: 2012-06-20 
• Deposition Author(s): Nadezhdin, K.D., Bocharova, O.V., Bocharov, E.V., Arseniev, A.S.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 

Literature

Structural and dynamic study of the transmembrane domain of the amyloid precursor protein.

Nadezhdin, K.D., Bocharova, O.V., Bocharov, E.V., Arseniev, A.S.

(2011) Acta Naturae 3: 69-76

• PubMed: 22649674 
• Primary Citation of Related Structures:  
  2LLM


• PubMed Abstract: 
  

Alzheimer's disease affects people all over the world, regardless of nationality, gender or social status. An adequate study of the disease requires essential understanding of the molecular fundamentals of the pathogenesis. The amyloid β-peptide, which forms amyloid plaques in the brain of people with Alzheimer's disease, is the product of sequential cleavage of a single-span membrane amyloid precursor protein (APP). More than half of the APP mutations found to be associated with familial forms of Alzheimer's disease are located in its transmembrane domain. The pathogenic mutations presumably affect the structural-dynamic properties of the APP transmembrane domain by changing its conformational stability and/or lateral dimerization. In the present study, the structure and dynamics of the recombinant peptide corresponding to the APP fragment, Gln686-Lys726, which comprises the APP transmembrane domain with an adjacent N-terminal juxtamembrane sequence, were determined in the membrane mimetic environment composed of detergent micelles using NMR spectroscopy. The structure obtained in dodecylphosphocholine micelles consists of two α-helices: a short surface-associated juxtamembrane helix (Lys687-Asp694) and a long transmembrane helix (Gly700-Leu723), both connected via a mobile loop region. A minor bend of the transmembrane α-helix is observed near the paired residues Gly708-Gly709. A cholesterol-binding hydrophobic cavity is apparently formed under the loop region, where the juxtamembrane α-helix comes into contact with the membrane surface near the N-terminus of the transmembrane α-helix.

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Organizational Affiliation: 

Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Amyloid beta A4 protein	A	43	Homo sapiens	Mutation(s): 0  Gene Names: APP, A4, AD1 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P05067 (Homo sapiens) Explore P05067  Go to UniProtKB:  P05067
PHAROS:  P05067

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 20 
• Conformers Submitted: 20 
• Selection Criteria: structures with the least restraint violations 
• OLDERADO: 2LLM Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-11-15 
• Released Date: 2012-06-20 
Deposition Author(s): Nadezhdin, K.D., Bocharova, O.V., Bocharov, E.V., Arseniev, A.S.

Revision History  

• Version 1.0: 2012-06-20
  Type: Initial release