Biological Assembly 1  

 3D View: Structure | Validation Report | Predict Membrane 

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 8.48 kDa 
• Atom Count: 596 
• Modelled Residue Count: 76 
• Deposited Residue Count: 76 
• Unique protein chains: 1

2KPF

Spatial structure of the dimeric transmembrane domain of glycophorin A in bicelles soluton

• DOI: 10.2210/pdb2KPF/pdb

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


• Deposited: 2009-10-13 Released: 2010-09-22 
• Deposition Author(s): Mineev, K.S., Bocharov, E.V., Goncharuk, M.V., Arseniev, A.S., Volynsky, P.E., Efremov, R.G.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: target function 

Literature

Dimeric structure of the transmembrane domain of glycophorin a in lipidic and detergent environments.

Mineev, K.S., Bocharov, E.V., Volynsky, P.E., Goncharuk, M.V., Tkach, E.N., Ermolyuk, Y.S., Schulga, A.A., Chupin, V.V., Maslennikov, I.V., Efremov, R.G., Arseniev, A.S.

(2011) Acta Naturae 3: 90-98

• PubMed: 22649687 
• Primary Citation of Related Structures:  
  2KPE, 2KPF


• PubMed Abstract: 
  

Specific interactions between transmembrane α-helices, to a large extent, determine the biological function of integral membrane proteins upon normal development and in pathological states of an organism. Various membrane-like media, partially those mimicking the conditions of multicomponent biological membranes, are used to study the structural and thermodynamic features that define the character of oligomerization of transmembrane helical segments. The choice of the composition of the membrane-mimicking medium is conducted in an effort to obtain a biologically relevant conformation of the protein complex and a sample that would be stable enough to allow to perform a series of long-term experiments with its use. In the present work, heteronuclear NMR spectroscopy and molecular dynamics simulations were used to demonstrate that the two most widely used media (detergent DPC micelles and lipid DMPC/DHPC bicelles) enable to perform structural studies of the specific interactions between transmembrane α-helices by the example of dimerizing the transmembrane domain of the bitopic protein glycophorin A. However, a number of peculiarities place lipid bicelles closer to natural lipid bilayers in terms of their physical properties.

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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
Glycophorin-A	A, B	38	Homo sapiens	Mutation(s): 0  Gene Names: GYPA, GPA Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P02724 (Homo sapiens) Explore P02724  Go to UniProtKB:  P02724
PHAROS:  P02724 GTEx:  ENSG00000170180

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 200 
• Conformers Submitted: 20 
• Selection Criteria: target function 
• OLDERADO: 2KPF Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-10-13 
• Released Date: 2010-09-22 
Deposition Author(s): Mineev, K.S., Bocharov, E.V., Goncharuk, M.V., Arseniev, A.S., Volynsky, P.E., Efremov, R.G.

Revision History  

• Version 1.0: 2010-09-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-07-25
  Changes: Database references