Biological Assembly 1  

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

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 6.79 kDa 
• Atom Count: 475 
• Modelled Residue Count: 57 
• Deposited Residue Count: 57 
• Unique protein chains: 1

6BV7

NMR structure of Sodium/Calcium Exchanger 1 (NCX1) Two-helix Bundle (THB) domain

• PDB DOI: 10.2210/pdb6BV7/pdb
• BMRB: 30379

• Classification: MEMBRANE PROTEIN
• Organism(s): Canis lupus familiaris
• Expression System: Escherichia coli K-12
• Mutation(s): No 


• Deposited: 2017-12-12 Released: 2018-06-20 
• Deposition Author(s): Yuan, J., Yuan, C., Bruschweiler, R.
• Funding Organization(s): National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

The Intracellular Loop of the Na+/Ca2+Exchanger Contains an "Awareness Ribbon"-Shaped Two-Helix Bundle Domain.

Yuan, J., Yuan, C., Xie, M., Yu, L., Bruschweiler-Li, L., Bruschweiler, R.

(2018) Biochemistry 57: 5096-5104

• PubMed: 29898361 
• DOI: 10.1021/acs.biochem.8b00300
• Primary Citation of Related Structures:  
  6BV7


• PubMed Abstract: 
  

The Na ⁺ /Ca ²⁺ exchanger (NCX) is a ubiquitous single-chain membrane protein that plays a major role in regulating the intracellular Ca ²⁺ homeostasis by the counter transport of Na ⁺ and Ca ²⁺ across the cell membrane. Other than its prokaryotic counterpart, which contains only the transmembrane domain and is self-sufficient as an active ion transporter, the eukaryotic NCX protein possesses in addition a large intracellular loop that senses intracellular calcium signals and controls the activation of ion transport across the membrane. This provides a necessary layer of regulation for the more complex function of eukaryotic cells. The Ca ²⁺ sensor in the intracellular loop is known as the Ca ²⁺ -binding domain (CBD12). However, how the signaling of the allosteric intracellular Ca ²⁺ binding propagates and results in transmembrane ion transportation still lacks a detailed explanation. Further structural and dynamics characterization of the intracellular loop flanking both sides of CBD12 is therefore imperative. Here, we report the identification and characterization of another structured domain that is N-terminal to CBD12 in the intracellular loop using solution nuclear magnetic resonance (NMR) spectroscopy. The atomistic structure of this domain reveals that two tandem long α-helices, connected by a short linker, form a stable crossover two-helix bundle (THB), resembling an "awareness ribbon". Considering the highly conserved amino acid sequence of the THB domain, the detailed structural and dynamics properties of the THB domain will be common among NCXs from different species and will contribute toward the understanding of the regulatory mechanism of eukaryotic Na ⁺ /Ca ²⁺ exchangers.

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Organizational Affiliation: 

Department of Biological Chemistry and Pharmacology , The Ohio State University , Columbus , Ohio 43210 , United States.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sodium/calcium exchanger 1	A	57	Canis lupus familiaris	Mutation(s): 0  Gene Names: SLC8A1, NCX1
UniProt
Find proteins for P23685 (Canis lupus familiaris) Explore P23685  Go to UniProtKB:  P23685

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 6BV7 Olderado

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-12-12 
• Released Date: 2018-06-20 
Deposition Author(s): Yuan, J., Yuan, C., Bruschweiler, R.

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Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	MCB-1715505

Revision History  

• Version 1.0: 2018-06-20
  Type: Initial release
  
• Version 1.1: 2018-06-27
  Changes: Data collection, Database references
• Version 1.2: 2018-07-18
  Changes: Data collection, Database references
• Version 1.3: 2018-09-05
  Changes: Data collection, Database references
• Version 1.4: 2019-02-20
  Changes: Author supporting evidence, Data collection
• Version 1.5: 2019-11-27
  Changes: Author supporting evidence, Data collection