Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 65352.56 
• Atom Count: 4520 
• Residue Count: 568 
• Unique protein chains: 1

2R83

Crystal structure analysis of human synaptotagmin 1 C2A-C2B

• DOI: 10.2210/pdb2R83/pdb

• Classification: ENDOCYTOSIS EXOCYTOSIS
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)


• Deposited: 2007-09-10 Released: 2008-02-12 
• Deposition Author(s): Sutton, R.B., Fuson, K.L., Montes, M., Robert, J.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.253 
• R-Value Work: 0.230 

Literature

Structure of human synaptotagmin 1 C2AB in the absence of Ca2+ reveals a novel domain association.

Fuson, K.L., Montes, M., Robert, J.J., Sutton, R.B.

(2007) Biochemistry 46: 13041-13048

• PubMed: 17956130 
• DOI: 10.1021/bi701651k


• PubMed Abstract: 
  

Release of neurotransmitter from synaptic vesicles requires the Ca2+/phospholipid-binding protein synaptotagmin 1. There is considerable evidence that cooperation between the tandem C2 domains of synaptotagmin is a requirement of regulated exocytosis; however, high-resolution structural evidence for this interaction has been lacking. The 2.7 A crystal structure of the cytosolic domains of human synaptotagmin 1 in the absence of Ca2+ reveals a novel closed conformation of the protein. The shared interface between C2A and C2B is stabilized by a network of interactions between residues on the C-terminal alpha-helix of the C2B domain and residues on loops 1-3 of the Ca2+-binding region of C2A. These interactions alter the overall shape of the Ca2+-binding pocket of C2A, but not that of C2B. Thus, synaptotagmin 1 C2A-C2B may utilize a novel regulatory mechanism whereby one C2 domain could regulate the other until an appropriate triggering event decouples them.

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biology, The University of Texas Medical Branch, Galveston, Texas 77555, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Synaptotagmin-1	A, B	284	Homo sapiens	Mutation(s): 0  Gene Names: SYT1 (SVP65, SYT)
Find proteins for P21579 (Homo sapiens) Go to Gene View: SYT1 Go to UniProtKB:  P21579

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
CL	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.7 Å
• R-Value Free: 0.253 
• R-Value Work: 0.230 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 82.372	α = 90.00
b = 86.310	β = 90.00
c = 147.186	γ = 90.00

Software Package:

Software Name	Purpose
CNS	refinement
SCALA	data scaling
ADSC	data collection
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-09-10 
• Released Date: 2008-02-12 
• Deposition Author(s): Sutton, R.B., Fuson, K.L., Montes, M., Robert, J.J.

Revision History 

• Version 1.0: 2008-02-12
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Version format compliance
• Version 1.2: 2018-01-24
  Type: Structure summary