4WEE

High-resolution structure of Synaptotagmin 1 C2A

• PDB DOI: https://doi.org/10.2210/pdb4WEE/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-09-09 Released: 2014-10-01 
• Deposition Author(s): Sutton, R.B., Fuson, K.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.89 Å
• R-Value Free: 0.164 
• R-Value Work: 0.149 
• R-Value Observed: 0.150 

Starting Model: experimental

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 1RSY

Literature

High-resolution structure of Synaptotagmin 1 C2A

Sutton, R.B.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 16.45 kDa 
• Atom Count: 1,544 
• Modelled Residue Count: 135 
• Deposited Residue Count: 144 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Synaptotagmin-1	A	144	Rattus norvegicus	Mutation(s): 0  Gene Names: Syt1
UniProt
Find proteins for P21707 (Rattus norvegicus) Explore P21707  Go to UniProtKB:  P21707

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	I [auth A], J [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
NA	B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A], H [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.89 Å
• R-Value Free: 0.164 
• R-Value Work: 0.149 
• R-Value Observed: 0.150 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.738	α = 90
b = 38.547	β = 97.94
c = 44.295	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
SCALEPACK	data scaling
PHASER	phasing
Coot	model building
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-10-01 
Deposition Author(s): Sutton, R.B., Fuson, K.L.

Revision History  

• Version 1.0: 2014-10-01
  Type: Initial release
  
• Version 1.1: 2015-09-30
  Changes: Database references, Other
• Version 1.2: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description