2VU7 | pdb_00002vu7

Atomic resolution (1.08 A) structure of purified thaumatin I grown in sodium meso-tartrate at 4 C

• PDB DOI: https://doi.org/10.2210/pdb2VU7/pdb

• Classification: PLANT PROTEIN
• Organism(s): Thaumatococcus daniellii
• Mutation(s): No 


• Deposited: 2008-05-21 Released: 2009-07-14 
• Deposition Author(s): Jakoncic, J., Asherie, N., Ginsberg, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free: 
  0.143 (Depositor), 0.145 (DCC) 
• R-Value Work: 
  0.128 (Depositor), 0.130 (DCC) 
• R-Value Observed: 
  0.129 (Depositor) 

Literature

Tartrate Chirality Determines Thaumatin Crystal Habit

Asherie, N., Jakoncic, J., Ginsberg, C., Greenbaum, A., Stojanoff, V., Hrnjez, B.J., Blass, S., Berger, J.

(2009) Cryst Growth Des 9: 4189

• DOI: https://doi.org/10.1021/CG900465H

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 22.65 kDa 
• Atom Count: 1,987 
• Modelled Residue Count: 207 
• Deposited Residue Count: 207 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thaumatin-1	A	207	Thaumatococcus daniellii	Mutation(s): 0
UniProt
Find proteins for P02883 (Thaumatococcus daniellii) Explore P02883  Go to UniProtKB:  P02883

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SRT	B [auth A], C [auth A]	S,R MESO-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-XIXRPRMCSA-N
EDO	D [auth A], E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.08 Å
• R-Value Free:  0.143 (Depositor), 0.145 (DCC) 
• R-Value Work:  0.128 (Depositor), 0.130 (DCC) 
• R-Value Observed: 0.129 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.808	α = 90
b = 63.91	β = 90
c = 71.683	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-07-14 
Deposition Author(s): Jakoncic, J., Asherie, N., Ginsberg, C.

Revision History  

• Version 1.0: 2009-07-14
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-02-20
  Changes: Data collection, Database references, Experimental preparation, Other, Source and taxonomy, Structure summary
• Version 1.4: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Other, Structure summary