Macromolecule Content

Total Structure Weight: 22.39 kDa
Atom Count: 3771
Modelled Residue Count: 207
Deposited Residue Count: 207
Unique protein chains: 1

7LJW

X-ray radiation damage series on Thaumatin at 277K, multi-conformer model, dataset 1

PDB DOI: 10.2210/pdb7LJW/pdb

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

Deposited: 2021-02-01 Released: 2022-02-23
Deposition Author(s): Yabukarski, F., Doukov, T., Herschlag, D.
Funding Organization(s): National Science Foundation (NSF, United States)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.22 Å
R-Value Free: 0.157
R-Value Work: 0.142
R-Value Observed: 0.143

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Damaged goods? Evaluating the impact of radiation damage on conformational heterogeneity in room temperature and cryo-cooled protein crystals

Yabukarski, F., Doukov, F., Mokhtari, D., Du, S., Herschlag, D.

To be published.

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Thaumatin I	A	207	Thaumatococcus daniellii	Mutation(s): 0
UniProt
Find proteins for P02883 (Thaumatococcus daniellii) Explore P02883 Go to UniProtKB: P02883
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P02883
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TLA Query on TLA Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	L(+)-TARTARIC ACID C₄ H₆ O₆ FEWJPZIEWOKRBE-JCYAYHJZSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.22 Å
R-Value Free: 0.157
R-Value Work: 0.142
R-Value Observed: 0.143
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.811	α = 90
b = 58.811	β = 90
c = 151.168	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Deposited Date: 2021-02-01
Released Date: 2022-02-23

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, United States)	United States	MCB-1714723

Revision History (Full details and data files)

Version 1.0: 2022-02-23
Type: Initial release

RCSB PDB is funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.