7WRK

Structure of hypothetical protein TTHA1873 from Thermus thermophilus

• PDB DOI: https://doi.org/10.2210/pdb7WRK/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Thermus thermophilus HB8
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2022-01-27 Released: 2022-03-09 
• Deposition Author(s): Yuvaraj, I., Santosh, K.C., Sekar, K.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.199 
• R-Value Work: 0.162 
• R-Value Observed: 0.164 

Literature

Structure of the hypothetical protein TTHA1873 from Thermus thermophilus.

Yuvaraj, I., Chaudhary, S.K., Jeyakanthan, J., Sekar, K.

(2022) Acta Crystallogr F Struct Biol Commun 78: 338-346

• PubMed: 36048084 
• DOI: https://doi.org/10.1107/S2053230X22008457
• Primary Citation of Related Structures:  
  7WRK, 7WWN, 7WWO


• PubMed Abstract: 
  

  The crystal structure of an uncharacterized hypothetical protein, TTHA1873 from Thermus thermophilus, has been determined by X-ray crystallography to a resolution of 1.78 Å using the single-wavelength anomalous dispersion method. The protein crystallized as a dimer in two space groups: P4 ₃ 2 ₁ 2 and P6 ₁ 22. Structural analysis of the hypothetical protein revealed that the overall fold of TTHA1873 has a β-sandwich jelly-roll topology with nine β-strands. TTHA1873 is a dimeric metal-binding protein that binds to two Ca ²⁺ ions per chain, with one on the surface and the other stabilizing the dimeric interface of the two chains. A structural homology search indicates that the protein has moderate structural similarity to one domain of cell-surface proteins or agglutinin receptor proteins. Red blood cells showed visible agglutination at high concentrations of the hypothetical protein.

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Organizational Affiliation: 

Department of Computational and Data Sciences, Indian Institute of Science, Bangalore 560 012, India.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 18.56 kDa 
• Atom Count: 1,308 
• Modelled Residue Count: 160 
• Deposited Residue Count: 176 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein TTHA1873	A	176	Thermus thermophilus HB8	Mutation(s): 0  Gene Names: TTHA1873
UniProt
Find proteins for Q5SH57 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SH57  Go to UniProtKB:  Q5SH57

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA (Subject of Investigation/LOI)	B [auth A], C [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.78 Å
• R-Value Free: 0.199 
• R-Value Work: 0.162 
• R-Value Observed: 0.164 
• Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.18	α = 90
b = 42.18	β = 90
c = 156.89	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
iMOSFLM	data reduction
Aimless	data scaling
CRANK2	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-03-09 
Deposition Author(s): Yuvaraj, I., Santosh, K.C., Sekar, K.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2022-03-09
  Type: Initial release
  
• Version 1.1: 2022-09-14
  Changes: Database references