1KYT | pdb_00001kyt

Crystal Structure of Thermoplasma acidophilum 0175 (APC014)

• PDB DOI: https://doi.org/10.2210/pdb1KYT/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Thermoplasma acidophilum
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2002-02-05 Released: 2003-01-21 
• Deposition Author(s): Kim, Y., Joachimiak, A., Edwards, A., Xu, X., Pennycooke, M., Gu, J., Cheung, F., Christendat, D., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.246 (Depositor), 0.247 (DCC) 
• R-Value Work: 
  0.224 (Depositor), 0.226 (DCC) 
• R-Value Observed: 
  0.226 (Depositor) 

Literature

Crystal Structure of Thermoplasma acidophilum 0175 (APC014)

Kim, Y., Joachimiak, A., Edwards, A., Xu, X., Pennycooke, M., Gu, J., Cheung, F., Christendat, D.

To be published.

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 52.29 kDa 
• Atom Count: 4,085 
• Modeled Residue Count: 450 
• Deposited Residue Count: 454 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
hypothetical protein TA0175	A, B	227	Thermoplasma acidophilum	Mutation(s): 10  Gene Names: TA0175 EC: 3.1.3.18
UniProt
Find proteins for Q9HLQ2 (Thermoplasma acidophilum (strain ATCC 25905 / DSM 1728 / JCM 9062 / NBRC 15155 / AMRC-C165)) Explore Q9HLQ2  Go to UniProtKB:  Q9HLQ2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	C [auth A], D [auth A], E [auth A], F [auth A], G [auth B], H [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free:  0.246 (Depositor), 0.247 (DCC) 
• R-Value Work:  0.224 (Depositor), 0.226 (DCC) 
• R-Value Observed: 0.226 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.526	α = 90
b = 99.316	β = 90
c = 113.886	γ = 90

Software Package:

Software Name	Purpose
d*TREK	data scaling
HKL-2000	data collection
SCALEPACK	data scaling
CNS	refinement
CrystalClear	data reduction
HKL-2000	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-01-21 
Deposition Author(s): Kim, Y., Joachimiak, A., Edwards, A., Xu, X., Pennycooke, M., Gu, J., Cheung, F., Christendat, D., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2003-01-21
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2021-10-27
  Changes: Database references, Derived calculations
• Version 1.5: 2024-10-30
  Changes: Data collection, Structure summary