1WV9 | pdb_00001wv9

Crystal Structure of Rhodanese Homolog TT1651 from an Extremely Thermophilic Bacterium Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb1WV9/pdb

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


• Deposited: 2004-12-12 Released: 2005-06-19 
• Deposition Author(s): Mizohata, E., Hattori, M., Tatsuguchi, A., Terada, T., Kuramitsu, S., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.258 (Depositor), 0.267 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.219 (DCC) 
• R-Value Observed: 
  0.215 (Depositor) 

Literature

Crystal structure of the single-domain rhodanese homologue TTHA0613 from Thermus thermophilus HB8

Hattori, M., Mizohata, E., Tatsuguchi, A., Shibata, R., Kishishita, S., Murayama, K., Terada, T., Kuramitsu, S., Shirouzu, M., Yokoyama, S.

(2006) Proteins 64: 284-287

• PubMed: 16680676 
• DOI: https://doi.org/10.1002/prot.20937
• Primary Citation Related Structures: 
  1WV9

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Organizational Affiliation: 
• RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 20.96 kDa 
• Atom Count: 1,465 
• Modeled Residue Count: 173 
• Deposited Residue Count: 188 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhodanese Homolog TT1651	A, B	94	Thermus thermophilus	Mutation(s): 2
UniProt
Find proteins for Q5SKN0 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q5SKN0  Go to UniProtKB:  Q5SKN0

Small Molecules

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: 2.00 Å
• R-Value Free:  0.258 (Depositor), 0.267 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.219 (DCC) 
• R-Value Observed: 0.215 (Depositor) 

Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.218	α = 90
b = 45.218	β = 90
c = 79.51	γ = 120

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-06-19 
Deposition Author(s): Mizohata, E., Hattori, M., Tatsuguchi, A., Terada, T., Kuramitsu, S., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2005-06-19
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary