1UB9

Structure of the transcriptional regulator homologue protein from Pyrococcus horikoshii OT3

• PDB DOI: https://doi.org/10.2210/pdb1UB9/pdb

• Classification: TRANSCRIPTION
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-04-03 Released: 2004-05-04 
• Deposition Author(s): Okada, U., Sakai, N., Tajika, Y., Yao, M., Watanabe, N., Tanaka, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.242 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.220 (DCC) 

Literature

Structural analysis of the transcriptional regulator homolog protein from Pyrococcus horikoshii OT3.

Okada, U., Sakai, N., Yao, M., Watanabe, N., Tanaka, I.

(2006) Proteins 63: 1084-1086

• PubMed: 16506234 
• DOI: https://doi.org/10.1002/prot.20913
• Primary Citation of Related Structures:  
  1UB9

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Organizational Affiliation: 

Division of Biological Sciences, Graduate School of Science, Hokkaido University, Sapporo, Japan.

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 PISA,PQS (software)

Macromolecule Content

• Total Structure Weight: 11.4 kDa 
• Atom Count: 856 
• Modelled Residue Count: 100 
• Deposited Residue Count: 100 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein PH1061	A	100	Pyrococcus horikoshii OT3	Mutation(s): 0  Gene Names: PH1061
UniProt
Find proteins for O58788 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58788  Go to UniProtKB:  O58788

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.242 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.220 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.159	α = 90
b = 45.159	β = 90
c = 96.175	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-05-04 
Deposition Author(s): Okada, U., Sakai, N., Tajika, Y., Yao, M., Watanabe, N., Tanaka, I.

Revision History  

• Version 1.0: 2004-05-04
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Source and taxonomy, Version format compliance
• Version 1.3: 2011-11-16
  Changes: Atomic model
• Version 1.4: 2023-12-27
  Changes: Data collection, Database references