7FBY | pdb_00007fby

Crystal Structure of PH0140 from Pyrococcus horikosii OT3

• PDB DOI: https://doi.org/10.2210/pdb7FBY/pdb

• Classification: TRANSCRIPTION
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-07-13 Released: 2022-07-20 
• Deposition Author(s): Richard, M., Ahmad, M., Pal, R.K., Biswal, B.K., Jeyakanthan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.173 (Depositor), 0.180 (DCC) 

Starting Model: experimental

Literature

Crystal Structure of PH0140 from Pyrococcus horikosii OT3

Richard, M., Ahmad, M., Pal, R.K., Biswal, B.K., Jeyakanthan, J.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D4  (Explore in 3D)
Global Stoichiometry: Homo 8-mer - A8 

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

Macromolecule Content 

• Total Structure Weight: 19.04 kDa 
• Atom Count: 1,347 
• Modeled Residue Count: 153 
• Deposited Residue Count: 164 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulatory protein	A	164	Pyrococcus horikoshii OT3	Mutation(s): 0  Gene Names: PH0140
UniProt
Find proteins for O57880 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O57880  Go to UniProtKB:  O57880

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ILE (Subject of Investigation/LOI)	B [auth A]	ISOLEUCINE C6 H13 N O2 AGPKZVBTJJNPAG-WHFBIAKZSA-N
EDO	C [auth A], D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.212 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.173 (Depositor), 0.180 (DCC) 

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.79	α = 90
b = 102.79	β = 90
c = 69.183	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2022-07-20 
Deposition Author(s): Richard, M., Ahmad, M., Pal, R.K., Biswal, B.K., Jeyakanthan, J.

Revision History  

• Version 1.0: 2022-07-20
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description