2HUN

Crystal structure of hypothetical protein PH0414 from Pyrococcus horikoshii OT3

• PDB DOI: https://doi.org/10.2210/pdb2HUN/pdb

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


• Deposited: 2006-07-26 Released: 2007-01-26 
• Deposition Author(s): Yamamoto, H., Kunishima, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.232 
• R-Value Work: 0.204 
• R-Value Observed: 0.204 

Starting Model: experimental

Literature

Crystal structure of hypothetical protein PH0414 from Pyrococcus horikoshii OT3

Yamamoto, H., Kunishima, N.

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 PISA (software)

Macromolecule Content

• Total Structure Weight: 79.29 kDa 
• Atom Count: 5,911 
• Modelled Residue Count: 654 
• Deposited Residue Count: 672 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
336aa long hypothetical dTDP-glucose 4,6-dehydratase	A, B	336	Pyrococcus horikoshii OT3	Mutation(s): 0  EC: 4.2.1.46
UniProt
Find proteins for O58151 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58151  Go to UniProtKB:  O58151

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAD	C [auth A], D [auth B]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C21 H27 N7 O14 P2 BAWFJGJZGIEFAR-NNYOXOHSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.07 Å
• R-Value Free: 0.232 
• R-Value Work: 0.204 
• R-Value Observed: 0.204 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.892	α = 90
b = 73.677	β = 128.995
c = 100.222	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-01-26 
Deposition Author(s): Yamamoto, H., Kunishima, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-01-26
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description