2PHC | pdb_00002phc

Crystal structure of conserved uncharacterized protein PH0987 from Pyrococcus horikoshii

• PDB DOI: https://doi.org/10.2210/pdb2PHC/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Pyrococcus horikoshii OT3
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-04-10 Released: 2007-05-08 
• Deposition Author(s): Swindell II, J.T., Chen, L., Zhu, J., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Fu, Z.-Q., Chrzas, J., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG), RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.29 Å
• R-Value Free: 
  0.294 (Depositor), 0.274 (DCC) 
• R-Value Work: 
  0.239 (Depositor) 
• R-Value Observed: 
  0.242 (Depositor) 

Literature

Crystal structure of conserved uncharacterized protein PH0987 from Pyrococcus horikoshii.

Swindell II, J.T., Chen, L., Zhu, J., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Fu, Z.-Q., Chrzas, J., Rose, J.P., Wang, B.-C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 25.32 kDa 
• Atom Count: 1,781 
• Modeled Residue Count: 216 
• Deposited Residue Count: 225 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein PH0987	A [auth B]	225	Pyrococcus horikoshii OT3	Mutation(s): 0  Gene Names: PH0987
UniProt
Find proteins for O58715 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O58715  Go to UniProtKB:  O58715

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.29 Å
• R-Value Free:  0.294 (Depositor), 0.274 (DCC) 
• R-Value Work:  0.239 (Depositor) 
• R-Value Observed: 0.242 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.848	α = 90
b = 105.848	β = 90
c = 51.869	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
SERGUI	data collection
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-08 
Deposition Author(s): Swindell II, J.T., Chen, L., Zhu, J., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Fu, Z.-Q., Chrzas, J., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG), RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-05-08
  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: 2017-09-13
  Changes: Advisory, Refinement description
• Version 1.4: 2018-01-24
  Changes: Database references, Structure summary
• Version 1.5: 2024-02-21
  Changes: Advisory, Data collection, Database references