2NS9 | pdb_00002ns9

Crystal structure of protein APE2225 from Aeropyrum pernix K1, Pfam COXG

• PDB DOI: https://doi.org/10.2210/pdb2NS9/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Aeropyrum pernix
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-11-03 Released: 2006-11-14 
• Deposition Author(s): Jin, X., Bera, A., Wasserman, S., Smith, D., Sauder, J.M., Burley, S.K., Shapiro, L., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.278 (Depositor), 0.279 (DCC) 
• R-Value Work: 
  0.217 (Depositor), 0.214 (DCC) 
• R-Value Observed: 
  0.220 (Depositor) 

Literature

Crystal structure of hypothetical protein APE2225 from Aeropyrum pernix K1

Jin, X., Bera, A., Wasserman, S., Smith, D., Sauder, J.M., Burley, S.K., Shapiro, L.

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.

Macromolecule Content 

• Total Structure Weight: 34.15 kDa 
• Atom Count: 2,524 
• Modeled Residue Count: 304 
• Deposited Residue Count: 314 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein APE2225	A, B	157	Aeropyrum pernix	Mutation(s): 0  Gene Names: APE2225
UniProt
Find proteins for Q9Y9R3 (Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)) Explore Q9Y9R3  Go to UniProtKB:  Q9Y9R3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	C [auth A], D [auth B]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.278 (Depositor), 0.279 (DCC) 
• R-Value Work:  0.217 (Depositor), 0.214 (DCC) 
• R-Value Observed: 0.220 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.73	α = 90
b = 33.082	β = 121.4
c = 78.442	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
MOSFLM	data reduction
CCP4	data scaling
SHELXS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-11-14 
Deposition Author(s): Jin, X., Bera, A., Wasserman, S., Smith, D., Sauder, J.M., Burley, S.K., Shapiro, L., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2006-11-14
  Type: Initial release
  
• Version 1.1: 2007-10-16
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.5: 2023-12-27
  Changes: Data collection, Database references