2P9J

Crystal structure of AQ2171 from Aquifex aeolicus

• PDB DOI: https://doi.org/10.2210/pdb2P9J/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Aquifex aeolicus VF5
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2007-03-26 Released: 2007-05-29 
• Deposition Author(s): Yang, H., Chen, L., Agari, Y., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., 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: 2.40 Å
• R-Value Free: 
  0.268 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.216 (Depositor), 0.223 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Literature

Crystal structure of AQ2171 from Aquifex aeolicus

Yang, H., Chen, L., Agari, Y., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Rose, J.P., Wang, B.-C.

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.

Macromolecule Content

• Total Structure Weight: 147.15 kDa 
• Atom Count: 10,046 
• Modelled Residue Count: 1,252 
• Deposited Residue Count: 1,296 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein AQ2171	A, B, C, D, E, F, G, H	162	Aquifex aeolicus VF5	Mutation(s): 3  Gene Names: aq_2171
UniProt
Find proteins for O67920 (Aquifex aeolicus (strain VF5)) Explore O67920  Go to UniProtKB:  O67920

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E, F, G, H	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free:  0.268 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.216 (Depositor), 0.223 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: P 4₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 121.325	α = 90
b = 121.325	β = 90
c = 86.897	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-29 
Deposition Author(s): Yang, H., Chen, L., Agari, Y., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Rose, J.P., Wang, B.-C., Southeast Collaboratory for Structural Genomics (SECSG), RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2007-05-29
  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: 2018-01-24
  Changes: Advisory, Database references, Structure summary
• Version 1.4: 2024-10-30
  Changes: Advisory, Data collection, Database references, Derived calculations, Structure summary