2IJR | pdb_00002ijr

Crystal structure of a protein api92 from Yersinia pseudotuberculosis, Pfam DUF1281

• PDB DOI: https://doi.org/10.2210/pdb2IJR/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Yersinia pseudotuberculosis
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-09-30 Released: 2006-10-31 
• Deposition Author(s): Jin, X., Min, T., Bonanno, J.B., Sauder, J.M., Wasserman, S., Smith, D., 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: 2.70 Å
• R-Value Free: 
  0.279 (Depositor), 0.277 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.227 (Depositor) 

Literature

Crystal structure of a hypothetical protein from Yersinia pseudotuberculosis

Jin, X., Min, T., Bonanno, J.B., Sauder, J.M., Wasserman, S., Smith, D., Burley, S.K., Shapiro, L.

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: 34.16 kDa 
• Atom Count: 2,285 
• Modeled Residue Count: 282 
• Deposited Residue Count: 300 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein api92	A	300	Yersinia pseudotuberculosis	Mutation(s): 8  Gene Names: api92
UniProt
Find proteins for Q6EVP2 (Yersinia pseudotuberculosis) Explore Q6EVP2  Go to UniProtKB:  Q6EVP2

Small Molecules

Modified Residues  1 Unique
ID	Chains	Modified Residue	Modification Type	Formula	2D Diagram
MSE	A	MET	Selenomethionine	C5 H11 N O2 Se

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free:  0.279 (Depositor), 0.277 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.227 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.656	α = 90
b = 88.656	β = 90
c = 218.227	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-10-31 
Deposition Author(s): Jin, X., Min, T., Bonanno, J.B., Sauder, J.M., Wasserman, S., Smith, D., Burley, S.K., Shapiro, L., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2006-10-31
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: 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: 2024-10-30
  Changes: Data collection, Database references, Structure summary