1OYZ | pdb_00001oyz

X-RAY STRUCTURE OF YIBA_ECOLI NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ET31.

• PDB DOI: https://doi.org/10.2210/pdb1OYZ/pdb

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


• Deposited: 2003-04-07 Released: 2003-08-12 
• Deposition Author(s): Kuzin, A., Semesi, A., Skarina, T., Savchenko, A., Arrowsmith, C., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.269 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.219 (Depositor), 0.228 (DCC) 
• R-Value Observed: 
  0.219 (Depositor) 

Literature

X-RAY STRUCTURE OF YIBA_ECOLI NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET ET31.

Kuzin, A., Semesi, A., Skarina, T., Savchenko, A., Arrowsmith, C., Tong, 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: 32.11 kDa 
• Atom Count: 2,238 
• Modeled Residue Count: 273 
• Deposited Residue Count: 280 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein yibA	A	280	Escherichia coli	Mutation(s): 4  Gene Names: YIBA
UniProt
Find proteins for P0ADK6 (Escherichia coli (strain K12)) Explore P0ADK6  Go to UniProtKB:  P0ADK6

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.269 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.219 (Depositor), 0.228 (DCC) 
• R-Value Observed: 0.219 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.242	α = 90
b = 104.19	β = 90
c = 79.963	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-08-12 
Deposition Author(s): Kuzin, A., Semesi, A., Skarina, T., Savchenko, A., Arrowsmith, C., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2003-08-12
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-04-18
  Changes: Data collection
• Version 1.4: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary