2F9C | pdb_00002f9c

Crystal structure of YDCK from Salmonella cholerae. NESG target SCR6

• PDB DOI: https://doi.org/10.2210/pdb2F9C/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Salmonella enterica
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2005-12-05 Released: 2005-12-20 
• Deposition Author(s): Benach, J., Chen, Y., Vorobiev, S.M., Seetharaman, J., Janjua, H., Cooper, B., Acton, X.T.B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.323 (Depositor), 0.327 (DCC) 
• R-Value Work: 
  0.253 (Depositor), 0.265 (DCC) 
• R-Value Observed: 
  0.253 (Depositor) 

Literature

Crystal structure of YDCK from Salmonella cholerae NESG target SCR6.

Benach, J., Chen, Y., Vorobiev, S.M., Seetharaman, J., Rong, X., Montelione, G.T., Tong, 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 and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 74.87 kDa 
• Atom Count: 5,021 
• Modeled Residue Count: 639 
• Deposited Residue Count: 668 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein YDCK	A, B	334	Salmonella enterica	Mutation(s): 0
UniProt
Find proteins for A0A0H2WQ05 (Salmonella paratyphi A (strain ATCC 9150 / SARB42)) Explore A0A0H2WQ05  Go to UniProtKB:  A0A0H2WQ05

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CS	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B], H [auth B]	CESIUM ION Cs NCMHKCKGHRPLCM-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.323 (Depositor), 0.327 (DCC) 
• R-Value Work:  0.253 (Depositor), 0.265 (DCC) 
• R-Value Observed: 0.253 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 104.602	α = 90
b = 104.602	β = 90
c = 162.423	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHELX	model building
SOLVE	phasing
RESOLVE	model building
CNS	refinement
SHELX	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-12-20 
Deposition Author(s): Benach, J., Chen, Y., Vorobiev, S.M., Seetharaman, J., Janjua, H., Cooper, B., Acton, X.T.B., Montelione, G.T., Hunt, J.F., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2005-12-20
  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: 2024-02-14
  Changes: Data collection, Database references, Derived calculations