4NAV

Crystal structure of hypothetical protein XCC2798 from Xanthomonas campestris, Target EFI-508608

• PDB DOI: https://doi.org/10.2210/pdb4NAV/pdb

• Classification: HYDROLASE
• Organism(s): Xanthomonas campestris pv. campestris str. ATCC 33913
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-10-22 Released: 2013-11-06 
• Deposition Author(s): Kim, J., Toro, R., Bhosle, R., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Washington, E., Glenn, A.S., Chowdhury, S., Evans, B., Zhao, S.C., Hillerich, B., Love, J., Seidel, R.D., Imker, H.J., Stead, M., Jacobson, M.P., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.69 Å
• R-Value Free: 
  0.275 (Depositor), 0.280 (DCC) 
• R-Value Work: 
  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 
  0.245 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of hypothetical protein XCC2798 from Xanthomonas campestris, Target EFI-508608

Kim, J., Toro, R., Bhosle, R., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Washington, E., Scott Glenn, A., Chowdhury, S., Evans, B., Zhao, S., Hillerich, B., Love, J., Seidel, R.D., Imker, H.J., Stead, M., Jacobson, M.P., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 78.27 kDa 
• Atom Count: 5,368 
• Modelled Residue Count: 726 
• Deposited Residue Count: 728 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HYPOTHETICAL PROTEIN XCC279	A [auth D], B [auth A], C [auth B], D [auth C]	182	Xanthomonas campestris pv. campestris str. ATCC 33913	Mutation(s): 0  Gene Names: XCC2798 EC: 3.1.3.45
UniProt
Find proteins for Q8P716 (Xanthomonas campestris pv. campestris (strain ATCC 33913 / DSM 3586 / NCPPB 528 / LMG 568 / P 25)) Explore Q8P716  Go to UniProtKB:  Q8P716

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.69 Å
• R-Value Free:  0.275 (Depositor), 0.280 (DCC) 
• R-Value Work:  0.244 (Depositor), 0.240 (DCC) 
• R-Value Observed: 0.245 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.903	α = 90
b = 156.017	β = 90
c = 111.509	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
REFMAC	refinement
DENZO	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-11-06 
Deposition Author(s): Kim, J., Toro, R., Bhosle, R., Al Obaidi, N.F., Morisco, L.L., Wasserman, S.R., Sojitra, S., Washington, E., Glenn, A.S., Chowdhury, S., Evans, B., Zhao, S.C., Hillerich, B., Love, J., Seidel, R.D., Imker, H.J., Stead, M., Jacobson, M.P., Gerlt, J.A., Almo, S.C., Enzyme Function Initiative (EFI)

Revision History  

• Version 1.0: 2013-11-06
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Refinement description