7V09

Crystal structure of ECL_RS08780, putative sugar transport system periplasmic sugar-binding protein

• PDB DOI: https://doi.org/10.2210/pdb7V09/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Enterobacter cloacae subsp. cloacae ATCC 13047
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-05-10 Released: 2022-05-18 
• Deposition Author(s): Stogios, P.J., Skarina, T., Mesa, N., Di Leo, R., Savchenko, A., Joachimiak, A., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.296 
• R-Value Work: 0.250 
• R-Value Observed: 0.252 

Starting Model: in silico

Literature

Crystal structure of ECL_RS08780, putative sugar transport system periplasmic sugar-binding protein

Stogios, P.J.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content

• Total Structure Weight: 89.92 kDa 
• Atom Count: 6,757 
• Modelled Residue Count: 806 
• Deposited Residue Count: 818 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Multiple sugar transport system periplasmic sugar-binding protein	A, B	409	Enterobacter cloacae subsp. cloacae ATCC 13047	Mutation(s): 0  Gene Names: ECL_01781
UniProt
Find proteins for A0A0H3CHG3 (Enterobacter cloacae subsp. cloacae (strain ATCC 13047 / DSM 30054 / NBRC 13535 / NCTC 10005 / WDCM 00083 / NCDC 279-56)) Explore A0A0H3CHG3  Go to UniProtKB:  A0A0H3CHG3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	C [auth A], D [auth A], E [auth A], F [auth B], G [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.296 
• R-Value Work: 0.250 
• R-Value Observed: 0.252 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 69.956	α = 90
b = 67.618	β = 104.22
c = 86.656	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHENIX	phasing
PHENIX	model building
Coot	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-05-18 
Deposition Author(s): Stogios, P.J., Skarina, T., Mesa, N., Di Leo, R., Savchenko, A., Joachimiak, A., Satchell, K.J.F., Center for Structural Genomics of Infectious Diseases (CSGID)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	HHSN272201700060C

Revision History  

• Version 1.0: 2022-05-18
  Type: Initial release
  
• Version 1.1: 2024-02-14
  Changes: Data collection
• Version 1.2: 2024-04-03
  Changes: Refinement description