5UBW | pdb_00005ubw

Structure of catalytic domain of Ssel

• PDB DOI: https://doi.org/10.2210/pdb5UBW/pdb

• Classification: HYDROLASE
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-12-21 Released: 2017-12-27 
• Deposition Author(s): Shrestha, R., Das, C.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.39 Å
• R-Value Free: 
  0.304 (Depositor), 0.334 (DCC) 
• R-Value Work: 
  0.250 (Depositor) 
• R-Value Observed: 
  0.253 (Depositor) 

Starting Model: experimental

Literature

Structure of catalytic domain of Ssel

Shrestha, R., Das, C.

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: 42.13 kDa 
• Atom Count: 2,712 
• Modeled Residue Count: 348 
• Deposited Residue Count: 374 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Deubiquitinase SseL	A, B	187	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 0  Gene Names: sseL, STM2287 EC: 3.4.22
UniProt
Find proteins for Q8ZNG2 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore Q8ZNG2  Go to UniProtKB:  Q8ZNG2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.39 Å
• R-Value Free:  0.304 (Depositor), 0.334 (DCC) 
• R-Value Work:  0.250 (Depositor) 
• R-Value Observed: 0.253 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.819	α = 90
b = 64.983	β = 113.61
c = 56.884	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
REFMAC	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2017-12-27 
Deposition Author(s): Shrestha, R., Das, C.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History  

• Version 1.0: 2017-12-27
  Type: Initial release
  
• Version 1.1: 2022-03-23
  Changes: Author supporting evidence, Database references
• Version 1.2: 2023-10-04
  Changes: Data collection, Refinement description