6TVI | pdb_00006tvi

Salmonella typhimurium mutant neuraminidase (D100S)+ DANA

• PDB DOI: https://doi.org/10.2210/pdb6TVI/pdb

• Classification: HYDROLASE
• Organism(s): Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2020-01-09 Released: 2020-02-12 
• Deposition Author(s): Garman, E.F., Salinger, M.T., Murray, J.W., Laver, W.G., Kuhn, P., Vimr, E.R.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.00 Å
• R-Value Free: 
  0.133 (Depositor), 0.133 (DCC) 
• R-Value Work: 
  0.118 (Depositor), 0.118 (DCC) 

Starting Model: experimental

Literature

Salmonella typhimurium mutant neuraminidase (D100S)+ DANA

Garman, E.F., Salinger, M.T., Murray, J.W., Laver, W.G., Kuhn, P., Vimr, E.R.

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)

Macromolecule Content 

• Total Structure Weight: 42.61 kDa 
• Atom Count: 3,852 
• Modeled Residue Count: 379 
• Deposited Residue Count: 379 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sialidase	A [auth AAA]	379	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2	Mutation(s): 1  Gene Names: nanH, STM0928 EC: 3.2.1.18
UniProt
Find proteins for P29768 (Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)) Explore P29768  Go to UniProtKB:  P29768

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DAN	H [auth AAA]	2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID C11 H17 N O8 JINJZWSZQKHCIP-UFGQHTETSA-N
GOL	B [auth AAA], C [auth AAA], D [auth AAA], E [auth AAA], F [auth AAA], G [auth AAA]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.00 Å
• R-Value Free:  0.133 (Depositor), 0.133 (DCC) 
• R-Value Work:  0.118 (Depositor), 0.118 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.068	α = 90
b = 81.781	β = 90
c = 91.065	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
REFMAC	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-02-12 
Deposition Author(s): Garman, E.F., Salinger, M.T., Murray, J.W., Laver, W.G., Kuhn, P., Vimr, E.R.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	--

Revision History  

• Version 1.0: 2020-02-12
  Type: Initial release
  
• Version 1.1: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection
• Version 1.2: 2024-01-24
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary
• Version 1.3: 2024-11-20
  Changes: Structure summary