4GMH | pdb_00004gmh

Crystal structure of staphylococcus aureus 5'-methylthioadenosine/s-adenosylhomocysteine nucleosidase

• PDB DOI: https://doi.org/10.2210/pdb4GMH/pdb

• Classification: HYDROLASE
• Organism(s): Staphylococcus aureus subsp. aureus Mu50
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-08-15 Released: 2012-11-28 
• Deposition Author(s): Brown, R.L., Anderson, B.F., Norris, G.E., Tyler, P.C., Evans, G.B., Sutherland-Smith, A.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.233 (Depositor), 0.233 (DCC) 
• R-Value Work: 
  0.183 (Depositor), 0.183 (DCC) 
• R-Value Observed: 
  0.186 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of staphylococcus aureus 5'-methylthioadenosine/s-adenosylhomocysteine nucleosidase

Brown, R.L., Anderson, B.F., Norris, G.E., Tyler, P.C., Evans, G.B., Sutherland-Smith, A.J.

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: 24.88 kDa 
• Atom Count: 1,931 
• Modeled Residue Count: 230 
• Deposited Residue Count: 230 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase	A	230	Staphylococcus aureus subsp. aureus Mu50	Mutation(s): 0  Gene Names: mtnN, SAV1599 EC: 3.2.2.9
UniProt
Find proteins for Q99TQ0 (Staphylococcus aureus (strain Mu50 / ATCC 700699)) Explore Q99TQ0  Go to UniProtKB:  Q99TQ0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	B [auth A], C [auth A], D [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.233 (Depositor), 0.233 (DCC) 
• R-Value Work:  0.183 (Depositor), 0.183 (DCC) 
• R-Value Observed: 0.186 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.423	α = 90
b = 55.852	β = 90
c = 97.022	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-11-28 
Deposition Author(s): Brown, R.L., Anderson, B.F., Norris, G.E., Tyler, P.C., Evans, G.B., Sutherland-Smith, A.J.

Revision History  

• Version 1.0: 2012-11-28
  Type: Initial release
  
• Version 1.1: 2023-09-13
  Changes: Data collection, Database references, Derived calculations, Refinement description