3MMS

Crystal structure of Streptococcus pneumoniae MTA/SAH nucleosidase in complex with 8-aminoadenine

• PDB DOI: https://doi.org/10.2210/pdb3MMS/pdb

• Classification: HYDROLASE
• Organism(s): Streptococcus pneumoniae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2010-04-20 Released: 2010-05-12 
• Deposition Author(s): Siu, K.K.W., Lee, J.E., Horvatin-Mrakovcic, C., Howell, P.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.199 
• R-Value Work: 0.182 

Literature

Crystal structure of Streptococcus pneumoniae MTA/SAH nucleosidase in complex with 8-aminoadenine

Siu, K.K.W., Lee, J.E., Horvatin-Mrakovcic, C., Howell, P.L.

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: 25.04 kDa 
• Atom Count: 1,967 
• Modelled Residue Count: 225 
• 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	Streptococcus pneumoniae	Mutation(s): 4  Gene Names: mtnN, pfs, SPP_0997, spr0894 EC: 3.2.2.16
UniProt
Find proteins for A0A0H2UPP7 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UPP7  Go to UniProtKB:  A0A0H2UPP7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
Q88	B [auth A], C [auth A]	9H-purine-6,8-diamine C5 H6 N6 PFUVOLUPRFCPMN-UHFFFAOYSA-N
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.199 
• R-Value Work: 0.182 
• Space Group: I 4₁ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 145.72	α = 90
b = 145.72	β = 90
c = 145.72	γ = 90

Software Package:

Software Name	Purpose
d*TREK	data scaling
CNS	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
d*TREK	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-05-12 
Deposition Author(s): Siu, K.K.W., Lee, J.E., Horvatin-Mrakovcic, C., Howell, P.L.

Revision History  

• Version 1.0: 2010-05-12
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2021-10-06
  Changes: Database references, Derived calculations
• Version 1.3: 2024-02-21
  Changes: Data collection