Biological Assembly 1  

 3D View: Structure | Electron Density

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

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

Macromolecule Content

• Total Structure Weight: 56.88 kDa 
• Atom Count: 3956 
• Residue Count: 456 
• Unique protein chains: 1

2R60

Structure of apo Sucrose Phosphate Synthase (SPS) of Halothermothrix orenii

• DOI: 10.2210/pdb2R60/pdb

• Classification: TRANSFERASE
• Organism(s): Halothermothrix orenii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-09-05 Released: 2008-06-10 
• Deposition Author(s): Sivaraman, J., Chua, T.K.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.252 
• R-Value Work: 0.226 

Literature

The Structure of Sucrose Phosphate Synthase from Halothermothrix orenii Reveals Its Mechanism of Action and Binding Mode.

Chua, T.K., Bujnicki, J.M., Tan, T.C., Huynh, F., Patel, B.K., Sivaraman, J.

(2008) Plant Cell 20: 1059-1072

• PubMed: 18424616 
• DOI: 10.1105/tpc.107.051193
• Primary Citation of Related Structures:  
  2R60, 2R68, 2R66


• PubMed Abstract: 
  

Sucrose phosphate synthase (SPS) catalyzes the transfer of a glycosyl group from an activated donor sugar, such as uridine diphosphate glucose (UDP-Glc), to a saccharide acceptor D-fructose 6-phosphate (F6P), resulting in the formation of UDP and D-sucrose-6'-phosphate (S6P). This is a central regulatory process in the production of sucrose in plants, cyanobacteria, and proteobacteria. Here, we report the crystal structure of SPS from the nonphotosynthetic bacterium Halothermothrix orenii and its complexes with the substrate F6P and the product S6P. SPS has two distinct Rossmann-fold domains with a large substrate binding cleft at the interdomain interface. Structures of two complexes show that both the substrate F6P and the product S6P bind to the A-domain of SPS. Based on comparative analysis of the SPS structure with other related enzymes, the donor substrate, nucleotide diphosphate glucose, binds to the B-domain of SPS. Furthermore, we propose a mechanism of catalysis by H. orenii SPS. Our findings indicate that SPS from H. orenii may represent a valid model for the catalytic domain of plant SPSs and thus may provide useful insight into the reaction mechanism of the plant enzyme.

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Organizational Affiliation: 

Department of Biological Sciences, National University of Singapore, Singapore 117543.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycosyl transferase, group 1	A	499	Halothermothrix orenii	Mutation(s): 0  Gene Names: SPS, spsA EC: 2.4.1.14
Find proteins for B2CCB8 (Halothermothrix orenii) Explore B2CCB8  Go to UniProtKB:  B2CCB8

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.252 
• R-Value Work: 0.226 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.225	α = 90
b = 48.499	β = 100.92
c = 75.051	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
PDB_EXTRACT	data extraction
CBASS	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-09-05 
• Released Date: 2008-06-10 
Deposition Author(s): Sivaraman, J., Chua, T.K.

Revision History 

• Version 1.0: 2008-06-10
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance