4GO9 | pdb_00004go9

CRYSTAL STRUCTURE of the TREHALULOSE SYNTHASE MUTANT, MUTB D415N, in COMPLEX with TRIS

• PDB DOI: https://doi.org/10.2210/pdb4GO9/pdb

• Classification: ISOMERASE
• Organism(s): Burkholderia ubonensis subsp. mesacidophila
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2012-08-19 Released: 2013-08-21 
• Deposition Author(s): Lipski, A., Ravaud, S., Robert, X., Haser, R., Aghajari, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.219 (Depositor), 0.228 (DCC) 
• R-Value Work: 
  0.166 (Depositor), 0.177 (DCC) 
• R-Value Observed: 
  0.172 (Depositor) 

Starting Model: experimental

Literature

CRYSTAL STRUCTURE of the TREHALULOSE SYNTHASE MUTB, MUTANT D415N, in COMPLEX with TRIS

Lipski, A., Watzlawick, H., Ravaud, S., Robert, X., Haser, R., Mattes, R., Aghajari, N.

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: 128.2 kDa 
• Atom Count: 10,257 
• Modeled Residue Count: 1,109 
• Deposited Residue Count: 1,114 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sucrose isomerase	A, B	557	Burkholderia ubonensis subsp. mesacidophila	Mutation(s): 1  Gene Names: mutB
UniProt
Find proteins for Q2PS28 (Burkholderia ubonensis subsp. mesacidophila) Explore Q2PS28  Go to UniProtKB:  Q2PS28

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TRS	D [auth A], F [auth B]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
CA	C [auth A], E [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.219 (Depositor), 0.228 (DCC) 
• R-Value Work:  0.166 (Depositor), 0.177 (DCC) 
• R-Value Observed: 0.172 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.52	α = 90
b = 84.99	β = 99.53
c = 123.95	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
CNS	refinement
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-08-21 
Deposition Author(s): Lipski, A., Ravaud, S., Robert, X., Haser, R., Aghajari, N.

Revision History  

• Version 1.0: 2013-08-21
  Type: Initial release
  
• Version 1.1: 2023-11-08
  Changes: Data collection, Database references, Derived calculations, Refinement description