4HA1 | pdb_00004ha1

MutB inactive double mutant D200A-D415N in complex with isomaltulose

• PDB DOI: https://doi.org/10.2210/pdb4HA1/pdb

• Classification: ISOMERASE
• Organism(s): Rhizobium sp. MX-45
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2012-09-25 Released: 2013-09-25 
• Deposition Author(s): Lipski, A., Haser, R., Aghajari, N.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.251 (Depositor), 0.255 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.199 (DCC) 
• R-Value Observed: 
  0.195 (Depositor) 

Starting Model: experimental

Literature

Insights into product binding in sucrose isomerases from crystal structures of MutB from Rhizobium sp.

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: 128.39 kDa 
• Atom Count: 10,182 
• Modeled Residue Count: 1,113 
• 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	Rhizobium sp. MX-45	Mutation(s): 2  Gene Names: mutB
UniProt
Find proteins for M1E1F6 (Rhizobium sp. MX-45) Explore M1E1F6  Go to UniProtKB:  M1E1F6

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ISL	D [auth A]	6-O-alpha-D-glucopyranosyl-D-fructose C12 H22 O11 RJPPRBMGVWEZRR-WTZPKTTFSA-N
GLC	F [auth B]	alpha-D-glucopyranose C6 H12 O6 WQZGKKKJIJFFOK-DVKNGEFBSA-N
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:  0.251 (Depositor), 0.255 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.199 (DCC) 
• R-Value Observed: 0.195 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.6	α = 66.55
b = 73.35	β = 73.86
c = 82.64	γ = 71.86

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-09-25 
Deposition Author(s): Lipski, A., Haser, R., Aghajari, N.

Revision History  

• Version 1.0: 2013-09-25
  Type: Initial release
  
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary
• Version 2.1: 2023-11-08
  Changes: Data collection, Database references, Refinement description, Structure summary