Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 46.85 kDa 
• Atom Count: 3279 
• Modelled Residue Count: 356 
• Deposited Residue Count: 415 
• Unique protein chains: 2

7CIY

Crystal structure of N191G-mutated tyrosinase from Streptomyces castaneoglobisporus in complex with the caddie protein obtained by soaking in the solution containing Cu(II) and hydroxylamine for 24 h

• PDB DOI: 10.2210/pdb7CIY/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Streptomyces castaneoglobisporus
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-07-08 Released: 2021-06-16 
• Deposition Author(s): Oda, K., Matoba, Y.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.191 
• R-Value Work: 0.137 
• R-Value Observed: 0.137 

Literature

The basicity of an active-site water molecule discriminates between tyrosinase and catechol oxidase activity.

Matoba, Y., Oda, K., Muraki, Y., Masuda, T.

(2021) Int J Biol Macromol 183: 1861-1870

• PubMed: 34089758 
• DOI: 10.1016/j.ijbiomac.2021.05.206
• Primary Citation of Related Structures:  
  7CIT, 7CIY


• PubMed Abstract: 
  

Tyrosinase (Ty) and catechol oxidase (CO) are members of type-3 copper enzymes. While Ty catalyzes both phenolase and catecholase reactions, CO catalyzes only the latter reaction. In the present study, Ty was found to catalyze the catecholase reaction, but hardly the phenolase reaction in the presence of the metallochaperon called "caddie protein (Cad)". The ability of the substrates to dissociate the motif shielding the active-site pocket seems to contribute critically to the substrate specificity of Ty. In addition, a mutation at the N191 residue, which forms a hydrogen bond with a water molecule near the active center, decreased the inherent ratio of phenolase versus catecholase activity. Unlike the wild-type complex, reaction intermediates were not observed when the catalytic reaction toward the Y98 residue of Cad was progressed in the crystalline state. The increased basicity of the water molecule may be necessary to inhibit the proton transfer from the conjugate acid to a hydroxide ion bridging the two copper ions. The deprotonation of the substrate hydroxyl by the bridging hydroxide seems to be significant for the efficient catalytic cycle of the phenolase reaction.

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Organizational Affiliation: 

Division of Applied Biological Science, Faculty of Agriculture, Setsunan University, 45-1 Nagaotoge-cho, Hirakata, Osaka 573-0101, Japan.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosinase	A	281	Streptomyces castaneoglobisporus	Mutation(s): 0
UniProt
Find proteins for Q83WS2 (Streptomyces castaneoglobisporus) Explore Q83WS2  Go to UniProtKB:  Q83WS2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MelC	B	134	Streptomyces castaneoglobisporus	Mutation(s): 0
UniProt
Find proteins for Q83WS1 (Streptomyces castaneoglobisporus) Explore Q83WS1  Go to UniProtKB:  Q83WS1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CU (Subject of Investigation/LOI)	D [auth A], E [auth A], F [auth A], J [auth B]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
NO3	G [auth A], H [auth A], I [auth A], K [auth B], L [auth B]	NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N
PEO	C [auth A]	HYDROGEN PEROXIDE H2 O2 MHAJPDPJQMAIIY-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
G1X	B	L-PEPTIDE LINKING	C9 H9 N O4		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.47 Å
• R-Value Free: 0.191 
• R-Value Work: 0.137 
• R-Value Observed: 0.137 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.85	α = 90
b = 97.4	β = 90
c = 54.98	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
SHELX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2020-07-08 
• Released Date: 2021-06-16 
Deposition Author(s): Oda, K., Matoba, Y.

Revision History  

• Version 1.0: 2021-06-16
  Type: Initial release
  
• Version 1.1: 2021-06-23
  Changes: Database references