Download MendeleyCrystallographic evidence of drastic movement of a copper ion toward the substrate tyrosine for starting hydroxylation reaction of tyrosinase
Matoba, Y., Yoshitsu, H., Jeon, H.J., Oda, K., Noda, M., Kumagai, T., Sugiyama, M.To be published.
2ZWF
Crystal structure of the copper-bound tyrosinase in complex with a caddie protein from streptomyces castaneoglobisporus obtained by soaking the deoxy-form crystal in dioxygen-saturated solution for 80 minutes
- PDB DOI: https://doi.org/10.2210/pdb2ZWF/pdb
- Classification: OXIDOREDUCTASE/METAL TRANSPORT
- Organism(s): Streptomyces castaneoglobisporus
- Expression System: Escherichia coli BL21(DE3)
- Mutation(s): No
- Deposited: 2008-12-03 Released: 2009-12-15
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.212
- R-Value Work: 0.173
- R-Value Observed: 0.173
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.4 of the entry. See complete history.
Literature
To be published.
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Tyrosinase | 281 | Streptomyces castaneoglobisporus | Mutation(s): 0 Gene Names: TYRC EC: 1.14.18.1 |  | |
UniProt | |||||
Find proteins for Q83WS2 (Streptomyces castaneoglobisporus) Explore Q83WS2 Go to UniProtKB: Q83WS2 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q83WS2 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| MelC | 134 | Streptomyces castaneoglobisporus | Mutation(s): 0 Gene Names: ORF378 |  | |
UniProt | |||||
Find proteins for Q83WS1 (Streptomyces castaneoglobisporus) Explore Q83WS1 Go to UniProtKB: Q83WS1 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q83WS1 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 2 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CU Query on CU | C [auth A], D [auth A], E [auth A], J [auth B] | COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N |  | ||
| NO3 Query on NO3 | F [auth A], G [auth A], H [auth A], I [auth A], K [auth B] | NITRATE ION N O3 NHNBFGGVMKEFGY-UHFFFAOYSA-N |  | ||
| Modified Residues 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Type | Formula | 2D Diagram | Parent |
| DAH Query on DAH | B | L-PEPTIDE LINKING | C9 H11 N O4 |  | PHE |
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 1.40 Å
- R-Value Free: 0.212
- R-Value Work: 0.173
- R-Value Observed: 0.173
- Space Group: P 21 21 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 65.16 | α = 90 |
| b = 97.68 | β = 90 |
| c = 54.99 | γ = 90 |
| Software Name | Purpose |
|---|---|
| CNS | refinement |
| SHELXL-97 | refinement |
| BSS | data collection |
| HKL-2000 | data reduction |
| HKL-2000 | data scaling |
| CNS | phasing |
Entry History
Deposition Data
- Released Date: 2009-12-15 Deposition Author(s): Matoba, Y., Sugiyama, M.
Revision History (Full details and data files)
- Version 1.0: 2009-12-15
Type: Initial release - Version 1.1: 2011-07-13
Changes: Version format compliance - Version 1.2: 2011-08-31
Changes: Non-polymer description - Version 1.3: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description - Version 1.4: 2024-10-30
Changes: Structure summary
