7XIO | pdb_00007xio

Crystal structure of TYR from Ralstonia

• PDB DOI: https://doi.org/10.2210/pdb7XIO/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Ralstonia
• Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
• Mutation(s): No 


• Deposited: 2022-04-13 Released: 2023-04-19 
• Deposition Author(s): Sun, D.Y., Cui, P.P., Liao, L.J., Liu, X.K., Liu, B., Guo, Y., Feng, Z., Zhang, J., Li, X., Zeng, Z.X.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free: 
  0.202 (Depositor), 0.207 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.187 (DCC) 
• R-Value Observed: 
  0.182 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of TYR from Ralstonia

Sun, D.Y., Cui, P.P., Liao, L.J., Liu, X.K., Liu, B., Guo, Y., Feng, Z., Zhang, J., Li, X., Zeng, Z.X.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 164.04 kDa 
• Atom Count: 10,132 
• Modeled Residue Count: 1,297 
• Deposited Residue Count: 1,491 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Polyphenol oxidase	A, B, C	497	Ralstonia	Mutation(s): 0  Gene Names: CJO87_16720, MAFF211479_31910, RD1301_v1_4420004, RUN1744_v1_120005, RUN215_v1_900048, TD1301_v1_1720005, TF3108_v1_180005, TO10_v1_260005 EC: 1.14.18.1
UniProt
Find proteins for A0A0K1ZP03 (Ralstonia solanacearum) Explore A0A0K1ZP03  Go to UniProtKB:  A0A0K1ZP03

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4 (Subject of Investigation/LOI)	D [auth A], E [auth B], F [auth C]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.64 Å
• R-Value Free:  0.202 (Depositor), 0.207 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.187 (DCC) 
• R-Value Observed: 0.182 (Depositor) 

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 190.897	α = 90
b = 190.897	β = 90
c = 402.109	γ = 120

Software Package:

Software Name	Purpose
HKL-3000	data collection
PHENIX	refinement
DIALS	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-04-19 
Deposition Author(s): Sun, D.Y., Cui, P.P., Liao, L.J., Liu, X.K., Liu, B., Guo, Y., Feng, Z., Zhang, J., Li, X., Zeng, Z.X.

---

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2023-04-19
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description