5YJ2

Crystal structure of Bacillus sp. TB-90 urate oxidase without dehydration

PDB DOI: https://doi.org/10.2210/pdb5YJ2/pdb

Classification: OXIDOREDUCTASE
Organism(s): Bacillus sp. TB-90
Expression System: Escherichia coli DH5[alpha]
Mutation(s): No

Deposited: 2017-10-07 Released: 2018-10-10
Deposition Author(s): Hibi, T., Itoh, T., Nishiya, Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.71 ?
R-Value Free: 0.190
R-Value Work: 0.163
R-Value Observed: 0.165

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of Bacillus sp. TB-90 urate oxidase without dehydration

Hibi, T., Itoh, T., Nishiya, Y.

To be published.

Macromolecule Content

Total Structure Weight: 144.02 kDa
Atom Count: 11,056
Modelled Residue Count: 1,212
Deposited Residue Count: 1,248
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uric acid degradation bifunctional protein	A, B, C, D	312	Bacillus sp. TB-90	Mutation(s): 0 Gene Names: uao EC: 4.1.1.97 (PDB Primary Data), 1.7.3.3 (PDB Primary Data)
UniProt
Find proteins for Q45697 (Bacillus sp. (strain TB-90)) Explore Q45697 Go to UniProtKB: Q45697
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q45697
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AZA (Subject of Investigation/LOI) Query on AZA Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain H [auth B] SDF format, chain M [auth C] SDF format, chain P [auth D] MOL2 format, chain E [auth A] MOL2 format, chain H [auth B] MOL2 format, chain M [auth C] MOL2 format, chain P [auth D] mmCIF format, chain E [auth A] mmCIF format, chain H [auth B] mmCIF format, chain M [auth C] mmCIF format, chain P [auth D]	E [auth A], H [auth B], M [auth C], P [auth D]	8-AZAXANTHINE C₄ H₃ N₅ O₂ KVGVQTOQSNJTJI-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain H [auth B] Focus chain M [auth C] Focus chain P [auth D] Interactions & Density Focus chain E [auth A] Focus chain H [auth B] Focus chain M [auth C] Focus chain P [auth D]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain L [auth C] SDF format, chain J [auth B] MOL2 format, chain L [auth C] MOL2 format, chain J [auth B] mmCIF format, chain L [auth C] mmCIF format, chain J [auth B]	J [auth B], L [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain J [auth B] Focus chain L [auth C] Interactions & Density Focus chain J [auth B] Focus chain L [auth C]
MXE Query on MXE Download Ideal Coordinates CCD File SDF format, chain O [auth C] SDF format, chain G [auth A] SDF format, chain K [auth B] MOL2 format, chain O [auth C] MOL2 format, chain G [auth A] MOL2 format, chain K [auth B] mmCIF format, chain O [auth C] mmCIF format, chain G [auth A] mmCIF format, chain K [auth B]	G [auth A], K [auth B], O [auth C]	2-METHOXYETHANOL C₃ H₈ O₂ XNWFRZJHXBZDAG-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain K [auth B] Focus chain O [auth C] Interactions & Density Focus chain G [auth A] Focus chain K [auth B] Focus chain O [auth C]
OXY (Subject of Investigation/LOI) Query on OXY Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain I [auth B] SDF format, chain N [auth C] SDF format, chain Q [auth D] MOL2 format, chain F [auth A] MOL2 format, chain I [auth B] MOL2 format, chain N [auth C] MOL2 format, chain Q [auth D] mmCIF format, chain F [auth A] mmCIF format, chain I [auth B] mmCIF format, chain N [auth C] mmCIF format, chain Q [auth D]	F [auth A], I [auth B], N [auth C], Q [auth D]	OXYGEN MOLECULE O₂ MYMOFIZGZYHOMD-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain I [auth B] Focus chain N [auth C] Focus chain Q [auth D] Interactions & Density Focus chain F [auth A] Focus chain I [auth B] Focus chain N [auth C] Focus chain Q [auth D]