9KP8 | pdb_00009kp8

Crystal structure of FAD-dependent oxidase CpaO

PDB DOI: https://doi.org/10.2210/pdb9KP8/pdb

Classification: OXIDOREDUCTASE
Organism(s): Aspergillus oryzae
Expression System: Komagataella pastoris
Mutation(s): No

Deposited: 2024-11-22 Released: 2025-11-26
Deposition Author(s): Chang, C.Y., Kuo, Y.M., Cheng, T., Liang, C.H., Hsiao, P.Y., Lin, Y.C., Wang, N.
Funding Organization(s): National Science Council (NSC, Taiwan)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.18 Å
R-Value Free:
0.174 (Depositor), 0.186 (DCC)
R-Value Work:
0.164 (Depositor), 0.173 (DCC)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of FAD-dependent oxidase CpaO

Chang, C.Y., Kuo, Y.M., Cheng, T., Liang, C.H., Hsiao, P.Y., Lin, Y.C., Wang, N.

To be published.

Macromolecule Content

Total Structure Weight: 61.88 kDa
Atom Count: 4,288
Modeled Residue Count: 431
Deposited Residue Count: 537
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
alpha-glucosidase,Beta-cyclopiazonate dehydrogenase	A	537	Aspergillus oryzae	Mutation(s): 0 Gene Names: AAG, cpaO, AO090026000003 EC: 3.2.1.20 (PDB Primary Data), 1.21.99.1 (PDB Primary Data)
UniProt
Find proteins for A0AA49QBA5 (Aspergillus niger) Explore A0AA49QBA5 Go to UniProtKB: A0AA49QBA5
Find proteins for Q2UG11 (Aspergillus oryzae (strain ATCC 42149 / RIB 40)) Explore Q2UG11 Go to UniProtKB: Q2UG11
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Groups	Q2UG11A0AA49QBA5
Glycosylation
Glycosylation Sites: 3	Glycosylation Focus chain A
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FAD (Subject of Investigation/LOI) Query on FAD Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
NAG (Subject of Investigation/LOI) Query on NAG Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] MOL2 format, chain C [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] mmCIF format, chain C [auth A] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A]	C [auth A], E [auth A], F [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain C [auth A] Focus chain E [auth A] Focus chain F [auth A] Interactions & Density Focus chain C [auth A] Focus chain E [auth A] Focus chain F [auth A]
SO4 (Subject of Investigation/LOI) Query on SO4 Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain G [auth A] SDF format, chain I [auth A] SDF format, chain H [auth A] MOL2 format, chain D [auth A] MOL2 format, chain G [auth A] MOL2 format, chain I [auth A] MOL2 format, chain H [auth A] mmCIF format, chain D [auth A] mmCIF format, chain G [auth A] mmCIF format, chain I [auth A] mmCIF format, chain H [auth A]	D [auth A], G [auth A], H [auth A], I [auth A]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A] Interactions & Density Focus chain D [auth A] Focus chain G [auth A] Focus chain H [auth A] Focus chain I [auth A]