8IL4 | pdb_00008il4

Crystal structure of alcohol oxidase ParAOX(M59V/Q60P/R61N/F101S/N602H)(Polyporus arcularius)

PDB DOI: https://doi.org/10.2210/pdb8IL4/pdb

Classification: OXIDOREDUCTASE
Organism(s): Polyporus arcularius HHB13444
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2023-03-01 Released: 2024-03-06
Deposition Author(s): Wu, B., Wang, Y.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.36 Å
R-Value Free:
0.243 (Depositor), 0.244 (DCC)
R-Value Work:
0.194 (Depositor), 0.198 (DCC)
R-Value Observed:
0.196 (Depositor)

Starting Model: in silico
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Ligand Structure Quality Assessment

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

Literature

Crystal structure of alcohol oxidase ParAOX(M59V/Q60P/R61N/F101S/N602H)(Polyporus arcularius)

Wu, B., Wang, Y.

To be published.

Macromolecule Content

Total Structure Weight: 291.45 kDa
Atom Count: 19,024
Modeled Residue Count: 2,450
Deposited Residue Count: 2,596
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GMC oxidoreductase	A, B, C, D	649	Polyporus arcularius HHB13444	Mutation(s): 5 Gene Names: K466DRAFT_604656
UniProt
Find proteins for A0A5C3NW19 (Polyporus arcularius HHB13444) Explore A0A5C3NW19 Go to UniProtKB: A0A5C3NW19
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A5C3NW19
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 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 H [auth D] SDF format, chain G [auth C] SDF format, chain F [auth B] SDF format, chain E [auth A] MOL2 format, chain H [auth D] MOL2 format, chain G [auth C] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] mmCIF format, chain H [auth D] mmCIF format, chain G [auth C] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A]	E [auth A], F [auth B], G [auth C], H [auth D]	FLAVIN-ADENINE DINUCLEOTIDE C₂₇ H₃₃ N₉ O₁₅ P₂ VWWQXMAJTJZDQX-UYBVJOGSSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.36 Å
R-Value Free: 0.243 (Depositor), 0.244 (DCC)
R-Value Work: 0.194 (Depositor), 0.198 (DCC)
R-Value Observed: 0.196 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.706	α = 90
b = 187.433	β = 90.294
c = 118.532	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing
autoPROC	data processing
Coot	model building

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-03-06

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2024-03-06
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.