8XVO | pdb_00008xvo

Crystal structure of a short-chain dehydrogenase/reductase 16 (SDR16) from Antrodia camphorata

PDB DOI: https://doi.org/10.2210/pdb8XVO/pdb

Classification: OXIDOREDUCTASE
Organism(s): Taiwanofungus camphoratus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-01-15 Released: 2025-01-15
Deposition Author(s): Zhang, Y.Q., Zhang, M., Ye, M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free:
0.203 (Depositor), 0.223 (DCC)
R-Value Work:
0.181 (Depositor)
R-Value Observed:
0.182 (Depositor)

Starting Model: in silico
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This is version 1.0 of the entry. See complete history.

Literature

Crystal structure of a short-chain dehydrogenase/reductase 16 (SDR16) from Antrodia camphorata

Zhang, Y.Q., Zhang, M., Ye, M.

To be published.

Macromolecule Content

Total Structure Weight: 32.99 kDa
Atom Count: 2,372
Modeled Residue Count: 290
Deposited Residue Count: 303
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
short-chain dehydrogenase/reductase 16	A	303	Taiwanofungus camphoratus	Mutation(s): 0
UniProt
Find proteins for A0A165FX75 (Laetiporus sulphureus 93-53) Explore A0A165FX75 Go to UniProtKB: A0A165FX75
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A165FX75
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL 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]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.203 (Depositor), 0.223 (DCC)
R-Value Work: 0.181 (Depositor)
R-Value Observed: 0.182 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.359	α = 90
b = 69.548	β = 90
c = 77.169	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-01-15

Deposition Author(s):

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

Revision History (Full details and data files)

Version 1.0: 2025-01-15
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.