8HWN | pdb_00008hwn

aldo-keto reductase DepB

PDB DOI: https://doi.org/10.2210/pdb8HWN/pdb

Classification: TOXIN
Organism(s): Devosia
Expression System: Escherichia
Mutation(s): No

Deposited: 2022-12-31 Released: 2024-01-17
Deposition Author(s): Chen, M., Yang, H., Lu, F.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.70 Å
R-Value Free:
0.306 (Depositor), 0.306 (DCC)
R-Value Work:
0.235 (Depositor), 0.237 (DCC)
R-Value Observed:
0.238 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

The structure of DepB capable of DON detoxification

Yang, H., Lu, F., Chen, M.

To be published.

Macromolecule Content

Total Structure Weight: 151.16 kDa
Atom Count: 9,573
Modeled Residue Count: 1,233
Deposited Residue Count: 1,372
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DepB	A [auth B], B [auth A], C, D	343	Devosia	Mutation(s): 0
UniProt
Find proteins for A0AA41QKL4 (Paradevosia shaoguanensis) Explore A0AA41QKL4 Go to UniProtKB: A0AA41QKL4
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AA41QKL4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CL (Subject of Investigation/LOI) Query on CL Download:Ideal Coordinates CCD File SDF format, chain O [auth A] SDF format, chain N [auth A] SDF format, chain M [auth A] SDF format, chain J [auth B] SDF format, chain I [auth B] SDF format, chain H [auth B] MOL2 format, chain O [auth A] MOL2 format, chain N [auth A] MOL2 format, chain M [auth A] MOL2 format, chain J [auth B] MOL2 format, chain I [auth B] MOL2 format, chain H [auth B] mmCIF format, chain O [auth A] mmCIF format, chain N [auth A] mmCIF format, chain M [auth A] mmCIF format, chain J [auth B] mmCIF format, chain I [auth B] mmCIF format, chain H [auth B]	H [auth B] I [auth B] J [auth B] M [auth A] N [auth A] H [auth B], I [auth B], J [auth B], M [auth A], N [auth A], O [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Interactions & Density Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A]
NA (Subject of Investigation/LOI) Query on NA Download:Ideal Coordinates CCD File SDF format, chain Q [auth D] SDF format, chain P [auth C] SDF format, chain L [auth A] SDF format, chain K [auth A] SDF format, chain G [auth B] SDF format, chain F [auth B] SDF format, chain E [auth B] MOL2 format, chain Q [auth D] MOL2 format, chain P [auth C] MOL2 format, chain L [auth A] MOL2 format, chain K [auth A] MOL2 format, chain G [auth B] MOL2 format, chain F [auth B] MOL2 format, chain E [auth B] mmCIF format, chain Q [auth D] mmCIF format, chain P [auth C] mmCIF format, chain L [auth A] mmCIF format, chain K [auth A] mmCIF format, chain G [auth B] mmCIF format, chain F [auth B] mmCIF format, chain E [auth B]	E [auth B] F [auth B] G [auth B] K [auth A] L [auth A] E [auth B], F [auth B], G [auth B], K [auth A], L [auth A], P [auth C], Q [auth D]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain K [auth A] Focus chain L [auth A] Focus chain P [auth C] Focus chain Q [auth D] Interactions & Density Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Focus chain K [auth A] Focus chain L [auth A] Focus chain P [auth C] Focus chain Q [auth D]