7VDO | pdb_00007vdo

Crystal structure of KRED F147L/L153Q/Y190P variant

PDB DOI: https://doi.org/10.2210/pdb7VDO/pdb

Classification: OXIDOREDUCTASE
Organism(s): Lentilactobacillus kefiri
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): Yes

Deposited: 2021-09-07 Released: 2022-05-11
Deposition Author(s): Cui, J., Huang, X., Wang, B., Zhao, H., Zhou, J.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.86 Å
R-Value Free:
0.198 (Depositor), 0.169 (DCC)
R-Value Work:
0.158 (Depositor), 0.162 (DCC)
R-Value Observed:
0.159 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Photoinduced chemomimetic biocatalysis for enantioselective intermolecular radical conjugate addition

Huang, X., Feng, J., Cui, J., Jiang, G., Harrison, W., Zang, X., Zhou, J., Wang, B., Zhao, H.

(2022) Nat Catal

DOI: https://doi.org/10.1038/s41929-022-00777-4

Macromolecule Content

Total Structure Weight: 110.02 kDa
Atom Count: 8,391
Modeled Residue Count: 1,003
Deposited Residue Count: 1,008
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3-alpha-(Or 20-beta)-hydroxysteroid dehydrogenase	A [auth D], B [auth A], C [auth B], D [auth C]	252	Lentilactobacillus kefiri	Mutation(s): 3 Gene Names: adhR, fabG3, DNL43_05835, LKE01_04370 EC: 1.1.1
UniProt
Find proteins for Q6WVP7 (Lentilactobacillus kefiri) Explore Q6WVP7 Go to UniProtKB: Q6WVP7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6WVP7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAP (Subject of Investigation/LOI) Query on NAP Download:Ideal Coordinates CCD File SDF format, chain G [auth D] SDF format, chain K [auth A] SDF format, chain Q [auth B] MOL2 format, chain G [auth D] MOL2 format, chain K [auth A] MOL2 format, chain Q [auth B] mmCIF format, chain G [auth D] mmCIF format, chain K [auth A] mmCIF format, chain Q [auth B]	G [auth D], K [auth A], Q [auth B]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₂₈ N₇ O₁₇ P₃ XJLXINKUBYWONI-NNYOXOHSSA-N		Interactions Focus chain G [auth D] Focus chain K [auth A] Focus chain Q [auth B] Interactions & Density Focus chain G [auth D] Focus chain K [auth A] Focus chain Q [auth B]
BTB Query on BTB Download:Ideal Coordinates CCD File SDF format, chain N [auth B] SDF format, chain J [auth A] MOL2 format, chain N [auth B] MOL2 format, chain J [auth A] mmCIF format, chain N [auth B] mmCIF format, chain J [auth A]	J [auth A], N [auth B]	2-[BIS-(2-HYDROXY-ETHYL)-AMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C₈ H₁₉ N O₅ OWMVSZAMULFTJU-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain N [auth B] Interactions & Density Focus chain J [auth A] Focus chain N [auth B]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain E [auth D] SDF format, chain O [auth B] SDF format, chain S [auth C] SDF format, chain P [auth B] SDF format, chain F [auth D] MOL2 format, chain E [auth D] MOL2 format, chain O [auth B] MOL2 format, chain S [auth C] MOL2 format, chain P [auth B] MOL2 format, chain F [auth D] mmCIF format, chain E [auth D] mmCIF format, chain O [auth B] mmCIF format, chain S [auth C] mmCIF format, chain P [auth B] mmCIF format, chain F [auth D]	E [auth D], F [auth D], O [auth B], P [auth B], S [auth C]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain E [auth D] Focus chain F [auth D] Focus chain O [auth B] Focus chain P [auth B] Focus chain S [auth C] Interactions & Density Focus chain E [auth D] Focus chain F [auth D] Focus chain O [auth B] Focus chain P [auth B] Focus chain S [auth C]
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain R [auth C] SDF format, chain M [auth B] SDF format, chain I [auth A] MOL2 format, chain R [auth C] MOL2 format, chain M [auth B] MOL2 format, chain I [auth A] mmCIF format, chain R [auth C] mmCIF format, chain M [auth B] mmCIF format, chain I [auth A]	I [auth A], M [auth B], R [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain I [auth A] Focus chain M [auth B] Focus chain R [auth C] Interactions & Density Focus chain I [auth A] Focus chain M [auth B] Focus chain R [auth C]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain L [auth B] MOL2 format, chain H [auth A] MOL2 format, chain L [auth B] mmCIF format, chain H [auth A] mmCIF format, chain L [auth B]	H [auth A], L [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain L [auth B] Interactions & Density Focus chain H [auth A] Focus chain L [auth B]