8W0O

GDH-105 crystal structure

PDB DOI: https://doi.org/10.2210/pdb8W0O/pdb

Classification: OXIDOREDUCTASE
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-02-13 Released: 2024-07-24
Deposition Author(s): Peat, T.S., Newman, J.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.66 Å
R-Value Free: 0.197
R-Value Work: 0.173

Starting Model: experimental
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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

Enhancing the Imine Reductase Activity of a Promiscuous Glucose Dehydrogenase for Scalable Manufacturing of a Chiral Neprilysin Inhibitor Precursor

Yi, X., Kleinbeck, F., Ching, C., Boghospor, L., Gomes, S., Alvizo, O., Allmendinger, T., Fell, J., Subramanian, N., Li, M., Garcia, R., Riggins, J., Entwistle, D., Richter, Y., Gschwend, D., Lauener, L., Peat, T.S., Lebhar, H., Schlama, T., Ruch, T.

(2024) ACS Catal 14: 7087-7096

DOI: https://doi.org/10.1021/acscatal.3c05615

Macromolecule Content

Total Structure Weight: 230.46 kDa
Atom Count: 17,193
Modelled Residue Count: 2,072
Deposited Residue Count: 2,088
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dehydrogenase	A B C D E A, B, C, D, E, F [auth H], G [auth F], H [auth G]	261	Bacillus subtilis	Mutation(s): 0 Gene Names: gdh, B4417_2813, CFD21_16405, NRS6116_02705, NRS6202_01215 EC: 1.1.1.47
UniProt
Find proteins for P12310 (Bacillus subtilis (strain 168)) Explore P12310 Go to UniProtKB: P12310
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P12310
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD Query on NAD Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain K [auth B] SDF format, chain M [auth C] SDF format, chain N [auth D] SDF format, chain P [auth E] SDF format, chain R [auth H] SDF format, chain S [auth F] SDF format, chain T [auth G] MOL2 format, chain I [auth A] MOL2 format, chain K [auth B] MOL2 format, chain M [auth C] MOL2 format, chain N [auth D] MOL2 format, chain P [auth E] MOL2 format, chain R [auth H] MOL2 format, chain S [auth F] MOL2 format, chain T [auth G] mmCIF format, chain I [auth A] mmCIF format, chain K [auth B] mmCIF format, chain M [auth C] mmCIF format, chain N [auth D] mmCIF format, chain P [auth E] mmCIF format, chain R [auth H] mmCIF format, chain S [auth F] mmCIF format, chain T [auth G]	I [auth A] K [auth B] M [auth C] N [auth D] P [auth E] I [auth A], K [auth B], M [auth C], N [auth D], P [auth E], R [auth H], S [auth F], T [auth G]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth H] Focus chain S [auth F] Focus chain T [auth G] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain M [auth C] Focus chain N [auth D] Focus chain P [auth E] Focus chain R [auth H] Focus chain S [auth F] Focus chain T [auth G]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain J [auth A] SDF format, chain L [auth B] SDF format, chain O [auth D] SDF format, chain Q [auth E] MOL2 format, chain J [auth A] MOL2 format, chain L [auth B] MOL2 format, chain O [auth D] MOL2 format, chain Q [auth E] mmCIF format, chain J [auth A] mmCIF format, chain L [auth B] mmCIF format, chain O [auth D] mmCIF format, chain Q [auth E]	J [auth A], L [auth B], O [auth D], Q [auth E]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain J [auth A] Focus chain L [auth B] Focus chain O [auth D] Focus chain Q [auth E] Interactions & Density Focus chain J [auth A] Focus chain L [auth B] Focus chain O [auth D] Focus chain Q [auth E]