8UAS

Rhodococcus ruber Alcohol Dehydrogenase NADH Biomimetic Complex - Compound 1a

PDB DOI: https://doi.org/10.2210/pdb8UAS/pdb

Classification: OXIDOREDUCTASE
Organism(s): Rhodococcus ruber
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-09-22 Released: 2024-07-03
Deposition Author(s): Wilson, L.A., Guddat, L.W., Schenk, G., Scott, C.
Funding Organization(s): Commonwealth Scientific and Industrial Research Organisation (CSIRO)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.210
R-Value Work: 0.182
R-Value Observed: 0.182

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structural Characterization of Enzymatic Interactions with Functional Nicotinamide Cofactor Biomimetics

Rocha, R.A., Wilson, L.A., Schwartz, B.D., Warden, A.C., Guddat, L.W., Speight, R.E., Malins, L., Schenk, G., Scott, C.

(2024) Catalysts 14

DOI: https://doi.org/10.3390/catal14070399

Macromolecule Content

Total Structure Weight: 453.94 kDa
Atom Count: 32,483
Modelled Residue Count: 4,189
Deposited Residue Count: 4,380
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhodococcus ruber Alcohol Dehydrogenase Chain A	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	365	Rhodococcus ruber	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
W3O (Subject of Investigation/LOI) Query on W3O Download Ideal Coordinates CCD File SDF format, chain AA [auth D] SDF format, chain CB [auth K] SDF format, chain DB [auth L] SDF format, chain EA [auth E] SDF format, chain IA [auth F] SDF format, chain MA [auth G] SDF format, chain PA [auth H] SDF format, chain UA [auth I] SDF format, chain V [auth C] SDF format, chain YA [auth J] MOL2 format, chain AA [auth D] MOL2 format, chain CB [auth K] MOL2 format, chain DB [auth L] MOL2 format, chain EA [auth E] MOL2 format, chain IA [auth F] MOL2 format, chain MA [auth G] MOL2 format, chain PA [auth H] MOL2 format, chain UA [auth I] MOL2 format, chain V [auth C] MOL2 format, chain YA [auth J]	AA [auth D] CB [auth K] DB [auth L] EA [auth E] IA [auth F] AA [auth D], CB [auth K], DB [auth L], EA [auth E], IA [auth F], MA [auth G], PA [auth H], UA [auth I], V [auth C], YA [auth J]	1-[3-[~{tert}-butyl(dimethyl)silyl]oxypropyl]pyridine-3-carboxamide C₁₅ H₂₇ N₂ O₂ Si IGAWBMMYKICDLH-UHFFFAOYSA-O		Interactions Focus chain AA [auth D] Focus chain CB [auth K] Focus chain DB [auth L] Focus chain EA [auth E] Focus chain IA [auth F] Focus chain MA [auth G] Focus chain PA [auth H] Focus chain UA [auth I] Focus chain V [auth C] Focus chain YA [auth J] Interactions & Density Focus chain AA [auth D] Focus chain CB [auth K] Focus chain DB [auth L] Focus chain EA [auth E] Focus chain IA [auth F] Focus chain MA [auth G] Focus chain PA [auth H] Focus chain UA [auth I] Focus chain V [auth C] Focus chain YA [auth J]
CIT Query on CIT Download Ideal Coordinates CCD File SDF format, chain RA [auth I] MOL2 format, chain RA [auth I]	RA [auth I]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain RA [auth I] Interactions & Density Focus chain RA [auth I]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain AB [auth K] SDF format, chain BB [auth K] SDF format, chain CA [auth E] SDF format, chain DA [auth E] SDF format, chain EB [auth L] SDF format, chain FB [auth L] SDF format, chain GA [auth F] SDF format, chain HA [auth F] SDF format, chain KA [auth G] SDF format, chain LA [auth G] SDF format, chain N [auth A] SDF format, chain NA [auth H] SDF format, chain O [auth A] SDF format, chain OA [auth H] SDF format, chain Q [auth B] SDF format, chain R [auth B] SDF format, chain SA [auth I] SDF format, chain T [auth C] SDF format, chain TA [auth I] SDF format, chain U [auth C] SDF format, chain WA [auth J] SDF format, chain XA [auth J] SDF format, chain Y [auth D] SDF format, chain Z [auth D] MOL2 format, chain AB [auth K] MOL2 format, chain BB [auth K] MOL2 format, chain CA [auth E] MOL2 format, chain DA [auth E] MOL2 format, chain EB [auth L] MOL2 format, chain FB [auth L] MOL2 format, chain GA [auth F] MOL2 format, chain HA [auth F] MOL2 format, chain KA [auth G] MOL2 format, chain LA [auth G] MOL2 format, chain N [auth A] MOL2 format, chain NA [auth H] MOL2 format, chain O [auth A] MOL2 format, chain OA [auth H] MOL2 format, chain Q [auth B] MOL2 format, chain R [auth B] MOL2 format, chain SA [auth I] MOL2 format, chain T [auth C] MOL2 format, chain TA [auth I] MOL2 format, chain U [auth C] MOL2 format, chain WA [auth J] MOL2 format, chain XA [auth J] MOL2 format, chain Y [auth D] MOL2 format, chain Z [auth D]	AB [auth K] BB [auth K] CA [auth E] DA [auth E] EB [auth L] AB [auth K], BB [auth K], CA [auth E], DA [auth E], EB [auth L], FB [auth L], GA [auth F], HA [auth F], KA [auth G], LA [auth G], N [auth A], NA [auth H], O [auth A], OA [auth H], Q [auth B], R [auth B], SA [auth I], T [auth C], TA [auth I], U [auth C], WA [auth J], XA [auth J], Y [auth D], Z [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain AB [auth K] Focus chain BB [auth K] Focus chain CA [auth E] Focus chain DA [auth E] Focus chain EB [auth L] Focus chain FB [auth L] Focus chain GA [auth F] Focus chain HA [auth F] Focus chain KA [auth G] Focus chain LA [auth G] Focus chain N [auth A] Focus chain NA [auth H] Focus chain O [auth A] Focus chain OA [auth H] Focus chain Q [auth B] Focus chain R [auth B] Focus chain SA [auth I] Focus chain T [auth C] Focus chain TA [auth I] Focus chain U [auth C] Focus chain WA [auth J] Focus chain XA [auth J] Focus chain Y [auth D] Focus chain Z [auth D] Interactions & Density Focus chain AB [auth K] Focus chain BB [auth K] Focus chain CA [auth E] Focus chain DA [auth E] Focus chain EB [auth L] Focus chain FB [auth L] Focus chain GA [auth F] Focus chain HA [auth F] Focus chain KA [auth G] Focus chain LA [auth G] Focus chain N [auth A] Focus chain NA [auth H] Focus chain O [auth A] Focus chain OA [auth H] Focus chain Q [auth B] Focus chain R [auth B] Focus chain SA [auth I] Focus chain T [auth C] Focus chain TA [auth I] Focus chain U [auth C] Focus chain WA [auth J] Focus chain XA [auth J] Focus chain Y [auth D] Focus chain Z [auth D]
IPA Query on IPA Download Ideal Coordinates CCD File SDF format, chain FA [auth F] SDF format, chain JA [auth G] SDF format, chain M [auth A] SDF format, chain QA [auth I] SDF format, chain S [auth C] SDF format, chain W [auth D] SDF format, chain X [auth D] MOL2 format, chain FA [auth F] MOL2 format, chain JA [auth G] MOL2 format, chain M [auth A] MOL2 format, chain QA [auth I] MOL2 format, chain S [auth C] MOL2 format, chain W [auth D] MOL2 format, chain X [auth D]	FA [auth F] JA [auth G] M [auth A] QA [auth I] S [auth C] FA [auth F], JA [auth G], M [auth A], QA [auth I], S [auth C], W [auth D], X [auth D]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Interactions Focus chain FA [auth F] Focus chain JA [auth G] Focus chain M [auth A] Focus chain QA [auth I] Focus chain S [auth C] Focus chain W [auth D] Focus chain X [auth D] Interactions & Density Focus chain FA [auth F] Focus chain JA [auth G] Focus chain M [auth A] Focus chain QA [auth I] Focus chain S [auth C] Focus chain W [auth D] Focus chain X [auth D]
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain BA [auth D] SDF format, chain P [auth A] SDF format, chain VA [auth I] SDF format, chain ZA [auth J] MOL2 format, chain BA [auth D] MOL2 format, chain P [auth A] MOL2 format, chain VA [auth I] MOL2 format, chain ZA [auth J]	BA [auth D], P [auth A], VA [auth I], ZA [auth J]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain BA [auth D] Focus chain P [auth A] Focus chain VA [auth I] Focus chain ZA [auth J] Interactions & Density Focus chain BA [auth D] Focus chain P [auth A] Focus chain VA [auth I] Focus chain ZA [auth J]