21CJ | pdb_000021cj

Co-crystal structure of aldehyde dehydrogenase PHBDD variant R166M-E259L complexed with substrate

PDB DOI: https://doi.org/10.2210/pdb21CJ/pdb

Classification: OXIDOREDUCTASE
Organism(s): Pseudomonas putida
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2025-12-08 Released: 2026-10-28
Deposition Author(s): Jun, Y., Qiu, X.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.58 Å
R-Value Free:
0.185 (Depositor), 0.186 (DCC)
R-Value Work:
0.165 (Depositor), 0.166 (DCC)
R-Value Observed:
0.166 (Depositor)

wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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

Literature

Co-crystal structure of aldehyde dehydrogenase PHBDD variant R166M-E259L complexed with substrate

Jun, Y., Qiu, X., Xiaoguang, L.

To be published.

Macromolecule Content

Total Structure Weight: 226.36 kDa
Atom Count: 16,613
Modeled Residue Count: 1,949
Deposited Residue Count: 2,076
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-hydroxybenzaldehyde dehydrogenase (NADP(+))	A, B, C, D	519	Pseudomonas putida	Mutation(s): 2 Gene Names: pchA EC: 1.2.1.96
UniProt
Find proteins for Q59702 (Pseudomonas putida) Explore Q59702 Go to UniProtKB: Q59702
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q59702
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1EDC (Subject of Investigation/LOI) Query on A1EDC Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth B] SDF format, chain G [auth C] SDF format, chain H [auth D] MOL2 format, chain E [auth A] MOL2 format, chain F [auth B] MOL2 format, chain G [auth C] MOL2 format, chain H [auth D] mmCIF format, chain E [auth A] mmCIF format, chain F [auth B] mmCIF format, chain G [auth C] mmCIF format, chain H [auth D]	E [auth A], F [auth B], G [auth C], H [auth D]	1~{H}-pyrrolo[2,3-b]pyridine-4-carbaldehyde C₈ H₆ N₂ O IEPOMBHPYZJZNR-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.58 Å
R-Value Free: 0.185 (Depositor), 0.186 (DCC)
R-Value Work: 0.165 (Depositor), 0.166 (DCC)
R-Value Observed: 0.166 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.633	α = 90
b = 122.33	β = 105.67
c = 88.974	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
DIALS	data reduction
PHENIX	phasing
PDB_EXTRACT	data extraction

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-10-28

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: 2026-10-28
Type: Initial release