8ZIN

Terephthalate 1,2-cis-dihydrodioldehydrogenase/Decarboxylase in complex with 2,4-dihydroxybenzoate.

PDB DOI: https://doi.org/10.2210/pdb8ZIN/pdb

Classification: LYASE
Organism(s): Comamonas testosteroni KF-1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-05-14 Released: 2024-10-16
Deposition Author(s): Kumar, K.A., Pahwa, D., Kumar, P.
Funding Organization(s): Department of Biotechnology (DBT, India)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.290
R-Value Work: 0.253

Starting Model: in silico
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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

Terephthalate 1,2-cis-dihydrodioldehydrogenase/Decarboxylase in complex with 2,4-dihydroxybenzoate.

Kumar, K.A., Pahwa, D.

To be published.

Macromolecule Content

Total Structure Weight: 141.8 kDa
Atom Count: 9,363
Modelled Residue Count: 1,252
Deposited Residue Count: 1,340
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-hydroxythreonine-4-phosphate dehydrogenase	A, B, C, D	335	Comamonas testosteroni KF-1	Mutation(s): 0 Gene Names: CtesDRAFT_PD2128 EC: 1.1.1.262
UniProt
Find proteins for B7WRJ7 (Comamonas testosteroni (strain DSM 14576 / KF-1)) Explore B7WRJ7 Go to UniProtKB: B7WRJ7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B7WRJ7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 6 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
DOB (Subject of Investigation/LOI) Query on DOB Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain P [auth D] MOL2 format, chain G [auth A] MOL2 format, chain P [auth D] mmCIF format, chain G [auth A] mmCIF format, chain P [auth D]	G [auth A], P [auth D]	2,4-DIHYDROXYBENZOIC ACID C₇ H₆ O₄ UIAFKZKHHVMJGS-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain P [auth D] Interactions & Density Focus chain G [auth A] Focus chain P [auth D]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain M [auth B] SDF format, chain N [auth C] SDF format, chain S [auth D] MOL2 format, chain H [auth A] MOL2 format, chain M [auth B] MOL2 format, chain N [auth C] MOL2 format, chain S [auth D] mmCIF format, chain H [auth A] mmCIF format, chain M [auth B] mmCIF format, chain N [auth C] mmCIF format, chain S [auth D]	H [auth A], M [auth B], N [auth C], S [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain H [auth A] Focus chain M [auth B] Focus chain N [auth C] Focus chain S [auth D] Interactions & Density Focus chain H [auth A] Focus chain M [auth B] Focus chain N [auth C] Focus chain S [auth D]
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain I [auth A] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain T [auth D] MOL2 format, chain F [auth A] MOL2 format, chain I [auth A] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain T [auth D] mmCIF format, chain F [auth A] mmCIF format, chain I [auth A] mmCIF format, chain J [auth A] mmCIF format, chain K [auth A] mmCIF format, chain L [auth A] mmCIF format, chain T [auth D]	F [auth A] I [auth A] J [auth A] K [auth A] L [auth A] F [auth A], I [auth A], J [auth A], K [auth A], L [auth A], T [auth D]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain T [auth D] Interactions & Density Focus chain F [auth A] Focus chain I [auth A] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain T [auth D]
CO2 Query on CO2 Download Ideal Coordinates CCD File SDF format, chain Q [auth D] SDF format, chain R [auth D] MOL2 format, chain Q [auth D] MOL2 format, chain R [auth D] mmCIF format, chain Q [auth D] mmCIF format, chain R [auth D]	Q [auth D], R [auth D]	CARBON DIOXIDE C O₂ CURLTUGMZLYLDI-UHFFFAOYSA-N		Interactions Focus chain Q [auth D] Focus chain R [auth D] Interactions & Density Focus chain Q [auth D] Focus chain R [auth D]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain O [auth C] MOL2 format, chain O [auth C] mmCIF format, chain O [auth C]	O [auth C]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain O [auth C] Interactions & Density Focus chain O [auth C]