8EJ0

Crystal structure of Fe-S cluster-dependent dehydratase from Paralcaligenes ureilyticus in complex with Mg

PDB DOI: https://doi.org/10.2210/pdb8EJ0/pdb

Classification: LYASE
Organism(s): Paralcaligenes ureilyticus
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2022-09-16 Released: 2023-08-30
Deposition Author(s): Bayaraa, T., Lonhienne, T., Guddat, L.W.
Funding Organization(s): Australian Research Council (ARC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.59 Å
R-Value Free: 0.239
R-Value Work: 0.194
R-Value Observed: 0.195

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of Fe-S cluster-dependent dehydratase from Paralcaligenes ureilyticus in complex with Mg

Bayaraa, T., Lonhienne, T., Guddat, L.W.

To be published.

Macromolecule Content

Total Structure Weight: 251.82 kDa
Atom Count: 17,475
Modelled Residue Count: 2,272
Deposited Residue Count: 2,300
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dihydroxyacid dehydratase	A, B [auth C], C [auth E], D [auth G]	575	Paralcaligenes ureilyticus	Mutation(s): 0 Gene Names: EDC26_11947
UniProt
Find proteins for A0A4R3LQ44 (Paralcaligenes ureilyticus) Explore A0A4R3LQ44 Go to UniProtKB: A0A4R3LQ44
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A4R3LQ44
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FES (Subject of Investigation/LOI) Query on FES Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain I [auth C] SDF format, chain L [auth E] SDF format, chain Q [auth G] MOL2 format, chain E [auth A] MOL2 format, chain I [auth C] MOL2 format, chain L [auth E] MOL2 format, chain Q [auth G]	E [auth A], I [auth C], L [auth E], Q [auth G]	FE2/S2 (INORGANIC) CLUSTER Fe₂ S₂ NIXDOXVAJZFRNF-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain I [auth C] Focus chain L [auth E] Focus chain Q [auth G] Interactions & Density Focus chain E [auth A] Focus chain I [auth C] Focus chain L [auth E] Focus chain Q [auth G]
BCT (Subject of Investigation/LOI) Query on BCT Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain H [auth A] SDF format, chain K [auth C] SDF format, chain N [auth E] SDF format, chain O [auth E] SDF format, chain P [auth E] MOL2 format, chain G [auth A] MOL2 format, chain H [auth A] MOL2 format, chain K [auth C] MOL2 format, chain N [auth E] MOL2 format, chain O [auth E] MOL2 format, chain P [auth E]	G [auth A] H [auth A] K [auth C] N [auth E] O [auth E] G [auth A], H [auth A], K [auth C], N [auth E], O [auth E], P [auth E]	BICARBONATE ION C H O₃ BVKZGUZCCUSVTD-UHFFFAOYSA-M		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain K [auth C] Focus chain N [auth E] Focus chain O [auth E] Focus chain P [auth E] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain K [auth C] Focus chain N [auth E] Focus chain O [auth E] Focus chain P [auth E]
CO2 (Subject of Investigation/LOI) Query on CO2 Download Ideal Coordinates CCD File SDF format, chain S [auth G] MOL2 format, chain S [auth G]	S [auth G]	CARBON DIOXIDE C O₂ CURLTUGMZLYLDI-UHFFFAOYSA-N		Interactions Focus chain S [auth G] Interactions & Density Focus chain S [auth G]
MG (Subject of Investigation/LOI) Query on MG Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain J [auth C] SDF format, chain M [auth E] SDF format, chain R [auth G] MOL2 format, chain F [auth A] MOL2 format, chain J [auth C] MOL2 format, chain M [auth E] MOL2 format, chain R [auth G]	F [auth A], J [auth C], M [auth E], R [auth G]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain J [auth C] Focus chain M [auth E] Focus chain R [auth G] Interactions & Density Focus chain F [auth A] Focus chain J [auth C] Focus chain M [auth E] Focus chain R [auth G]