7N2W | pdb_00007n2w

The crystal structure of an FMN-dependent NADH-azoreductase, AzoA in complex with Red 40

PDB DOI: https://doi.org/10.2210/pdb7N2W/pdb

Classification: OXIDOREDUCTASE
Organism(s): Klebsiella pneumoniae subsp. pneumoniae MGH 78578
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-05-30 Released: 2022-06-01
Deposition Author(s): Arcinas, A.J., Fedorov, E., Kelly, L., Almo, S.C., Ghosh, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.65 Å
R-Value Free:
0.302 (Depositor), 0.298 (DCC)
R-Value Work:
0.249 (Depositor), 0.249 (DCC)
R-Value Observed:
0.252 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Uncovering a novel mechanism of enzyme activation in multimeric azoreductases

Hitchings, R., Ryan, A., Arcinas, A.J., Ghosh, A., Almo, S.C., Kelly, L.

To be published.

Macromolecule Content

Total Structure Weight: 100.67 kDa
Atom Count: 6,291
Modeled Residue Count: 804
Deposited Residue Count: 892
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FMN dependent NADH:quinone oxidoreductase	A, B, C, D	223	Klebsiella pneumoniae subsp. pneumoniae MGH 78578	Mutation(s): 0 Gene Names: acpD, azoR, KPN_02994 EC: 1.6.5 (PDB Primary Data), 1.7.1.17 (PDB Primary Data)
UniProt
Find proteins for A6TCS9 (Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)) Explore A6TCS9 Go to UniProtKB: A6TCS9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A6TCS9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN Query on FMN Download:Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain H [auth B] SDF format, chain I [auth C] SDF format, chain L [auth D] MOL2 format, chain E [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth C] MOL2 format, chain L [auth D] mmCIF format, chain E [auth A] mmCIF format, chain H [auth B] mmCIF format, chain I [auth C] mmCIF format, chain L [auth D]	E [auth A], H [auth B], I [auth C], L [auth D]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		Interactions Focus chain E [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain L [auth D] Interactions & Density Focus chain E [auth A] Focus chain H [auth B] Focus chain I [auth C] Focus chain L [auth D]
05G Query on 05G Download:Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth B] SDF format, chain J [auth C] SDF format, chain K [auth C] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] MOL2 format, chain J [auth C] MOL2 format, chain K [auth C] mmCIF format, chain F [auth A] mmCIF format, chain G [auth B] mmCIF format, chain J [auth C] mmCIF format, chain K [auth C]	F [auth A], G [auth B], J [auth C], K [auth C]	6-hydroxy-5-[(E)-(2-methoxy-5-methyl-4-sulfophenyl)diazenyl]naphthalene-2-sulfonic acid C₁₈ H₁₆ N₂ O₈ S₂ UQWIHFJXDRNUDP-FMQUCBEESA-N		Interactions Focus chain F [auth A] Focus chain G [auth B] Focus chain J [auth C] Focus chain K [auth C] Interactions & Density Focus chain F [auth A] Focus chain G [auth B] Focus chain J [auth C] Focus chain K [auth C]