9FPP | pdb_00009fpp

FGD2 (Rv0132c) from Mycobacterium tuberculosis with cofactor F420 crystallised with Anderson-Evans polyoxotungstate

PDB DOI: https://doi.org/10.2210/pdb9FPP/pdb

Classification: OXIDOREDUCTASE
Organism(s): Mycobacterium tuberculosis H37Rv
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2024-06-13 Released: 2025-06-25
Deposition Author(s): Aderemi, A., Snee, M., Levy, C., Leys, D.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.35 Å
R-Value Free:
0.251 (Depositor), 0.252 (DCC)
R-Value Work:
0.210 (Depositor), 0.211 (DCC)

Starting Model: experimental
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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

FGD2 (Rv0132c) from Mycobacterium tuberculosis with cofactor F420 crystallised with Anderson-Evans polyoxotungstate

Aderemi, A., Snee, M., Leys, D.

To be published.

Macromolecule Content

Total Structure Weight: 156.6 kDa
Atom Count: 10,957
Modeled Residue Count: 1,275
Deposited Residue Count: 1,328
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
F420-dependent hydroxymycolic acid dehydrogenase	A, B, C [auth E], D [auth F]	332	Mycobacterium tuberculosis H37Rv	Mutation(s): 0 Gene Names: fgd2, Rv0132c EC: 1.1.98
UniProt
Find proteins for P96809 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)) Explore P96809 Go to UniProtKB: P96809
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P96809
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
TEW Query on TEW Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain K [auth B] SDF format, chain L [auth E] SDF format, chain M [auth E] SDF format, chain N [auth E] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain K [auth B] MOL2 format, chain L [auth E] MOL2 format, chain M [auth E] MOL2 format, chain N [auth E] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain G [auth A] mmCIF format, chain K [auth B] mmCIF format, chain L [auth E] mmCIF format, chain M [auth E] mmCIF format, chain N [auth E]	E [auth A] F [auth A] G [auth A] K [auth B] L [auth E] E [auth A], F [auth A], G [auth A], K [auth B], L [auth E], M [auth E], N [auth E]	6-tungstotellurate(VI) O₂₄ Te W₆ JDLYBIMRCSJRQJ-UHFFFAOYSA-M		Interactions Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain K [auth B] Focus chain L [auth E] Focus chain M [auth E] Focus chain N [auth E] Interactions & Density Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Focus chain K [auth B] Focus chain L [auth E] Focus chain M [auth E] Focus chain N [auth E]
F42 (Subject of Investigation/LOI) Query on F42 Download Ideal Coordinates CCD File SDF format, chain J [auth B] SDF format, chain Q [auth F] MOL2 format, chain J [auth B] MOL2 format, chain Q [auth F] mmCIF format, chain J [auth B] mmCIF format, chain Q [auth F]	J [auth B], Q [auth F]	COENZYME F420 C₂₉ H₃₆ N₅ O₁₈ P GEHSZWRGPHDXJO-NALJQGANSA-N		Interactions Focus chain J [auth B] Focus chain Q [auth F] Interactions & Density Focus chain J [auth B] Focus chain Q [auth F]
MPD Query on MPD Download Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain P [auth F] MOL2 format, chain I [auth B] MOL2 format, chain P [auth F] mmCIF format, chain I [auth B] mmCIF format, chain P [auth F]	I [auth B], P [auth F]	(4S)-2-METHYL-2,4-PENTANEDIOL C₆ H₁₄ O₂ SVTBMSDMJJWYQN-YFKPBYRVSA-N		Interactions Focus chain I [auth B] Focus chain P [auth F] Interactions & Density Focus chain I [auth B] Focus chain P [auth F]
IMD Query on IMD Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain O [auth E] MOL2 format, chain H [auth A] MOL2 format, chain O [auth E] mmCIF format, chain H [auth A] mmCIF format, chain O [auth E]	H [auth A], O [auth E]	IMIDAZOLE C₃ H₅ N₂ RAXXELZNTBOGNW-UHFFFAOYSA-O		Interactions Focus chain H [auth A] Focus chain O [auth E] Interactions & Density Focus chain H [auth A] Focus chain O [auth E]