X-group (possible homology)

7564 Homo-oligomeric flavin-containing Cys decarboxylases, HFCD

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Ligands and drugs

412

Member domains

151

with ligand contacts (≤ 4 Å)

36.7% of members

152

with DrugDomain annotations

36.9% of members

149

with a DrugBank compound

36.2% of members

Aggregated over all current member domains of this group. Drug annotations come from DrugDomain; buffers and crystallization additives are excluded from the tables below.

Chemical profile

ClassyFire chemical superclasses of the ligands bound by this X-group's proteins, from DrugDomain annotations.

Proteins with classified ligands

Superclasses bound (of 23)

—

Superclasses per 20 proteins

fewer than 20 proteins: too few to compare at equal depth

The raw number of superclasses rises with the number of proteins sampled; the per-20 value compares X-groups at equal depth.

Superclass	Proteins	Expected	Ratio	Significance
Nucleosides, nucleotides, and analogues	19	5.2	3.67×	q < 0.0001
Homogeneous metal compounds	2	9.2	0.22×	q = 2.0e-3
Organosulfur compounds	2	0.4	5.19×	not tested
Lipids and lipid-like molecules	4	2.1	1.92×	not tested
Organic acids and derivatives	2	2.9	0.69×	not tested
Homogeneous non-metal compounds	1	4.0	0.25×	not tested

enriched (q < 0.05)depleted (q < 0.05)not significantnot tested (expected < 5)

Unit: a protein (UniProt accession) with a ligand-binding domain in this X-group, counted once per superclass. Expected counts use each superclass's frequency across all ligand-binding X-groups; significance is Fisher's exact test with Benjamini–Hochberg correction. Buffers and crystallization additives are excluded. ECOD v295.2; the method follows the ECOD 2027 update, whose published figures used a slightly different artifact filter.

DrugBank compounds

DrugBank	PDB ligand	Name	Domains
DB03247	FMN	Flavin mononucleotide	123
DB01785	DMA	Dimethylallyl Diphosphate	6
DB03147	FAD	Flavin adenine dinucleotide	6
DB03738	PCO	Pantothenoylaminoethenethiol	2
DB00125	ARG	Arginine	1
DB03345	BME	Mercaptoethanol	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
FMN	FLAVIN MONONUCLEOTIDE	120
4LR	Dimethylallyl monophosphate	18
NAmetal	SODIUM ION	17
HZZ	[(2~{Z})-3,7-dimethylocta-2,6-dienyl] dihydrogen phosphate	12
CL	CHLORIDE ION	9
SCN	THIOCYANATE ION	9
DMA	DIMETHYLALLYL DIPHOSPHATE	6
FAD	FLAVIN-ADENINE DINUCLEOTIDE	6
HJN	[(2~{R},3~{S},4~{S})-5-[5-[(2~{Z})-3,7-dimethylocta-2,6-dienyl]-7,8-dimethyl-2,4-bis(oxidanylidene)-1~{H}-benzo[g]pteridin-10-yl]-2,3,4-tris(oxidanyl)pentyl] dihydrogen phosphate	6
4LS	1-deoxy-1-[7,8-dimethyl-5-(3-methylbut-2-en-1-yl)-2,4-dioxo-1,3,4,5-tetrahydrobenzo[g]pteridin-10(2H)-yl]-5-O-phosphono-D-ribitol	4
4LU	1-deoxy-5-O-phosphono-1-(3,3,4,5-tetramethyl-9,11-dioxo-2,3,8,9,10,11-hexahydro-7H-quinolino[1,8-fg]pteridin-12-ium-7-yl)-D-ribitol	4
FNR	1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H-BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D-RIBITOL	4
Kmetal	POTASSIUM ION	4
ARG	ARGININE	1
BME	BETA-MERCAPTOETHANOL	1
IP8	Isopentenyl phosphate	1
PCO	2,4-DIHYDROXY-N-[2-(2-MERCAPTO-VINYLCARBAMOYL)-ETHYL]-3,3-DIMETHYL-BUTYRAMIDE	1