X-group (possible homology)

307 Hedgehog/DD-peptidase

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Ligands and drugs

256

Member domains

118

with ligand contacts (≤ 4 Å)

46.1% of members

113

with DrugDomain annotations

44.1% of members

with a DrugBank compound

26.6% 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)

5.0

Superclasses per 20 proteins

narrower than 82% of the 256 X-groups with enough proteins to compare (median 7.6)

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
Homogeneous metal compounds	19	9.7	1.96×	q < 0.0001
Nucleosides, nucleotides, and analogues	0	5.5	0	q = 8.0e-3
Homogeneous non-metal compounds	10	4.2	2.36×	not tested
Organic acids and derivatives	5	3.1	1.64×	not tested
Lipids and lipid-like molecules	1	2.2	0.46×	not tested
Organic oxygen compounds	1	3.9	0.26×	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
DB01786	DAL	D-Alanine	9
DB03796	PLM	Palmitic Acid	8
DB04540	CLR	Cholesterol	7
DB00123	LYS	Lysine	5
DB00133	SER	Serine	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
ZNmetal	ZINC ION	105
CAmetal	CALCIUM ION	33
CL	CHLORIDE ION	25
DAL	D-ALANINE	9
CLR	CHOLESTEROL	7
PLM	PALMITIC ACID	7
MGmetal	MAGNESIUM ION	6
CUmetal	COPPER (II) ION	4
2D8	(2R)-3-[(R)-[(1S)-1-aminoethyl](hydroxy)phosphoryl]-2-methylpropanoic acid	3
LY0	(2R)-3-[(R)-[(1R)-1-aminoethyl](hydroxy)phosphoryl]-2-methylpropanoic acid	3
LYS	LYSINE	1
SER	SERINE	1