X-group (possible homology)

524 Ypt/Rab-GAP domain of gyp1p-like

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Ligands and drugs

1,582

Member domains

with ligand contacts (≤ 4 Å)

2.0% of members

with DrugDomain annotations

1.8% of members

with a DrugBank compound

1.0% 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
Mixed metal/non-metal compounds	2	0.1	24×	not tested
Nucleosides, nucleotides, and analogues	2	1.1	1.83×	not tested
Organic oxygen compounds	1	0.8	1.27×	not tested
Homogeneous non-metal compounds	1	0.9	1.18×	not tested
Homogeneous metal compounds	2	1.9	1.03×	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
DB04315	GDP	Guanosine-5'-Diphosphate	6
DB03401	I3P	1D-myo-inositol 1,4,5-trisphosphate	2

Most frequently bound compounds

PDB ligand	Name	Domains in contact
UNX	UNKNOWN ATOM OR ION	15
BEF	BERYLLIUM TRIFLUORIDE ION	6
GDP	GUANOSINE-5'-DIPHOSPHATE	6
I3P	D-MYO-INOSITOL-1,4,5-TRIPHOSPHATE	2
MGmetal	MAGNESIUM ION	2
AF3	ALUMINUM FLUORIDE	1
CL	CHLORIDE ION	1