X-group (possible homology)

393 GLA-domain

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Ligands and drugs

200

Member domains

with ligand contacts (≤ 4 Å)

30.0% of members

with DrugDomain annotations

19.5% of members

with a DrugBank compound

4.0% 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
Organic nitrogen compounds	1	0.2	4.54×	not tested
Lipids and lipid-like molecules	2	0.8	2.60×	not tested
Homogeneous metal compounds	7	3.4	2.07×	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
DB09332	—	—	4
DB00170	—	Menadione	2
DB03095	TMA	Tetramethylammonium	2
DB03847	—	—	2
DB04136	LPS	Lysophosphotidylserine	2
DB07376	—	5-(DIMETHYLAMINO)-1-NAPHTHALENESULFONIC ACID(DANSYL ACID)	2
DB12598	—	Nafamostat	2
DB00006	—	—	1
DB00278	—	—	1
DB00464	—	—	1
DB00569	—	—	1
DB01593	—	—	1
DB01725	—	2-{2-hydroxy-[1,1'-biphenyl]-3-yl}-1H-1,3-benzodiazole-5-carboximidamide	1
DB01766	—	Beta-(2-Naphthyl)-Alanine	1
DB02287	—	2-(2-hydroxy-phenyl)-3H-benzoimidazole-5-carboxamidine	1
DB04898	—	—	1
DB05713	—	—	1
DB05714	—	—	1
DB06406	—	—	1
DB06635	—	—	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CAmetal	CALCIUM ION	46
MGmetal	MAGNESIUM ION	23
CO2	CARBON DIOXIDE	1
LPS	O-{HYDROXY[((2R)-2-HYDROXY-3-{[(1S)-1-HYDROXYPENTADECYL]OXY}PROPYL)OXY]PHOSPHORYL}-L-SERINE	1
RBmetal	RUBIDIUM ION	1
SRmetal	STRONTIUM ION	1
TMA	TETRAMETHYLAMMONIUM ION	1