X-group (possible homology)

5087 Lipovitellin-phosvitin complex

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Ligands and drugs

151

Member domains

with ligand contacts (≤ 4 Å)

12.6% of members

with DrugDomain annotations

11.9% of members

with a DrugBank compound

8.6% 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)

—

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
Hydrocarbons	1	0.0	48×	not tested
Organic nitrogen compounds	1	0.1	11×	not tested
Benzenoids	1	0.2	4.62×	not tested
Organic oxygen compounds	2	0.6	3.40×	not tested
Lipids and lipid-like molecules	1	0.3	3.04×	not tested
Homogeneous non-metal compounds	1	0.6	1.57×	not tested
Homogeneous metal compounds	1	1.5	0.69×	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
DB02379	BGC	Beta-D-Glucose	2
DB03556	PE5	2-(2-{2-[2-(2-{2-[2-(2-Ethoxy-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethanol, Polyethyleneglycol Peg400	2
DB04237	TAM	Tris(Hydroxyethyl)Aminomethane	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CAmetal	CALCIUM ION	4
PLD	di-heneicosanoyl phosphatidyl choline	3
UPL	UNKNOWN BRANCHED FRAGMENT OF PHOSPHOLIPID	3
BGC	beta-D-glucopyranose	2
CL	CHLORIDE ION	2
PE5	3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL	2
420	N-[2-({[5-(DIMETHYLAMINO)NAPHTHALEN-1-YL]SULFONYL}AMINO)ETHYL]-2-IODOACETAMIDE	1
NAmetal	SODIUM ION	1
TAM	TRIS(HYDROXYETHYL)AMINOMETHANE	1