X-group (possible homology)

4294 Trm112p-like

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Ligands and drugs

1,296

Member domains

712

with ligand contacts (≤ 4 Å)

54.9% of members

649

with DrugDomain annotations

50.1% of members

102

with a DrugBank compound

7.9% 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)

6.3

Superclasses per 20 proteins

narrower than 71% 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	15	15.5	0.97×	q = 1.00
Homogeneous non-metal compounds	4	6.8	0.59×	q = 0.36
Organic oxygen compounds	2	6.3	0.32×	q = 0.11
Nucleosides, nucleotides, and analogues	0	8.7	0	q = 2.2e-4
Organoheterocyclic compounds	10	4.9	2.06×	not tested
Lipids and lipid-like molecules	6	3.5	1.71×	not tested
Benzenoids	2	2.3	0.87×	not tested
Organic acids and derivatives	1	4.9	0.20×	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
DB03317	HEC	Ferroheme C	16
DB01117	AOQ	Atovaquone	6
DB01728	PEF	1,2-dihexadecanoyl-sn-glycero-3-phosphoethanolamine	5
DB00126	ASC	Ascorbic acid	4
DB07778	FMX	(S)-famoxadone	4
DB09270	U10	Ubidecarenone	2
DB18267	HEM	Ferroheme	2
DB00172	PRO	Proline	1
DB02686	UMQ	Undecyl-Beta-D-Maltopyranoside	1
DB07640	DCQ	2-decyl-5,6-dimethoxy-3-methylcyclohexa-2,5-diene-1,4-dione	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
FES	FE2/S2 (INORGANIC) CLUSTER	689
SMA	STIGMATELLIN A	42
HEC	HEME C	16
ZNmetal	ZINC ION	15
MGmetal	MAGNESIUM ION	9
CL	CHLORIDE ION	7
AOQ	2-[trans-4-(4-chlorophenyl)cyclohexyl]-3-hydroxynaphthalene-1,4-dione	6
COmetal	COBALT (II) ION	6
PL9	2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE	6
ASC	ASCORBIC ACID	4
HGmetal	MERCURY (II) ION	4
NImetal	NICKEL (II) ION	4
UQ5	2,3-DIMETHOXY-5-METHYL-6-(3,11,15,19-TETRAMETHYL-EICOSA-2,6,10,14,18-PENTAENYL)-[1,4]BENZOQUINONE	4
UQ7	UBIQUINONE-7	4
BNT	2,5-DIBROMO-3-ISOPROPYL-6-METHYLBENZO-1,4-QUINONE	2
FEmetal	FE (III) ION	2
HEM	PROTOPORPHYRIN IX CONTAINING FE	2
PG0	2-(2-METHOXYETHOXY)ETHANOL	2
U10	UBIQUINONE-10	2
9YF	(2R)-2-(hexadecanoyloxy)-3-{[(S)-hydroxy{[(1R,2R,3R,4R,5R,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}propyl (9S)-9-methyloctadecanoate	1