X-group (possible homology)

7529 Macro domain-like

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Ligands and drugs

3,943

Member domains

2,092

with ligand contacts (≤ 4 Å)

53.1% of members

1,001

with DrugDomain annotations

25.4% of members

433

with a DrugBank compound

11.0% 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)

9.2

Superclasses per 20 proteins

broader than 83% 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
Nucleosides, nucleotides, and analogues	38	14.7	2.58×	q < 0.0001
Homogeneous non-metal compounds	15	11.5	1.31×	q = 0.32
Organoheterocyclic compounds	9	8.2	1.10×	q = 0.77
Organic oxygen compounds	8	10.6	0.76×	q = 0.57
Organic acids and derivatives	6	8.2	0.73×	q = 0.65
Homogeneous metal compounds	10	26.1	0.38×	q < 0.0001
Lipids and lipid-like molecules	2	5.9	0.34×	q = 0.17
Organic nitrogen compounds	3	1.7	1.77×	not tested
Organosulfur compounds	1	1.1	0.91×	not tested
Phenylpropanoids and polyketides	1	1.1	0.90×	not tested
Mixed metal/non-metal compounds	1	1.1	0.89×	not tested
Benzenoids	3	3.9	0.77×	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
DB02059	AR6	Adenosine-5-Diphosphoribose	46
DB09459	TLA	L-tartaric acid	11
DB16833	ADP	Adenosine disphosphate	8
DB01694	TAR	D-tartaric acid	6
DB03309	NHE	N-cyclohexyltaurine	6
DB15686	U08	GS-441524	5
DB00640	ADN	Adenosine	3
DB02184	DTV	D-1,4-dithiothreitol	3
DB03434	MPO	3-(N-morpholino)propanesulfonic acid	3
DB14128	NAD	Nadide	3
DB00131	AMP	Adenosine phosphate	2
DB00356	CLW	Chlorzoxazone	2
DB00991	BJ6	Oxaprozin	2
DB01774	ADQ	Adenosine-5'-Monophosphate Glucopyranosyl-Monophosphate Ester	2
DB03056	4PN	4-Piperidino-Piperidine	2
DB03780	AQO	2-Aminoquinazolin-4(3h)-One	2
DB00145	GLY	Glycine	1
DB00171	ATP	ATP	1
DB00233	BHA	Aminosalicylic acid	1
DB00339	PZA	Pyrazinamide	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CL	CHLORIDE ION	702
APR	ADENOSINE-5-DIPHOSPHORIBOSE	114
AR6	[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL[HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE	59
TFA	trifluoroacetic acid	56
NAmetal	SODIUM ION	21
MGmetal	MAGNESIUM ION	19
XJV	imidazolidin-2-one	17
A1R	5'-O-[(S)-{[(S)-{[(2R,3R,4S)-3,4-DIHYDROXYPYRROLIDIN-2-YL]METHOXY}(HYDROXY)PHOSPHORYL]OXY}(HYDROXY)PHOSPHORYL]ADENOSINE	14
W3G	pyridazin-3(2H)-one	13
W3S	[1,2,4]triazolo[4,3-a]pyridin-3-amine	13
A1AP7	4-(4-methyl-1H-pyrazol-5-yl)pyridine	11
TLA	L(+)-TARTARIC ACID	11
ZNmetal	ZINC ION	11
CAmetal	CALCIUM ION	10
ADP	ADENOSINE-5'-DIPHOSPHATE	9
W1P	5-methyl-2-phenyl-2,4-dihydro-3H-pyrazol-3-one	9
K34	5-(1,3-thiazol-2-yl)-1H-1,2,4-triazole	8
JNT	[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2~{R},3~{S},4~{S})-2,3,4,5-tetrakis(oxidanyl)pentyl] hydrogen phosphate	7
MPB	4-HYDROXY-BENZOIC ACID METHYL ESTER	7
1SQ	ISOQUINOLIN-1-AMINE	6