X-group (possible homology)

247 Metallo-hydrolase/oxidoreductase

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Ligands and drugs

4,757

Member domains

1,994

with ligand contacts (≤ 4 Å)

41.9% of members

1,716

with DrugDomain annotations

36.1% of members

1,076

with a DrugBank compound

22.6% 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.

195

Proteins with classified ligands

Superclasses bound (of 23)

8.6

Superclasses per 20 proteins

broader than 70% 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	191	94.4	2.02×	q < 0.0001
Benzenoids	18	14.1	1.28×	q = 0.34
Organic acids and derivatives	36	29.8	1.21×	q = 0.30
Homogeneous non-metal compounds	49	41.4	1.18×	q = 0.25
Organoheterocyclic compounds	18	29.6	0.61×	q = 0.04
Lipids and lipid-like molecules	11	21.4	0.51×	q = 0.03
Organic nitrogen compounds	3	6.1	0.49×	q = 0.37
Organic oxygen compounds	11	38.3	0.29×	q < 0.0001
Nucleosides, nucleotides, and analogues	12	53.2	0.23×	q < 0.0001
Lignans, neolignans and related compounds	1	0.1	6.97×	not tested
Phenylpropanoids and polyketides	8	4.0	2.00×	not tested
Organohalogen compounds	1	0.6	1.83×	not tested
Organosulfur compounds	6	4.0	1.52×	not tested
Mixed metal/non-metal compounds	2	4.0	0.49×	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
DB03247	FMN	Flavin mononucleotide	52
DB14522	OH	Hydroxide ion	37
DB09140	OXY	Oxygen	19
DB01197	X8Z	Captopril	13
DB02032	MCO	Epicaptopril	12
DB03345	BME	Mercaptoethanol	11
DB02210	HEZ	Hexane-1,6-Diol	8
DB03685	U5P	Uridine monophosphate	7
DB00143	GSH	Glutathione	6
DB02527	CMP	Cyclic adenosine monophosphate	6
DB03793	BEZ	Benzoic acid	6
DB09459	TLA	L-tartaric acid	5
DB00145	GLY	Glycine	4
DB02593	113	7,8-Dihydroxy-1-Methoxy-3-Methyl-10-Oxo-4,10-Dihydro-1h,3h-Pyrano[4,3-B]Chromene-9-Carboxylic Acid	4
DB04740	MX1	Moxalactam (hydrolyzed)	4
DB07532	C6L	N-hexanoyl-L-homoserine	4
DB00139	SIN	Succinic acid	3
DB01972	5GP	Guanosine-5'-Monophosphate	3
DB03945	PC	N,N,N-Trimethyl-2-(phosphonooxy)ethanaminium	3
DB08324	OHN	N-3-OXO-DODECANOYL-L-HOMOSERINE LACTONE	3

Most frequently bound compounds

PDB ligand	Name	Domains in contact
ZNmetal	ZINC ION	1,386
NImetal	NICKEL (II) ION	354
CL	CHLORIDE ION	149
FEmetal	FE (III) ION	139
NAmetal	SODIUM ION	69
CAmetal	CALCIUM ION	58
FMN	FLAVIN MONONUCLEOTIDE	52
COmetal	COBALT (II) ION	49
MNmetal	MANGANESE (II) ION	47
MGmetal	MAGNESIUM ION	38
OH	HYDROXIDE ION	37
CDmetal	CADMIUM ION	33
ZZ7	(2R,4S)-2-[(R)-{[(2R)-2-amino-2-phenylacetyl]amino}(carboxy)methyl]-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid	24
O	OXYGEN ATOM	20
Kmetal	POTASSIUM ION	18
OXY	OXYGEN MOLECULE	18
X8Z	L-CAPTOPRIL	14
MCO	1-(3-MERCAPTO-2-METHYL-PROPIONYL)-PYRROLIDINE-2-CARBOXYLIC ACID	13
HIW	(2R,4S)-2-[(1S,2R)-1-carboxy-2-hydroxypropyl]-4-[(2-{[(Z)-iminomethyl]amino}ethyl)sulfanyl]-3,4-dihydro-2H-pyrrole-5-carboxylic acid	12
TBmetal	TERBIUM(III) ION	12