X-group (possible homology)

386 beta-beta-alpha zinc fingers

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Ligands and drugs

21,110

Member domains

1,537

with ligand contacts (≤ 4 Å)

7.3% of members

906

with DrugDomain annotations

4.3% of members

with a DrugBank compound

0.5% 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.

163

Proteins with classified ligands

Superclasses bound (of 23)

3.9

Superclasses per 20 proteins

narrower than 91% 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	159	78.9	2.02×	q < 0.0001
Lipids and lipid-like molecules	6	17.9	0.34×	q = 3.4e-3
Homogeneous non-metal compounds	10	34.6	0.29×	q < 0.0001
Benzenoids	2	11.8	0.17×	q = 2.7e-3
Organoheterocyclic compounds	4	24.7	0.16×	q < 0.0001
Organic acids and derivatives	2	24.9	0.08×	q < 0.0001
Nucleosides, nucleotides, and analogues	3	44.4	0.07×	q < 0.0001
Organic oxygen compounds	1	32.0	0.03×	q < 0.0001
Organic nitrogen compounds	0	5.1	0	q = 0.02
Organosulfur compounds	1	3.3	0.30×	not tested
Mixed metal/non-metal compounds	1	3.4	0.30×	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
DB02884	—	3-Cyclohexyl-L-alanine	12
DB05483	—	Picolinic acid	12
DB01992	COA	Coenzyme A	8
DB02912	1VU	Propanoyl-CoA	2
DB09459	TLA	L-tartaric acid	2
DB02039	—	—	1
DB02736	ACM	Acetamide	1
DB03345	BME	Mercaptoethanol	1
DB03699	SCA	Succinyl-Coenzyme A	1
DB05289	—	Tarenflurbil	1
DB11326	BO3	Boric acid	1
DB12101	8W7	Iberdomide	1
DB17584	QFC	Mezigdomide	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
ZNmetal	ZINC ION	1,510
CL	CHLORIDE ION	52
NAmetal	SODIUM ION	23
MGmetal	MAGNESIUM ION	19
Y70	S-Pomalidomide	15
ACO	ACETYL COENZYME *A	9
UNX	UNKNOWN ATOM OR ION	8
COA	COENZYME A	7
8W7	(3S)-3-[4-({4-[(morpholin-4-yl)methyl]phenyl}methoxy)-1-oxo-1,3-dihydro-2H-isoindol-2-yl]piperidine-2,6-dione	5
COmetal	COBALT (II) ION	5
QFC	Mezigdomide	4
RN9	3-[3-[[1-[(3~{S})-2,6-bis(oxidanylidene)piperidin-3-yl]-2,5-bis(oxidanylidene)pyrrol-3-yl]amino]phenyl]-~{N}-(3-chloranyl-4-methyl-phenyl)propanamide	4
LWK	(3S)-3-[5-(1-benzylpiperidin-4-yl)-1-oxo-1,3-dihydro-2H-isoindol-2-yl]piperidine-2,6-dione	3
1VU	propionyl Coenzyme A	2
A1MDU	2,6-dimethoxy-~{N}-[4-(pyrazol-1-ylmethyl)-2,3-dihydrofuro[2,3-e][1,2]benzoxazol-8-yl]benzenesulfonamide	2
ACM	ACETAMIDE	2
BME	BETA-MERCAPTOETHANOL	2
CAmetal	CALCIUM ION	2
CMC	CARBOXYMETHYL COENZYME *A	2
MIQ	2-[(3S)-2,6-dioxopiperidin-3-yl]-5-(morpholin-4-yl)-1H-isoindole-1,3(2H)-dione	2