X-group (possible homology)

271 GFP-like

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Ligands and drugs

3,036

Member domains

978

with ligand contacts (≤ 4 Å)

32.2% of members

689

with DrugDomain annotations

22.7% of members

386

with a DrugBank compound

12.7% 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)

8.0

Superclasses per 20 proteins

broader than 58% 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 non-metal compounds	20	7.6	2.62×	q < 0.0001
Homogeneous metal compounds	16	17.4	0.92×	q = 0.80
Organic oxygen compounds	4	7.1	0.57×	q = 0.36
Organoheterocyclic compounds	2	5.5	0.37×	q = 0.22
Organic acids and derivatives	2	5.5	0.36×	q = 0.22
Nucleosides, nucleotides, and analogues	0	9.8	0	q < 0.0001
Organometallic compounds	1	0.1	20×	not tested
Organosulfur compounds	4	0.7	5.48×	not tested
Organic nitrogen compounds	2	1.1	1.77×	not tested
Benzenoids	1	2.6	0.39×	not tested
Lipids and lipid-like molecules	1	4.0	0.25×	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
DB03345	BME	Mercaptoethanol	8
DB11145	HQY	Oxyquinoline	8
DB02219	CXS	3-(cyclohexylamino)propanesulfonic acid	5
DB09157	CO2	Carbon dioxide	5
DB02175	MLA	Malonic acid	3
DB18267	HEM	Ferroheme	3
DB02686	UMQ	Undecyl-Beta-D-Maltopyranoside	2
DB03309	NHE	N-cyclohexyltaurine	2
DB03412	LDO	6-hydroxynorleucine	1
DB03556	PE5	2-(2-{2-[2-(2-{2-[2-(2-Ethoxy-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethanol, Polyethyleneglycol Peg400	1
DB07344	AE4	3,6,9,12,15-PENTAOXAHEPTADECAN-1-OL	1
DB09140	OXY	Oxygen	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CL	CHLORIDE ION	133
MGmetal	MAGNESIUM ION	66
NAmetal	SODIUM ION	62
CUmetal	COPPER (II) ION	46
SO3	SULFITE ION	33
IOD	IODIDE ION	24
NImetal	NICKEL (II) ION	22
CAmetal	CALCIUM ION	21
ZNmetal	ZINC ION	19
Kmetal	POTASSIUM ION	18
BME	BETA-MERCAPTOETHANOL	14
COmetal	COBALT (II) ION	12
CSmetal	CESIUM ION	8
DTT	2,3-DIHYDROXY-1,4-DITHIOBUTANE	8
HQY	quinolin-8-ol	8
SPD	SPERMIDINE	8
BR	BROMIDE ION	7
UNL	Unknown ligand	7
DB5	[(4~{S})-4,5,6,7,8,9-hexahydro-1~{H}-cycloocta[d][1,2,3]triazol-4-yl] hydrogen carbonate	6
CO2	CARBON DIOXIDE	5