X-group (possible homology)

5084 Outer membrane meander beta-barrels

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Ligands and drugs

3,326

Member domains

1,105

with ligand contacts (≤ 4 Å)

33.2% of members

918

with DrugDomain annotations

27.6% of members

660

with a DrugBank compound

19.8% 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.

113

Proteins with classified ligands

Superclasses bound (of 23)

9.4

Superclasses per 20 proteins

broader than 87% 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
Lipids and lipid-like molecules	40	12.4	3.22×	q < 0.0001
Homogeneous metal compounds	62	54.7	1.13×	q = 0.25
Organic oxygen compounds	24	22.2	1.08×	q = 0.71
Organic acids and derivatives	12	17.2	0.70×	q = 0.26
Homogeneous non-metal compounds	12	24.0	0.50×	q = 0.01
Benzenoids	3	8.2	0.37×	q = 0.10
Organoheterocyclic compounds	6	17.2	0.35×	q = 4.9e-3
Nucleosides, nucleotides, and analogues	5	30.8	0.16×	q < 0.0001
Hydrocarbons	15	0.8	19×	not tested
Organosulfur compounds	4	2.3	1.75×	not tested
Phenylpropanoids and polyketides	4	2.3	1.73×	not tested
Organic nitrogen compounds	4	3.6	1.13×	not tested
Mixed metal/non-metal compounds	1	2.3	0.43×	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
DB03426	DGD	Digalactosyl Diacyl Glycerol (Dgdg)	89
DB04450	HTG	Heptyl 1-Thiohexopyranoside	27
DB02767	FTT	(R)-3-hydroxytetradecanoic acid	18
DB08249	N8E	3,6,9,12,15-PENTAOXATRICOSAN-1-OL	18
DB08231	MYR	Myristic acid	12
DB03193	STE	Stearic acid	11
DB02415	OES	N-Octyl-2-Hydroxyethyl Sulfoxide	9
DB00141	NAG	N-Acetylglucosamine	6
DB03017	DAO	Lauric acid	6
DB03548	KDO	3-deoxy-alpha-D-manno-oct-2-ulopyranosonic acid	6
DB03556	PE5	2-(2-{2-[2-(2-{2-[2-(2-Ethoxy-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethoxy]-Ethoxy}-Ethoxy)-Ethanol, Polyethyleneglycol Peg400	6
DB00115	CNC	Cyanocobalamin	5
DB18267	HEM	Ferroheme	5
DB00171	ATP	ATP	4
DB00254	DXT	Doxycycline	4
DB02130	VNL	Vanillic acid	4
DB03574	FCI	Ferricrocin-iron	4
DB08217	MTN	S-[(1-Hydroxy-2,2,5,5-tetramethyl-2,5-dihydro-1H-pyrrol-3-yl)methyl] methanesulfonothioate	4
DB00142	GLU	Glutamic acid	3
DB00415	AIC	Ampicillin	3

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CAmetal	CALCIUM ION	195
DGD	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	103
NAmetal	SODIUM ION	87
HTG	heptyl 1-thio-beta-D-glucopyranoside	84
MGmetal	MAGNESIUM ION	77
LMG	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE	42
PC1	1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE	28
OCT	N-OCTANE	23
CL	CHLORIDE ION	21
ZNmetal	ZINC ION	19
FEmetal	FE (III) ION	18
FTT	3-HYDROXY-TETRADECANOIC ACID	18
N8E	3,6,9,12,15-PENTAOXATRICOSAN-1-OL	18
CUmetal	COPPER (II) ION	16
Kmetal	POTASSIUM ION	15
MC3	1,2-DIMYRISTOYL-RAC-GLYCERO-3-PHOSPHOCHOLINE	14
LImetal	LITHIUM ION	12
MYR	MYRISTIC ACID	12
D12	DODECANE	11
HEX	HEXANE	11