X-group (possible homology)

5036 Cytochrome b559 subunits

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Ligands and drugs

817

Member domains

688

with ligand contacts (≤ 4 Å)

84.2% of members

499

with DrugDomain annotations

61.1% of members

499

with a DrugBank compound

61.1% 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)

3.8

Superclasses per 20 proteins

narrower than 92% 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
Organic oxygen compounds	2	6.1	0.33×	q = 0.11
Homogeneous metal compounds	2	15.0	0.13×	q < 0.0001
Homogeneous non-metal compounds	0	6.6	0	q = 3.1e-3
Nucleosides, nucleotides, and analogues	0	8.5	0	q = 2.1e-4
Lipids and lipid-like molecules	31	3.4	9.11×	not tested
Organoheterocyclic compounds	4	4.7	0.85×	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
DB18267	HEM	Ferroheme	463
DB02043	LHG	1,2-Dipalmitoyl-Phosphatidyl-Glycerole	282
DB06755	BCR	Beta carotene	265
DB03426	DGD	Digalactosyl Diacyl Glycerol (Dgdg)	236
DB03193	STE	Stearic acid	50
DB03317	HEC	Ferroheme C	36
DB04450	HTG	Heptyl 1-Thiohexopyranoside	5
DB04735	MGE	Monogalactosyldiacylglycerol	2

Most frequently bound compounds

PDB ligand	Name	Domains in contact
HEM	PROTOPORPHYRIN IX CONTAINING FE	650
LHG	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE	350
LMG	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE	337
BCR	BETA-CAROTENE	323
SQD	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL	304
PL9	2,3-DIMETHYL-5-(3,7,11,15,19,23,27,31,35-NONAMETHYL-2,6,10,14,18,22,26,30,34-HEXATRIACONTANONAENYL-2,5-CYCLOHEXADIENE-1,4-DIONE-2,3-DIMETHYL-5-SOLANESYL-1,4-BENZOQUINONE	244
DGD	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	121
CLA	CHLOROPHYLL A	73
CAmetal	CALCIUM ION	45
UNL	Unknown ligand	43
STE	STEARIC ACID	35
HEC	HEME C	34
8CT	(6'R,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene	13
MGE	(1S)-2-(ALPHA-L-ALLOPYRANOSYLOXY)-1-[(TRIDECANOYLOXY)METHYL]ETHYL PALMITATE	10
4RF	Tripalmitoylglycerol	8
PLM	PALMITIC ACID	8
MGmetal	MAGNESIUM ION	7
HTG	heptyl 1-thio-beta-D-glucopyranoside	5
LFA	EICOSANE	4
WVN	1,3,3-trimethyl-2-[(1E,3E,5E,7E,9E,11E,13E,15E,17E)-3,7,12,16-tetramethyl-18-[(1R)-2,6,6-trimethylcyclohex-2-en-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohexene	4