X-group (possible homology)

3390 Photosystem II reaction center protein T, PsbT

Open in classification tree →

Ligands and drugs

420

Member domains

333

with ligand contacts (≤ 4 Å)

79.3% of members

235

with DrugDomain annotations

56.0% of members

226

with a DrugBank compound

53.8% 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.

Proteins with classified ligands

Superclasses bound (of 23)

—

Superclasses per 20 proteins

fewer than 20 proteins: too few to compare at equal depth

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	0	7.7	0	q = 1.2e-4
Lipids and lipid-like molecules	16	1.8	9.11×	not tested
Hydrocarbons	1	0.1	9.07×	not tested
Organoheterocyclic compounds	5	2.4	2.06×	not tested
Organic acids and derivatives	1	2.4	0.41×	not tested
Organic oxygen compounds	1	3.1	0.32×	not tested
Homogeneous non-metal compounds	1	3.4	0.29×	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
DB06755	BCR	Beta carotene	217
DB02043	LHG	1,2-Dipalmitoyl-Phosphatidyl-Glycerole	54
DB02133	CLA	Chlorophyll A	48
DB03193	STE	Stearic acid	42
DB03426	DGD	Digalactosyl Diacyl Glycerol (Dgdg)	13
DB04735	MGE	Monogalactosyldiacylglycerol	10
DB03279	LMU	Dodecyl-Alpha-D-Maltoside	2
DB00132	LNL	alpha-Linolenic acid	1
DB04450	HTG	Heptyl 1-Thiohexopyranoside	1
DB04464	FME	N-Formylmethionine	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
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	314
LHG	1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE	296
SQD	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL	294
CLA	CHLOROPHYLL A	289
BCR	BETA-CAROTENE	287
LMG	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE	58
STE	STEARIC ACID	53
UNL	Unknown ligand	47
DGD	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	16
3PH	1,2-DIACYL-GLYCEROL-3-SN-PHOSPHATE	12
8CT	(6'R,11cis,11'cis,13cis,15cis)-4',5'-didehydro-5',6'-dihydro-beta,beta-carotene	12
C7Z	(1~{S})-3,5,5-trimethyl-4-[(1~{E},3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(4~{S})-2,6,6-trimethyl-4-oxidanyl-cyclohexen-1-yl]octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]cyclohex-3-en-1-ol	11
MGE	(1S)-2-(ALPHA-L-ALLOPYRANOSYLOXY)-1-[(TRIDECANOYLOXY)METHYL]ETHYL PALMITATE	10
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
LFA	EICOSANE	3
CL7	CHLOROPHYLL D	2
IOD	IODIDE ION	2
LMU	DODECYL-ALPHA-D-MALTOSIDE	2
LNL	ALPHA-LINOLENIC ACID	2
FME	N-FORMYLMETHIONINE	1