X-group (possible homology)

3744 Photosystem II antenna protein PsbB insertion domain

Open in classification tree →

Ligands and drugs

452

Member domains

334

with ligand contacts (≤ 4 Å)

73.9% of members

202

with DrugDomain annotations

44.7% of members

with a DrugBank compound

10.8% 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	3	7.3	0.41×	q = 0.06
Lipids and lipid-like molecules	15	1.7	9.11×	not tested
Organoheterocyclic compounds	2	2.3	0.88×	not tested
Organic oxygen compounds	2	3.0	0.68×	not tested
Homogeneous non-metal compounds	1	3.2	0.31×	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
DB02133	CLA	Chlorophyll A	16
DB04450	HTG	Heptyl 1-Thiohexopyranoside	5
DB04735	MGE	Monogalactosyldiacylglycerol	4
DB02043	LHG	1,2-Dipalmitoyl-Phosphatidyl-Glycerole	1
DB03279	LMU	Dodecyl-Alpha-D-Maltoside	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
LMG	1,2-DISTEAROYL-MONOGALACTOSYL-DIGLYCERIDE	314
CLA	CHLOROPHYLL A	283
HTG	heptyl 1-thio-beta-D-glucopyranoside	64
CAmetal	CALCIUM ION	60
CL7	CHLOROPHYLL D	6
MGE	(1S)-2-(ALPHA-L-ALLOPYRANOSYLOXY)-1-[(TRIDECANOYLOXY)METHYL]ETHYL PALMITATE	6
SQD	1,2-DI-O-ACYL-3-O-[6-DEOXY-6-SULFO-ALPHA-D-GLUCOPYRANOSYL]-SN-GLYCEROL	4
F6C	Chlorophyll F	3
UNL	Unknown ligand	3
AJP	Digitonin	2
DGD	DIGALACTOSYL DIACYL GLYCEROL (DGDG)	2
IOD	IODIDE ION	1
LMU	DODECYL-ALPHA-D-MALTOSIDE	1