X-group (possible homology)

371 Phospholipase A2, PLA2

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Ligands and drugs

1,130

Member domains

469

with ligand contacts (≤ 4 Å)

41.5% of members

462

with DrugDomain annotations

40.9% of members

320

with a DrugBank compound

28.3% 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)

9.9

Superclasses per 20 proteins

broader than 93% 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	21	5.8	3.61×	q < 0.0001
Organic oxygen compounds	14	10.4	1.34×	q = 0.29
Homogeneous metal compounds	32	25.7	1.25×	q = 0.14
Homogeneous non-metal compounds	11	11.3	0.98×	q = 1.00
Organoheterocyclic compounds	7	8.0	0.87×	q = 0.89
Organic acids and derivatives	6	8.1	0.74×	q = 0.65
Nucleosides, nucleotides, and analogues	0	14.5	0	q < 0.0001
Alkaloids and derivatives	4	0.2	22×	not tested
Phenylpropanoids and polyketides	6	1.1	5.52×	not tested
Benzenoids	17	3.8	4.45×	not tested
Organic nitrogen compounds	3	1.7	1.80×	not tested
Organosulfur compounds	1	1.1	0.93×	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
DB04786	SVR	Suramin	15
DB02795	ANN	P-Anisic Acid	11
DB02448	TDA	N-Tridecanoic Acid	8
DB11909	VRD	Varespladib	8
DB03565	GEL	1-O-Octyl-2-Heptylphosphonyl-Sn-Glycero-3-Phosphoethanolamine	7
DB03017	DAO	Lauric acid	6
DB04112	INB	(2R)-2-Acetamido-3-(octadecyloxy)propyl 2-(methylsulfanyl)ethyl hydrogen phosphate	6
DB02210	HEZ	Hexane-1,6-Diol	5
DB02636	9AR	9-Hydroxy-8-Methoxy-6-Nitro-Phenanthrol[3,4-D][1,3]Dioxole-5-Carboxylic Acid	5
DB03784	ELD	Elaidamide	5
DB00328	IMN	Indomethacin	4
DB00945	AIN	Acetylsalicylic acid	4
DB01880	DHC	3,4-Dihydroxycinnamic Acid	4
DB02515	G3P	sn-glycerol 3-phosphate	4
DB03193	STE	Stearic acid	4
DB03508	ME2	Diethylene glycol ethyl methyl ether	4
DB04287	BHP	KH064	4
DB04519	OCA	Caprylic acid	4
DB04743	NIM	Nimesulide	4
DB08231	MYR	Myristic acid	4

Most frequently bound compounds

PDB ligand	Name	Domains in contact
CAmetal	CALCIUM ION	205
CL	CHLORIDE ION	62
NAmetal	SODIUM ION	31
SVR	8,8'-[CARBONYLBIS[IMINO-3,1-PHENYLENECARBONYLIMINO(4-METHYL-3,1-PHENYLENE)CARBONYLIMINO]]BIS-1,3,5-NAPHTHALENETRISULFONIC ACID	14
ZNmetal	ZINC ION	11
ANN	4-METHOXYBENZOIC ACID	9
MJI	1-HEXADECYL-3-TRIFLUOROETHYL-SN-GLYCERO-2-PHOSPHATE METHANE	8
PBP	p-Bromophenacyl bromide	8
VRD	({3-[amino(oxo)acetyl]-1-benzyl-2-ethyl-1H-indol-4-yl}oxy)acetic acid	8
AJM	AJMALINE	7
MRD	(4R)-2-METHYLPENTANE-2,4-DIOL	7
CDmetal	CADMIUM ION	6
GEL	1-O-OCTYL-2-HEPTYLPHOSPHONYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE	6
INB	1-OCTADECYL-2-ACETAMIDO-2-DEOXY-SN-GLYCEROL-3-PHOSPHOETHYLMETHYL SULFIDE	6
OAP	4-(S)-[(1-OXO-7-PHENYLHEPTYL)AMINO]-5-[4-(PHENYLMETHYL)PHENYLTHIO]PENTANOIC ACID	6
VIT	VITAMIN E	6
TDA	N-TRIDECANOIC ACID	5
9AR	9-HYDROXY ARISTOLOCHIC ACID	4
AIN	2-(ACETYLOXY)BENZOIC ACID	4
BHP	(S)-5-(4-BENZYLOXY-PHENYL)-4-(7-PHENYL-HEPTANOYLAMINO)-PENTANOIC ACID	4