X-group (possible homology)

4052 Acyl-CoA dehydrogenase middle domain-like

Open in classification tree →

Ligands and drugs

1,587

Member domains

543

with ligand contacts (≤ 4 Å)

34.2% of members

481

with DrugDomain annotations

30.3% of members

424

with a DrugBank compound

26.7% 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)

6.8

Superclasses per 20 proteins

narrower than 64% 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
Nucleosides, nucleotides, and analogues	81	22.6	3.58×	q < 0.0001
Lipids and lipid-like molecules	16	9.1	1.76×	q = 0.04
Benzenoids	4	6.0	0.67×	q = 0.60
Homogeneous non-metal compounds	7	17.6	0.40×	q = 6.2e-3
Organoheterocyclic compounds	5	12.6	0.40×	q = 0.04
Organic acids and derivatives	3	12.7	0.24×	q = 2.8e-3
Organic oxygen compounds	3	16.3	0.18×	q = 1.3e-4
Homogeneous metal compounds	4	40.2	0.10×	q < 0.0001
Organic 1,3-dipolar compounds	1	0.1	15×	not tested
Organic nitrogen compounds	2	2.6	0.77×	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
DB03147	FAD	Flavin adenine dinucleotide	351
DB03247	FMN	Flavin mononucleotide	35
DB01992	COA	Coenzyme A	29
DB04036	COS	Coenzyme A persulfide	18
DB03059	CAA	Acetoacetyl-CoA	9
DB04532	IND	Indole	7
DB02910	CO8	Octanoyl-Coenzyme A	6
DB03103	TYD	Thymidine-5'- Diphosphate	5
DB03415	CS8	3-thiaoctanoyl-CoA	5
DB00127	SPM	Spermine	4
DB03796	PLM	Palmitic Acid	4
DB01675	2MC	Methacrylyl-Coenzyme A	3
DB00172	PRO	Proline	2
DB03017	DAO	Lauric acid	2
DB03568	BUA	Butyric Acid	2
DB03600	DKA	Capric acid	2
DB04519	OCA	Caprylic acid	2
DB07930	HXD	(3R)-3-HYDROXYDODECANOIC ACID	2
DB08231	MYR	Myristic acid	2
DB08685	UFO	1-(1,4-dimethyl-1,2,3,4-tetrahydroquinoxalin-6-yl)methanamine	2

Most frequently bound compounds

PDB ligand	Name	Domains in contact
FAD	FLAVIN-ADENINE DINUCLEOTIDE	407
FDA	DIHYDROFLAVINE-ADENINE DINUCLEOTIDE	39
FMN	FLAVIN MONONUCLEOTIDE	34
COA	COENZYME A	33
CL	CHLORIDE ION	25
COS	COENZYME A PERSULFIDE	17
CAA	ACETOACETYL-COENZYME A	10
CO8	OCTANOYL-COENZYME A	8
IND	INDOLE	7
4HP	4-HYDROXYPHENYLACETATE	6
DAO	LAURIC ACID	6
IOD	IODIDE ION	6
TYD	THYMIDINE-5'-DIPHOSPHATE	5
4KW	1-monoenoyl-CoA	4
83U	dibenzothiophene 5-oxide	4
CNX	heptanenitrile	4
CS8	3-THIAOCTANOYL-COENZYME A	4
GRA	glutaryl-coenzyme A	4
NBT	(2S)-2-NITROBUTANE	4
PLM	PALMITIC ACID	4