X-group (possible homology)

3698 Arginine methyltransferase oligomerization subdomain

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Ligands and drugs

936

Member domains

457

with ligand contacts (≤ 4 Å)

48.8% of members

416

with DrugDomain annotations

44.4% of members

197

with a DrugBank compound

21.0% 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	6	8.2	0.73×	q = 0.41
Organic nitrogen compounds	3	0.5	5.61×	not tested
Benzenoids	4	1.2	3.26×	not tested
Nucleosides, nucleotides, and analogues	12	4.6	2.59×	not tested
Organoheterocyclic compounds	6	2.6	2.33×	not tested
Organic oxygen compounds	7	3.3	2.10×	not tested
Homogeneous non-metal compounds	7	3.6	1.94×	not tested
Organic acids and derivatives	3	2.6	1.16×	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
DB01752	SAH	S-adenosyl-L-homocysteine	55
DB01749	DXE	1,2-Dimethoxyethane	42
DB02935	M2M	Diglyme	14
DB01910	SFG	Sinefungin	4
DB02676	B3P	2-[3-(2-Hydroxy-1,1-Dihydroxymethyl-Ethylamino)-Propylamino]-2-Hydroxymethyl-Propane-1,3-Diol	3
DB02580	PG6	Pentaglyme	2
DB00118	SAM	Ademetionine	1
DB03570	144	Tris-Hydroxymethyl-Methyl-Ammonium	1
DB04447	DTT	1,4-Dithiothreitol	1

Most frequently bound compounds

PDB ligand	Name	Domains in contact
DXE	1,2-DIMETHOXYETHANE	43
UNX	UNKNOWN ATOM OR ION	31
CL	CHLORIDE ION	21
SAH	S-ADENOSYL-L-HOMOCYSTEINE	19
M2M	1-METHOXY-2-(2-METHOXYETHOXY)ETHANE	14
KXW	(2~{S})-4-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[3-(pyridin-2-ylamino)propyl]amino]-2-azanyl-butanoic acid	8
UNL	Unknown ligand	8
NAmetal	SODIUM ION	7
FTG	(2S,5S)-2-amino-6-[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]-5-[(benzylamino)methyl]-N-[2-(4-hydroxyphenyl)ethyl]hexanamide	6
GJV	9-(7-{[amino(iminio)methyl]amino}-5,6,7-trideoxy-beta-D-ribo-heptofuranosyl)-9H-purin-6-amine	6
LRZ	methyl 6-[3-[[~{N}-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]carbamimidoyl]amino]propylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate	6
4R7	methyl 6-[4-[[N-[2-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethyl]carbamimidoyl]amino]butylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate	5
A1IZI	(phenylmethyl) (2S)-5-[[N-[3-[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]propyl]-N-methyl-carbamimidoyl]amino]-2-(phenylmethoxycarbonylamino)pentanoate	5
LSK	methyl 6-[5-[[~{N}-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]carbamimidoyl]amino]pentylcarbamoylamino]-4-oxidanyl-naphthalene-2-carboxylate	5
5NR	2-[4-(phenylmethyl)piperidin-1-yl]ethanamine	4
6D2	5'-{[(3S)-3-amino-3-carboxypropyl](3-carbamimidamidopropyl)amino}-5'-deoxyadenosine	4
6D3	(2S)-2-amino-4-[(3-{4-[(2S)-2-amino-2-carboxyethyl]-1H-1,2,3-triazol-1-yl}propyl){[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl}amino]butanoic acid (non-preferred name)	4
6D5	(2~{S})-4-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azidopropyl)amino]-2-azanyl-butanoic acid	4
6D6	5'-{[(3S)-3-amino-3-carboxypropyl](3-aminopropyl)amino}-5'-deoxyadenosine	4
6RE	[[2-[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]ethylamino]-azanyl-methylidene]azanium	4