ECOD
X-group (possible homology)

266 Thymidylate synthase/dCMP hydroxymethylase

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Ligands and drugs

1,314
Member domains
833
with ligand contacts (≤ 4 Å)
63.4% of members
824
with DrugDomain annotations
62.7% of members
809
with a DrugBank compound
61.6% 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.

40
Proteins with classified ligands
11
Superclasses bound (of 23)
9.5
Superclasses per 20 proteins
broader than 88% 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.

SuperclassProteinsExpected
0.25×observed / expected4×
RatioSignificance
Organic acids and derivatives246.13.93×q < 0.0001
Nucleosides, nucleotides, and analogues3810.93.49×q < 0.0001
Organoheterocyclic compounds106.11.65×q = 0.17
Organic oxygen compounds67.90.76×q = 0.64
Homogeneous non-metal compounds68.50.71×q = 0.52
Homogeneous metal compounds219.40.10×q < 0.0001
Hydrocarbon derivatives10.030×not tested
Organosulfur compounds60.87.39×not tested
Benzenoids62.92.08×not tested
Organic nitrogen compounds21.31.59×not tested
Lipids and lipid-like molecules14.40.23×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

DrugBankPDB ligandNameDomains
DB03800UMPDeoxyuridine monophosphate423
DB03761UFP5-fluoro-2'-deoxyuridine-5'-monophosphate118
DB03541CB310-Propargyl-5,8-Dideazafolic Acid98
DB00293D16Raltitrexed52
DB03345BMEMercaptoethanol17
DB03798DCM2'-Deoxycytidine-5'-Monophosphate16
DB11596FFOLevoleucovorin16
DB00563MTXMethotrexate15
DB00642LYAPemetrexed10
DB11256C2FLevomefolic acid9
DB01643TMPThymidine monophosphate8
DB04447DTT1,4-Dithiothreitol8
DB02031THG(6S)-5,6,7,8-tetrahydrofolic acid6
DB02338NDPNADPH5
DB00143GSHGlutathione4
DB03818TP2N-[Tosyl-D-Prolinyl]Amino-Ethanethiol4
DB04438BVPBrivudine monophosphate4
DB04696GA94-CHLORO-3',3''-DIBROMOPHENOL-1,8-NAPHTHALEIN4
DB02015DHFDihydrofolic Acid3
DB02256DUR2'-Deoxyuridine3

Most frequently bound compounds

PDB ligandNameDomains in contact
UMP2'-DEOXYURIDINE 5'-MONOPHOSPHATE426
UFP5-FLUORO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE118
CB310-PROPARGYL-5,8-DIDEAZAFOLIC ACID98
D16TOMUDEX52
CLCHLORIDE ION19
BMEBETA-MERCAPTOETHANOL17
DCM2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE17
F89S)-2-(5(((1,2-DIHYDRO-3-METHYL-1-OXOBENZO(F)QUINAZOLIN-9-YL)METHYL)AMINO)1-OXO-2-ISOINDOLINYL)GLUTARIC ACID17
UMC2'-deoxy-5'-uridylic acid16
MTXMETHOTREXATE15
2XBN-{4-[(2-amino-4-hydroxy-7H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzoyl}-L-glutamic acid14
LYA2-{4-[2-(2-AMINO-4-OXO-4,7-DIHYDRO-3H-PYRROLO[2,3-D]PYRIMIDIN-5-YL)-ETHYL]-BENZOYLAMINO}-PENTANEDIOIC ACID12
FFON-[4-({[(6S)-2-amino-5-formyl-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}amino)benzoyl]-L-glutamic acid10
C2F5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID9
D96N-{4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}-D-glutamic acid9
NDU2'-DEOXY-5-NITROURIDINE 5'-MONOPHOSPHATE9
OE72-({4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}amino)-4-chlorobenzoic acid9
OED[2-({4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}amino)-4-methoxyphenyl]acetic acid9
OF7[2-({4-[(2-amino-4-oxo-4,7-dihydro-3H-pyrrolo[2,3-d]pyrimidin-5-yl)methyl]benzene-1-carbonyl}amino)phenyl]acetic acid9
1JYN-(4-{[(6S)-2-(hydroxymethyl)-4-oxo-4,6,7,8-tetrahydro-1H-cyclopenta[g]quinazolin-6-yl](prop-2-yn-1-yl)amino}benzoyl)-L-gamma-glutamyl-D-glutamic acid8