Enzyme Commission (EC): Ligases 

Root: EC Hierarchy (from IntEnz release 70)

Shortest distance to current term (+ for parents, - for children)	EC term [EC ID] <#Children>	#Domains (Superfamily|Family)	#Supra-domain (Single|Duplex|Triple)
+ 1:	root [root] <7>
0:	Ligases [6] <6>	(98|123)	(97|115|71)
- 1:	Forming carbon-nitrogen bonds [6.3] <5>	(59|78)	(58|59|38)
- 1:	Forming carbon-oxygen bonds [6.1] <3>	(28|31)	(28|37|22)
- 1:	Forming carbon-carbon bonds [6.4] <1>	(9|7)	(8|4|1)
- 1:	Forming carbon-sulfur bonds [6.2] <1>	(10|6)	(10|7|1)
- 1:	Forming nitrogen-metal bonds [6.6] <1>	(2|1)	(2|0|0)
- 1:	Forming phosphoric ester bonds [6.5] <1>	(10|10)	(10|12|10)

Superfamily

Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Class II aaRS ABD-related	0	DIRECT
Nucleic acid-binding proteins	0	DIRECT
SAICAR synthase-like	0	DIRECT
Methylglyoxal synthase-like	0	DIRECT
Methionyl-tRNA synthetase (MetRS), Zn-domain	0	DIRECT
An anticodon-binding domain of class I aminoacyl-tRNA synthetases	0	DIRECT
RuvA domain 2-like	0	DIRECT
Carbamoyl phosphate synthetase, large subunit connection domain	0	DIRECT
Alpha-L RNA-binding motif	0	DIRECT
Hypothetical protein PH1602	0	DIRECT
S15/NS1 RNA-binding domain	0	DIRECT
FGAM synthase PurL, linker domain	0	DIRECT
Glutamine synthetase, N-terminal domain	0	DIRECT
CoaB-like	0	DIRECT
RNA 3'-terminal phosphate cyclase, RPTC, insert domain	0	DIRECT
tRNA-binding arm	0	DIRECT
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
Glutamine synthetase/guanido kinase	0	DIRECT
Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)	0	DIRECT
Adenine nucleotide alpha hydrolases-like	0	DIRECT
BRCT domain	0	DIRECT
ThrRS/AlaRS common domain	0	DIRECT
YbaK/ProRS associated domain	0	DIRECT
Argininosuccinate synthetase, C-terminal domain	0	DIRECT
Amidase signature (AS) enzymes	0	DIRECT
Nucleotidylyl transferase	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
Carbamoyl phosphate synthetase, small subunit N-terminal domain	0	DIRECT
Nicotinate/Quinolinate PRTase N-terminal domain-like	0	DIRECT
YegP-like	0	DIRECT
Class II aaRS and biotin synthetases	0	DIRECT
PurM C-terminal domain-like	0	DIRECT
Rudiment single hybrid motif	0	DIRECT
Acetyl-CoA synthetase-like	0	DIRECT
SufE/NifU	0	DIRECT
CofE-like	0	DIRECT
PreATP-grasp domain	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
GMP synthetase C-terminal dimerisation domain	0	DIRECT
Class I glutamine amidotransferase-like	0	DIRECT
HD-domain/PDEase-like	0	DIRECT
Ribosomal protein L25-like	0	DIRECT
GAD domain-like	0	DIRECT
PurM N-terminal domain-like	0	DIRECT
MurD-like peptide ligases, peptide-binding domain	0	DIRECT
ValRS/IleRS/LeuRS editing domain	0	DIRECT
MurCD N-terminal domain	0	DIRECT
Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain	0	DIRECT
Translation proteins	0	DIRECT
PurS-like	0	DIRECT
DNA ligase/mRNA capping enzyme, catalytic domain	0	DIRECT
Glutathione synthetase ATP-binding domain-like	0	DIRECT
C-terminal domain of transcriptional repressors	0	DIRECT
TGS-like	0	DIRECT
Anticodon-binding domain of PheRS	0	DIRECT
Nicotinate/Quinolinate PRTase C-terminal domain-like	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
MesJ substrate recognition domain-like	0	DIRECT
Putative DNA-binding domain	0	DIRECT
MurD-like peptide ligases, catalytic domain	0	DIRECT
C-terminal domain of ProRS	0	DIRECT
PheT/TilS domain	0	DIRECT
Single hybrid motif	0.00000000000001436	DIRECT
Activating enzymes of the ubiquitin-like proteins	0.0004855	DIRECT
PH0987 N-terminal domain-like	0.004195	INHERITED FROM: Urea carboxylase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.0194	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || Phosphopantothenate--cysteine ligase (CTP) || Forming carbon-nitrogen bonds
Formiminotransferase domain of formiminotransferase-cyclodeaminase.	0.02461	INHERITED FROM: 5-formyltetrahydrofolate cyclo-ligase || Cyclo-ligases
FMN-dependent nitroreductase-like	0.05498	INHERITED FROM: Coenzyme F420-1:gamma-L-glutamate ligase || Acid--amino-acid ligases (peptide synthases) || Coenzyme F420-0:L-glutamate ligase || Forming carbon-nitrogen bonds
vWA-like	0.08164	INHERITED FROM: Forming nitrogen-metal bonds
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.1045	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || Forming carbon-nitrogen bonds || Phosphoribosylaminoimidazolesuccinocarboxamide synthase
P-loop containing nucleoside triphosphate hydrolases	0.1419	INHERITED FROM: Ni-sirohydrochlorin a,c-diamide synthase || Formate--tetrahydrofolate ligase || CTP synthase (glutamine hydrolyzing) || Forming nitrogen-metal bonds || Other carbon--nitrogen ligases || Dethiobiotin synthase || Cyclo-ligases || Hydrogenobyrinic acid a,c-diamide synthase (glutamine-hydrolyzing) || Forming carbon-nitrogen bonds || Adenylosuccinate synthase || Cobyrinate a,c-diamide synthase (glutamine-hydrolyzing)
Glycerol-3-phosphate (1)-acyltransferase	0.159	INHERITED FROM: Forming carbon-sulfur bonds || Long-chain-fatty-acid--[acyl-carrier-protein] ligase
ACP-like	0.5283	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
Homing endonucleases	0.6136	INHERITED FROM: Forming phosphoric ester bonds || 3'-phosphate/5'-hydroxy nucleic acid ligase
SCOP hierarchy in SUPERFAMILY	0.8351	INHERITED FROM: Forming carbon-carbon bonds || CTP synthase (glutamine hydrolyzing)
Hedgehog/intein (Hint) domain	0.9895	INHERITED FROM: Forming phosphoric ester bonds || 3'-phosphate/5'-hydroxy nucleic acid ligase
EPT/RTPC-like	1	INHERITED FROM: RNA 3'-terminal-phosphate cyclase (ATP) || Forming phosphoric ester bonds
"Winged helix" DNA-binding domain	1	INHERITED FROM: Biotin--[biotin carboxyl-carrier protein] ligase || Phenylalanine--tRNA ligase
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Carbon--nitrogen ligases with glutamine as amido-N-donor || Asparagine synthase (glutamine-hydrolyzing)
Metallo-dependent hydrolases	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
alpha/beta-Hydrolases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
"Helical backbone" metal receptor	1	INHERITED FROM: Ni-sirohydrochlorin a,c-diamide reductive cyclase
Acyl-CoA N-acyltransferases (Nat)	1	INHERITED FROM: [Citrate (pro-3S)-lyase] ligase
ClpP/crotonase	1	INHERITED FROM: Forming carbon-carbon bonds || Biotin carboxylase
Carbon-nitrogen hydrolase	1	INHERITED FROM: NAD(+) synthase (glutamine-hydrolyzing) || Carbon--nitrogen ligases with glutamine as amido-N-donor
Cyclophilin-like	1	INHERITED FROM: Urea carboxylase
CoA-dependent acyltransferases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
post-HMGL domain-like	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
Aminoacid dehydrogenase-like, N-terminal domain	1	INHERITED FROM: Formate--tetrahydrofolate ligase
PLP-dependent transferases	1	INHERITED FROM: 6-carboxyhexanoate--CoA ligase
Aldolase	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
Actin-like ATPase domain	1	INHERITED FROM: Biotin--[biotin carboxyl-carrier protein] ligase
GST C-terminal domain-like	1	INHERITED FROM: Glutamate--tRNA ligase || Valine--tRNA ligase
Formyltransferase	1	INHERITED FROM: Phosphoribosylamine--glycine ligase || Phosphoribosylformylglycinamidine cyclo-ligase
NagB/RpiA/CoA transferase-like	1	INHERITED FROM: 5-formyltetrahydrofolate cyclo-ligase || Cyclo-ligases
Composite domain of metallo-dependent hydrolases	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: Succinate--CoA ligase (GDP-forming) || Acetate--CoA ligase (ADP-forming) || Succinate--CoA ligase (ADP-forming)
Aspartate/ornithine carbamoyltransferase	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)

Family

Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
Lysine biosynthesis enzyme LysX ATP-binding domain	0	DIRECT
AlaX-like	0	DIRECT
CoA-binding domain	0	DIRECT
PurS subunit of FGAM synthetase	0	DIRECT
ATP-binding domain of peptide synthetases	0	DIRECT
Glutathionylspermidine synthase substrate-binding domain-like	0	DIRECT
Threonyl-tRNA synthetase (ThrRS), second 'additional' domain	0	DIRECT
Amidase signature (AS) enzymes	0	DIRECT
GMP synthetase C-terminal dimerisation domain	0	DIRECT
PP-loop ATPase	0	DIRECT
Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain	0	DIRECT
RNA 3'-terminal phosphate cyclase, RPTC, insert domain	0	DIRECT
Glutamate-cysteine ligase	0	DIRECT
Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)	0	DIRECT
D-Alanine ligase N-terminal domain	0	DIRECT
Acetyl-CoA synthetase-like	0	DIRECT
MurCDEF C-terminal domain	0	DIRECT
Carbamoyl phosphate synthetase, large subunit connection domain	0	DIRECT
RNA ligase	0	DIRECT
Seryl-tRNA synthetase (SerRS)	0	DIRECT
Succinyl-CoA synthetase, beta-chain, N-terminal domain	0	DIRECT
CoaB-like	0	DIRECT
MurCD N-terminal domain	0	DIRECT
N-type ATP pyrophosphatases	0	DIRECT
DNA ligase/mRNA capping enzyme postcatalytic domain	0	DIRECT
PurM N-terminal domain-like	0	DIRECT
C-terminal domain of glutamyl-tRNA synthetase (GluRS)	0	DIRECT
SP1160 C-terminal domain-like	0	DIRECT
Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain	0	DIRECT
RNA 3'-terminal phosphate cyclase, RPTC	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
Methionyl-tRNA synthetase (MetRS), Zn-domain	0	DIRECT
Class I glutamine amidotransferases (GAT)	0	DIRECT
YegP-like	0	DIRECT
Carbamoyl phosphate synthetase, small subunit N-terminal domain	0	DIRECT
Monomeric nicotinate phosphoribosyltransferase N-terminal domain-like	0	DIRECT
C-terminal domain of ProRS	0	DIRECT
Adenylation domain of NAD+-dependent DNA ligase	0	DIRECT
Class I aminoacyl-tRNA synthetases (RS), catalytic domain	0	DIRECT
Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain	0	DIRECT
Phenylalanyl-tRNA synthetase (PheRS)	0	DIRECT
DNA ligase	0	DIRECT
TGS domain	0	DIRECT
BC C-terminal domain-like	0	DIRECT
PurM C-terminal domain-like	0	DIRECT
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
Glutamine synthetase, N-terminal domain	0	DIRECT
a tRNA synthase domain	0	DIRECT
Hypothetical protein PH1602	0	DIRECT
Tyrosyl-tRNA synthetase (TyrRS), C-terminal domain	0	DIRECT
Valyl-tRNA synthetase (ValRS) C-terminal domain	0	DIRECT
Eukaryotic glutathione synthetase, substrate-binding domain	0	DIRECT
Domains B1 and B5 of PheRS-beta, PheT	0	DIRECT
Methenyltetrahydrofolate synthetase	0	DIRECT
Glutamate-cysteine ligase family 2 (GCS2)	0	DIRECT
Eukaryotic glutathione synthetase ATP-binding domain	0	DIRECT
Folylpolyglutamate synthetase, C-terminal domain	0	DIRECT
AlaX-M N-terminal domain-like	0	DIRECT
MurCDEF	0	DIRECT
B3/B4 domain of PheRS, PheT	0	DIRECT
PurP ATP-binding domain-like	0	DIRECT
Gln-tRNA synthetase (GlnRS), C-terminal (anticodon-binding) domain	0	DIRECT
Glutathionylspermidine synthase ATP-binding domain-like	0	DIRECT
SAICAR synthase	0	DIRECT
Ubiquitin activating enzymes (UBA)	0	DIRECT
Monomeric nicotinate phosphoribosyltransferase C-terminal domain	0	DIRECT
FGAM synthase PurL, PurS-like domain	0	DIRECT
Prokaryotic glutathione synthetase, N-terminal domain	0	DIRECT
BC N-terminal domain-like	0	DIRECT
CHAP domain	0	DIRECT
Anticodon-binding domain of PheRS	0	DIRECT
GAD domain	0	DIRECT
MesJ substrate recognition domain-like	0	DIRECT
C-terminal domain of class I lysyl-tRNA synthetase	0	DIRECT
Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC)	0	DIRECT
CofE-like	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
Anticodon-binding domain of Class II aaRS	0	DIRECT
Argininosuccinate synthetase, C-terminal domain	0	DIRECT
Nitrogenase iron protein-like	0	DIRECT
NAD+-dependent DNA ligase, domain 3	0	DIRECT
YbaK/ProRS associated domain	0	DIRECT
Biotin holoenzyme synthetase	0	DIRECT
Myf domain	0	DIRECT
Anticodon-binding domain	0	DIRECT
ValRS/IleRS/LeuRS editing domain	0	DIRECT
ATP-dependent DNA ligase catalytic domain	0	DIRECT
Glutamine synthetase catalytic domain	0	DIRECT
tRNA-Ile-lysidine synthetase, TilS, C-terminal domain	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
BC ATP-binding domain-like	0	DIRECT
PurP N-terminal domain-like	0	DIRECT
Folylpolyglutamate synthetase	0	DIRECT
Biotin repressor (BirA)	0	DIRECT
FGAM synthase PurL, linker domain	0	DIRECT
Conserved carboxylase domain	0.0000000000000372	DIRECT
Biotinyl/lipoyl-carrier proteins and domains	0.000000000001309	DIRECT
NadC C-terminal domain-like	0.000004132	DIRECT
NadC N-terminal domain-like	0.000009917	DIRECT
PH0987 N-terminal domain-like	0.001709	INHERITED FROM: Urea carboxylase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds
PH0987 C-terminal domain-like	0.004521	INHERITED FROM: Urea carboxylase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds
Thioesterase domain of polypeptide, polyketide and fatty acid synthases	0.01124	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Forming carbon-nitrogen bonds
Peptidyl carrier domain	0.01592	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Forming carbon-nitrogen bonds
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.02118	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || Phosphopantothenate--cysteine ligase (CTP) || Forming carbon-nitrogen bonds
Formiminotransferase domain of formiminotransferase-cyclodeaminase.	0.02658	INHERITED FROM: 5-formyltetrahydrofolate cyclo-ligase || Cyclo-ligases
NADH oxidase/flavin reductase	0.112	INHERITED FROM: Coenzyme F420-1:gamma-L-glutamate ligase || Acid--amino-acid ligases (peptide synthases) || Coenzyme F420-0:L-glutamate ligase || Forming carbon-nitrogen bonds
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.1756	INHERITED FROM: Acid--amino-acid ligases (peptide synthases) || Phosphoribosylaminoimidazolesuccinocarboxamide synthase
Class II glutamine amidotransferases	0.2004	INHERITED FROM: Carbon--nitrogen ligases with glutamine as amido-N-donor || Forming carbon-nitrogen bonds || Asparagine synthase (glutamine-hydrolyzing)
LplA-like	0.6984	INHERITED FROM: Lipoate--protein ligase || Acid--ammonia (or amine) ligases (amide synthases) || Forming carbon-nitrogen bonds
CoaX-like	1	INHERITED FROM: Biotin--[biotin carboxyl-carrier protein] ligase
Tetrahydrofolate dehydrogenase/cyclohydrolase	1	INHERITED FROM: Formate--tetrahydrofolate ligase
HMGL-like	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
Deoxycytidylate deaminase-like	1	INHERITED FROM: tRNA(Ile)-lysidine synthetase
Hydantoinase (dihydropyrimidinase), catalytic domain	1	INHERITED FROM: Carbon--nitrogen ligases with glutamine as amido-N-donor || Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
Aminoacid dehydrogenase-like, C-terminal domain	1	INHERITED FROM: Formate--tetrahydrofolate ligase
Formyltransferase	1	INHERITED FROM: Phosphoribosylamine--glycine ligase || Phosphoribosylformylglycinamidine cyclo-ligase
Nucleotide and nucleoside kinases	1	INHERITED FROM: Pantoate--beta-alanine ligase (AMP-forming)
GABA-aminotransferase-like	1	INHERITED FROM: 6-carboxyhexanoate--CoA ligase
Aspartate/ornithine carbamoyltransferase	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
Nitrogenase iron-molybdenum protein	1	INHERITED FROM: Ni-sirohydrochlorin a,c-diamide reductive cyclase
Biotin dependent carboxylase carboxyltransferase domain	1	INHERITED FROM: Forming carbon-carbon bonds || Biotin carboxylase
HD domain	1	INHERITED FROM: Glycine--tRNA ligase
Extended AAA-ATPase domain	1	INHERITED FROM: Forming nitrogen-metal bonds

Supra-domain (Single|Duplex|Triple)

Supra-domain (Single)

Highlighted in gray are those with FDR>0.001

Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
MurD-like peptide ligases, peptide-binding domain	0	DIRECT
tRNA-binding arm	0	DIRECT
Carbamoyl phosphate synthetase, small subunit N-terminal domain	0	DIRECT
HD-domain/PDEase-like	0	DIRECT
RNA 3'-terminal phosphate cyclase, RPTC, insert domain	0	DIRECT
S15/NS1 RNA-binding domain	0	DIRECT
PurS-like	0	DIRECT
Acetyl-CoA synthetase-like	0	DIRECT
Anticodon-binding domain of PheRS	0	DIRECT
C-terminal domain of ProRS	0	DIRECT
CofE-like	0	DIRECT
Hypothetical protein PH1602	0	DIRECT
Nucleic acid-binding proteins	0	DIRECT
Ribosomal protein L25-like	0	DIRECT
PreATP-grasp domain	0	DIRECT
SAICAR synthase-like	0	DIRECT
C-terminal domain of transcriptional repressors	0	DIRECT
Class II aaRS and biotin synthetases	0	DIRECT
Argininosuccinate synthetase, C-terminal domain	0	DIRECT
MurD-like peptide ligases, catalytic domain	0	DIRECT
FGAM synthase PurL, linker domain	0	DIRECT
TGS-like	0	DIRECT
Nicotinate/Quinolinate PRTase N-terminal domain-like	0	DIRECT
Glutathione synthetase ATP-binding domain-like	0	DIRECT
Methionyl-tRNA synthetase (MetRS), Zn-domain	0	DIRECT
Rudiment single hybrid motif	0	DIRECT
Methylglyoxal synthase-like	0	DIRECT
PurM N-terminal domain-like	0	DIRECT
MesJ substrate recognition domain-like	0	DIRECT
ValRS/IleRS/LeuRS editing domain	0	DIRECT
BRCT domain	0	DIRECT
PheT/TilS domain	0	DIRECT
Adenine nucleotide alpha hydrolases-like	0	DIRECT
Amidase signature (AS) enzymes	0	DIRECT
Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)	0	DIRECT
SufE/NifU	0	DIRECT
ThrRS/AlaRS common domain	0	DIRECT
Class I glutamine amidotransferase-like	0	DIRECT
Putative DNA-binding domain	0	DIRECT
Glutamine synthetase, N-terminal domain	0	DIRECT
GAD domain-like	0	DIRECT
Nicotinate/Quinolinate PRTase C-terminal domain-like	0	DIRECT
GMP synthetase C-terminal dimerisation domain	0	DIRECT
Glutamine synthetase/guanido kinase	0	DIRECT
Class II aaRS ABD-related	0	DIRECT
RuvA domain 2-like	0	DIRECT
An anticodon-binding domain of class I aminoacyl-tRNA synthetases	0	DIRECT
ATP-dependent DNA ligase DNA-binding domain	0	DIRECT
MurCD N-terminal domain	0	DIRECT
DNA ligase/mRNA capping enzyme, catalytic domain	0	DIRECT
YegP-like	0	DIRECT
Succinyl-CoA synthetase domains	0	DIRECT
Nucleotidylyl transferase	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
Alpha-L RNA-binding motif	0	DIRECT
Carbamoyl phosphate synthetase, large subunit connection domain	0	DIRECT
Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
PurM C-terminal domain-like	0	DIRECT
YbaK/ProRS associated domain	0	DIRECT
Translation proteins	0	DIRECT
CoaB-like	0	DIRECT
Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain	0	DIRECT
Single hybrid motif	0.0000000000000101	DIRECT
Activating enzymes of the ubiquitin-like proteins	0.0003971	DIRECT
PH0987 N-terminal domain-like	0.003514	INHERITED FROM: Urea carboxylase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.01657	INHERITED FROM: Forming carbon-nitrogen bonds || Phosphopantothenate--cysteine ligase (CTP) || Acid--amino-acid ligases (peptide synthases)
Formiminotransferase domain of formiminotransferase-cyclodeaminase.	0.02108	INHERITED FROM: Forming carbon-nitrogen bonds || Cyclo-ligases || 5-formyltetrahydrofolate cyclo-ligase
FMN-dependent nitroreductase-like	0.04756	INHERITED FROM: Forming carbon-nitrogen bonds || Coenzyme F420-0:L-glutamate ligase || Acid--amino-acid ligases (peptide synthases) || Coenzyme F420-1:gamma-L-glutamate ligase
vWA-like	0.071	INHERITED FROM: Forming nitrogen-metal bonds
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.09118	INHERITED FROM: Phosphoribosylaminoimidazolesuccinocarboxamide synthase || Forming carbon-nitrogen bonds || Acid--amino-acid ligases (peptide synthases)
P-loop containing nucleoside triphosphate hydrolases	0.1246	INHERITED FROM: Adenylosuccinate synthase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds || Cyclo-ligases || Dethiobiotin synthase || Cobyrinate a,c-diamide synthase (glutamine-hydrolyzing) || Ni-sirohydrochlorin a,c-diamide synthase || CTP synthase (glutamine hydrolyzing) || Hydrogenobyrinic acid a,c-diamide synthase (glutamine-hydrolyzing) || Formate--tetrahydrofolate ligase || Forming nitrogen-metal bonds
Glycerol-3-phosphate (1)-acyltransferase	0.14	INHERITED FROM: Forming carbon-sulfur bonds || Long-chain-fatty-acid--[acyl-carrier-protein] ligase
ACP-like	0.4833	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Acid--amino-acid ligases (peptide synthases)
Homing endonucleases	0.5629	INHERITED FROM: 3'-phosphate/5'-hydroxy nucleic acid ligase || Forming phosphoric ester bonds
Hedgehog/intein (Hint) domain	0.9164	INHERITED FROM: 3'-phosphate/5'-hydroxy nucleic acid ligase || Forming phosphoric ester bonds
"Helical backbone" metal receptor	1	INHERITED FROM: Ni-sirohydrochlorin a,c-diamide reductive cyclase
Aldolase	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
GST C-terminal domain-like	1	INHERITED FROM: Valine--tRNA ligase || Glutamate--tRNA ligase
PLP-dependent transferases	1	INHERITED FROM: 6-carboxyhexanoate--CoA ligase
Actin-like ATPase domain	1	INHERITED FROM: Biotin--[biotin carboxyl-carrier protein] ligase
alpha/beta-Hydrolases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
CoA-dependent acyltransferases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
post-HMGL domain-like	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
Carbon-nitrogen hydrolase	1	INHERITED FROM: Carbon--nitrogen ligases with glutamine as amido-N-donor || NAD(+) synthase (glutamine-hydrolyzing)
Composite domain of metallo-dependent hydrolases	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
ClpP/crotonase	1	INHERITED FROM: Biotin carboxylase || Forming carbon-carbon bonds
NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: Succinate--CoA ligase (GDP-forming) || Succinate--CoA ligase (ADP-forming) || Acetate--CoA ligase (ADP-forming)
Metallo-dependent hydrolases	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)
N-terminal nucleophile aminohydrolases (Ntn hydrolases)	1	INHERITED FROM: Carbon--nitrogen ligases with glutamine as amido-N-donor || Asparagine synthase (glutamine-hydrolyzing)
"Winged helix" DNA-binding domain	1	INHERITED FROM: Phenylalanine--tRNA ligase || Biotin--[biotin carboxyl-carrier protein] ligase
NagB/RpiA/CoA transferase-like	1	INHERITED FROM: Cyclo-ligases || 5-formyltetrahydrofolate cyclo-ligase
Aminoacid dehydrogenase-like, N-terminal domain	1	INHERITED FROM: Formate--tetrahydrofolate ligase
Formyltransferase	1	INHERITED FROM: Phosphoribosylformylglycinamidine cyclo-ligase || Phosphoribosylamine--glycine ligase
Acyl-CoA N-acyltransferases (Nat)	1	INHERITED FROM: [Citrate (pro-3S)-lyase] ligase
Cyclophilin-like	1	INHERITED FROM: Urea carboxylase
EPT/RTPC-like	1	INHERITED FROM: Forming phosphoric ester bonds || RNA 3'-terminal-phosphate cyclase (ATP)
Aspartate/ornithine carbamoyltransferase	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)

Supra-domain (Duplex) in N- to C-terminal order

Highlighted in gray are those with FDR>0.001

Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
52402,69864 52402 - Adenine nucleotide alpha hydrolases-like 69864 - Argininosuccinate synthetase, C-terminal domain	0	DIRECT
54368,55931 54368 - Glutamine synthetase, N-terminal domain 55931 - Glutamine synthetase/guanido kinase	0	DIRECT
101353,55186 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 55186 - ThrRS/AlaRS common domain	0	DIRECT
51246,55326 51246 - Rudiment single hybrid motif 55326 - PurM N-terminal domain-like	0	DIRECT
55931,56059 55931 - Glutamine synthetase/guanido kinase 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
50249,55681 50249 - Nucleic acid-binding proteins 55681 - Class II aaRS and biotin synthetases	0	DIRECT
55190,52374 55190 - Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain 52374 - Nucleotidylyl transferase	0	DIRECT
144010,55469 144010 - CofE-like 55469 - FMN-dependent nitroreductase-like	0	DIRECT
47060,55681 47060 - S15/NS1 RNA-binding domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
55681,82649 55681 - Class II aaRS and biotin synthetases 82649 - SufE/NifU	0	DIRECT
52777,53474 52777 - CoA-dependent acyltransferases 53474 - alpha/beta-Hydrolases	0	DIRECT
55729,52374 55729 - Acyl-CoA N-acyltransferases (Nat) 52374 - Nucleotidylyl transferase	0	DIRECT
50677,52374 50677 - ValRS/IleRS/LeuRS editing domain 52374 - Nucleotidylyl transferase	0	DIRECT
55608,103365 55608 - Homing endonucleases 103365 - Hypothetical protein PH1602	0	DIRECT
82829,56037 82829 - MesJ substrate recognition domain-like 56037 - PheT/TilS domain	0	DIRECT
46785,55681 46785 - "Winged helix" DNA-binding domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
52374,47323 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
55681,52954 55681 - Class II aaRS and biotin synthetases 52954 - Class II aaRS ABD-related	0	DIRECT
47616,52374 47616 - GST C-terminal domain-like 52374 - Nucleotidylyl transferase	0	DIRECT
52335,51556 52335 - Methylglyoxal synthase-like 51556 - Metallo-dependent hydrolases	0	DIRECT
55681,55826 55681 - Class II aaRS and biotin synthetases 55826 - YbaK/ProRS associated domain	0	DIRECT
109604,47323 109604 - HD-domain/PDEase-like 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
50249,47781 50249 - Nucleic acid-binding proteins 47781 - RuvA domain 2-like	0	DIRECT
56091,50249 56091 - DNA ligase/mRNA capping enzyme, catalytic domain 50249 - Nucleic acid-binding proteins	0	DIRECT
52402,82829 52402 - Adenine nucleotide alpha hydrolases-like 82829 - MesJ substrate recognition domain-like	0	DIRECT
56042,52317 56042 - PurM C-terminal domain-like 52317 - Class I glutamine amidotransferase-like	0	DIRECT
56059,53623 56059 - Glutathione synthetase ATP-binding domain-like 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
52374,50249 52374 - Nucleotidylyl transferase 50249 - Nucleic acid-binding proteins	0	DIRECT
109736,55326 109736 - FGAM synthase PurL, linker domain 55326 - PurM N-terminal domain-like	0	DIRECT
54001,56059 54001 - Cysteine proteinases 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
50249,46955 50249 - Nucleic acid-binding proteins 46955 - Putative DNA-binding domain	0	DIRECT
52210,52210 52210 - Succinyl-CoA synthetase domains 52210 - Succinyl-CoA synthetase domains	0	DIRECT
52402,56037 52402 - Adenine nucleotide alpha hydrolases-like 56037 - PheT/TilS domain	0	DIRECT
56059,52335 56059 - Glutathione synthetase ATP-binding domain-like 52335 - Methylglyoxal synthase-like	0	DIRECT
103365,55608 103365 - Hypothetical protein PH1602 55608 - Homing endonucleases	0	DIRECT
47323,50249 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 50249 - Nucleic acid-binding proteins	0	DIRECT
55681,54991 55681 - Class II aaRS and biotin synthetases 54991 - Anticodon-binding domain of PheRS	0	DIRECT
55205,52913 55205 - EPT/RTPC-like 52913 - RNA 3'-terminal phosphate cyclase, RPTC, insert domain	0	DIRECT
56037,53271 56037 - PheT/TilS domain 53271 - PRTase-like	0	DIRECT
55681,101353 55681 - Class II aaRS and biotin synthetases 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS)	0	DIRECT
56235,52402 56235 - N-terminal nucleophile aminohydrolases (Ntn hydrolases) 52402 - Adenine nucleotide alpha hydrolases-like	0	DIRECT
52021,52317 52021 - Carbamoyl phosphate synthetase, small subunit N-terminal domain 52317 - Class I glutamine amidotransferase-like	0	DIRECT
57770,52374 57770 - Methionyl-tRNA synthetase (MetRS), Zn-domain 52374 - Nucleotidylyl transferase	0	DIRECT
54675,51690 54675 - Nicotinate/Quinolinate PRTase N-terminal domain-like 51690 - Nicotinate/Quinolinate PRTase C-terminal domain-like	0	DIRECT
52440,56059 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
53623,53244 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
55681,55261 55681 - Class II aaRS and biotin synthetases 55261 - GAD domain-like	0	DIRECT
55205,55205 55205 - EPT/RTPC-like 55205 - EPT/RTPC-like	0	DIRECT
50037,53067 50037 - C-terminal domain of transcriptional repressors 53067 - Actin-like ATPase domain	0	DIRECT
48108,52440 48108 - Carbamoyl phosphate synthetase, large subunit connection domain 52440 - PreATP-grasp domain	0	DIRECT
117018,56091 117018 - ATP-dependent DNA ligase DNA-binding domain 56091 - DNA ligase/mRNA capping enzyme, catalytic domain	0	DIRECT
55326,56042 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like	0	DIRECT
52374,48163 52374 - Nucleotidylyl transferase 48163 - An anticodon-binding domain of class I aminoacyl-tRNA synthetases	0	DIRECT
56317,52402 56317 - Carbon-nitrogen hydrolase 52402 - Adenine nucleotide alpha hydrolases-like	0	DIRECT
52402,54810 52402 - Adenine nucleotide alpha hydrolases-like 54810 - GMP synthetase C-terminal dimerisation domain	0	DIRECT
47323,47060 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 47060 - S15/NS1 RNA-binding domain	0	DIRECT
47781,47781 47781 - RuvA domain 2-like 47781 - RuvA domain 2-like	0	DIRECT
-7,52317 -7 - CATH 52317 - Class I glutamine amidotransferase-like	0	DIRECT
47323,47323 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
50891,160467 50891 - Cyclophilin-like 160467 - PH0987 N-terminal domain-like	0	DIRECT
47323,46589 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 46589 - tRNA-binding arm	0	DIRECT
55186,55681 55186 - ThrRS/AlaRS common domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
55681,50037 55681 - Class II aaRS and biotin synthetases 50037 - C-terminal domain of transcriptional repressors	0	DIRECT
56037,46955 56037 - PheT/TilS domain 46955 - Putative DNA-binding domain	0	DIRECT
51735,53623 51735 - NAD(P)-binding Rossmann-fold domains 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
101353,50447 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 50447 - Translation proteins	0	DIRECT
46589,55681 46589 - tRNA-binding arm 55681 - Class II aaRS and biotin synthetases	0	DIRECT
63418,53623 63418 - MurE/MurF N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
50447,55186 50447 - Translation proteins 55186 - ThrRS/AlaRS common domain	0	DIRECT
51984,53623 51984 - MurCD N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
51294,103365 51294 - Hedgehog/intein (Hint) domain 103365 - Hypothetical protein PH1602	0	DIRECT
56059,48108 56059 - Glutathione synthetase ATP-binding domain-like 48108 - Carbamoyl phosphate synthetase, large subunit connection domain	0	DIRECT
52374,55174 52374 - Nucleotidylyl transferase 55174 - Alpha-L RNA-binding motif	0	DIRECT
69572,69572 69572 - Activating enzymes of the ubiquitin-like proteins 69572 - Activating enzymes of the ubiquitin-like proteins	0	DIRECT
52317,52440 52317 - Class I glutamine amidotransferase-like 52440 - PreATP-grasp domain	0	DIRECT
50249,56037 50249 - Nucleic acid-binding proteins 56037 - PheT/TilS domain	0	DIRECT
54810,54810 54810 - GMP synthetase C-terminal dimerisation domain 54810 - GMP synthetase C-terminal dimerisation domain	0	DIRECT
51735,52210 51735 - NAD(P)-binding Rossmann-fold domains 52210 - Succinyl-CoA synthetase domains	0	DIRECT
47060,47060 47060 - S15/NS1 RNA-binding domain 47060 - S15/NS1 RNA-binding domain	0	DIRECT
46955,56037 46955 - Putative DNA-binding domain 56037 - PheT/TilS domain	0	DIRECT
52374,50715 52374 - Nucleotidylyl transferase 50715 - Ribosomal protein L25-like	0	DIRECT
52540,52317 52540 - P-loop containing nucleoside triphosphate hydrolases 52317 - Class I glutamine amidotransferase-like	0	DIRECT
56042,53328 56042 - PurM C-terminal domain-like 53328 - Formyltransferase	0	DIRECT
56104,52255 56104 - SAICAR synthase-like 52255 - N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0	DIRECT
53244,52440 53244 - MurD-like peptide ligases, peptide-binding domain 52440 - PreATP-grasp domain	0	DIRECT
50249,52113 50249 - Nucleic acid-binding proteins 52113 - BRCT domain	0	DIRECT
47781,52113 47781 - RuvA domain 2-like 52113 - BRCT domain	0	DIRECT
46955,55681 46955 - Putative DNA-binding domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
52374,160113 52374 - Nucleotidylyl transferase 160113 - YegP-like	0	DIRECT
56059,52440 56059 - Glutathione synthetase ATP-binding domain-like 52440 - PreATP-grasp domain	0	DIRECT
82697,109736 82697 - PurS-like 109736 - FGAM synthase PurL, linker domain	0	DIRECT
56059,52210 56059 - Glutathione synthetase ATP-binding domain-like 52210 - Succinyl-CoA synthetase domains	0	DIRECT
52317,52402 52317 - Class I glutamine amidotransferase-like 52402 - Adenine nucleotide alpha hydrolases-like	0	DIRECT
47060,52374 47060 - S15/NS1 RNA-binding domain 52374 - Nucleotidylyl transferase	0	DIRECT
81271,55186 81271 - TGS-like 55186 - ThrRS/AlaRS common domain	0	DIRECT
52954,64586 52954 - Class II aaRS ABD-related 64586 - C-terminal domain of ProRS	0	DIRECT
69593,56801 69593 - Glycerol-3-phosphate (1)-acyltransferase 56801 - Acetyl-CoA synthetase-like	0	DIRECT
56042,55326 56042 - PurM C-terminal domain-like 55326 - PurM N-terminal domain-like	0	DIRECT
56059,51246 56059 - Glutathione synthetase ATP-binding domain-like 51246 - Rudiment single hybrid motif	0	DIRECT
52096,52096 52096 - ClpP/crotonase 52096 - ClpP/crotonase	0.00000000000003936	DIRECT
52507,102645 52507 - Homo-oligomeric flavin-containing Cys decarboxylases, HFCD 102645 - CoaB-like	0.0000000000003339	DIRECT
52374,52540 52374 - Nucleotidylyl transferase 52540 - P-loop containing nucleoside triphosphate hydrolases	0.0000000002778	DIRECT
52540,-7 52540 - P-loop containing nucleoside triphosphate hydrolases -7 - CATH	0.000004909	DIRECT
56801,47336 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like	0.00004601	DIRECT
52113,52113 52113 - BRCT domain 52113 - BRCT domain	0.0001739	DIRECT
52777,56801 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like	0.001457	INHERITED FROM: Forming carbon-nitrogen bonds || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Acid--amino-acid ligases (peptide synthases)
160467,50891 160467 - PH0987 N-terminal domain-like 50891 - Cyclophilin-like	0.003514	INHERITED FROM: Urea carboxylase || Other carbon--nitrogen ligases || Forming carbon-nitrogen bonds
46785,46785 46785 - "Winged helix" DNA-binding domain 46785 - "Winged helix" DNA-binding domain	0.01306	INHERITED FROM: Ligases forming aminoacyl-tRNA and related compounds || Forming carbon-oxygen bonds || Phenylalanine--tRNA ligase
47336,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.01595	INHERITED FROM: Forming carbon-nitrogen bonds || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Acid--amino-acid ligases (peptide synthases)
55116,55116 55116 - Formiminotransferase domain of formiminotransferase-cyclodeaminase. 55116 - Formiminotransferase domain of formiminotransferase-cyclodeaminase.	0.02108	INHERITED FROM: Forming carbon-nitrogen bonds || Cyclo-ligases || 5-formyltetrahydrofolate cyclo-ligase
52777,52777 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0.9257	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
53067,53067 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain	1	INHERITED FROM: Biotin--[biotin carboxyl-carrier protein] ligase
53223,51735 53223 - Aminoacid dehydrogenase-like, N-terminal domain 51735 - NAD(P)-binding Rossmann-fold domains	1	INHERITED FROM: Formate--tetrahydrofolate ligase
51569,89000 51569 - Aldolase 89000 - post-HMGL domain-like	1	INHERITED FROM: Forming carbon-carbon bonds || Pyruvate carboxylase
51556,51338 51556 - Metallo-dependent hydrolases 51338 - Composite domain of metallo-dependent hydrolases	1	INHERITED FROM: Carbamoyl-phosphate synthase (glutamine-hydrolyzing)

Supra-domain (Triple) in N- to C-terminal order

Highlighted in gray are those with FDR>0.001

Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
56042,55326,56042 56042 - PurM C-terminal domain-like 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like	0	DIRECT
52317,52440,56059 52317 - Class I glutamine amidotransferase-like 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
51294,103365,55608 51294 - Hedgehog/intein (Hint) domain 103365 - Hypothetical protein PH1602 55608 - Homing endonucleases	0	DIRECT
48108,52440,56059 48108 - Carbamoyl phosphate synthetase, large subunit connection domain 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
52402,82829,56037 52402 - Adenine nucleotide alpha hydrolases-like 82829 - MesJ substrate recognition domain-like 56037 - PheT/TilS domain	0	DIRECT
56091,50249,47781 56091 - DNA ligase/mRNA capping enzyme, catalytic domain 50249 - Nucleic acid-binding proteins 47781 - RuvA domain 2-like	0	DIRECT
52440,56059,51246 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like 51246 - Rudiment single hybrid motif	0	DIRECT
109736,55326,56042 109736 - FGAM synthase PurL, linker domain 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like	0	DIRECT
50677,52374,47323 50677 - ValRS/IleRS/LeuRS editing domain 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
56091,50249,52113 56091 - DNA ligase/mRNA capping enzyme, catalytic domain 50249 - Nucleic acid-binding proteins 52113 - BRCT domain	0	DIRECT
51246,55326,56042 51246 - Rudiment single hybrid motif 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like	0	DIRECT
46955,56037,46955 46955 - Putative DNA-binding domain 56037 - PheT/TilS domain 46955 - Putative DNA-binding domain	0	DIRECT
47060,47060,55681 47060 - S15/NS1 RNA-binding domain 47060 - S15/NS1 RNA-binding domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
82829,56037,53271 82829 - MesJ substrate recognition domain-like 56037 - PheT/TilS domain 53271 - PRTase-like	0	DIRECT
52777,52777,53474 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases 53474 - alpha/beta-Hydrolases	0	DIRECT
56059,53623,53244 56059 - Glutathione synthetase ATP-binding domain-like 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
50891,160467,50891 50891 - Cyclophilin-like 160467 - PH0987 N-terminal domain-like 50891 - Cyclophilin-like	0	DIRECT
47781,47781,52113 47781 - RuvA domain 2-like 47781 - RuvA domain 2-like 52113 - BRCT domain	0	DIRECT
57770,52374,47323 57770 - Methionyl-tRNA synthetase (MetRS), Zn-domain 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
56059,51246,55326 56059 - Glutathione synthetase ATP-binding domain-like 51246 - Rudiment single hybrid motif 55326 - PurM N-terminal domain-like	0	DIRECT
50249,46955,56037 50249 - Nucleic acid-binding proteins 46955 - Putative DNA-binding domain 56037 - PheT/TilS domain	0	DIRECT
55205,55205,52913 55205 - EPT/RTPC-like 55205 - EPT/RTPC-like 52913 - RNA 3'-terminal phosphate cyclase, RPTC, insert domain	0	DIRECT
47060,55681,52954 47060 - S15/NS1 RNA-binding domain 55681 - Class II aaRS and biotin synthetases 52954 - Class II aaRS ABD-related	0	DIRECT
52402,54810,54810 52402 - Adenine nucleotide alpha hydrolases-like 54810 - GMP synthetase C-terminal dimerisation domain 54810 - GMP synthetase C-terminal dimerisation domain	0	DIRECT
50249,47781,47781 50249 - Nucleic acid-binding proteins 47781 - RuvA domain 2-like 47781 - RuvA domain 2-like	0	DIRECT
50037,53067,53067 50037 - C-terminal domain of transcriptional repressors 53067 - Actin-like ATPase domain 53067 - Actin-like ATPase domain	0	DIRECT
52317,52402,54810 52317 - Class I glutamine amidotransferase-like 52402 - Adenine nucleotide alpha hydrolases-like 54810 - GMP synthetase C-terminal dimerisation domain	0	DIRECT
52440,56059,48108 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like 48108 - Carbamoyl phosphate synthetase, large subunit connection domain	0	DIRECT
56059,52335,51556 56059 - Glutathione synthetase ATP-binding domain-like 52335 - Methylglyoxal synthase-like 51556 - Metallo-dependent hydrolases	0	DIRECT
50249,55681,55261 50249 - Nucleic acid-binding proteins 55681 - Class II aaRS and biotin synthetases 55261 - GAD domain-like	0	DIRECT
55190,52374,47323 55190 - Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases	0	DIRECT
46955,55681,54991 46955 - Putative DNA-binding domain 55681 - Class II aaRS and biotin synthetases 54991 - Anticodon-binding domain of PheRS	0	DIRECT
52374,47323,50249 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 50249 - Nucleic acid-binding proteins	0	DIRECT
52374,47323,46589 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 46589 - tRNA-binding arm	0	DIRECT
50249,56037,46955 50249 - Nucleic acid-binding proteins 56037 - PheT/TilS domain 46955 - Putative DNA-binding domain	0	DIRECT
51984,53623,53244 51984 - MurCD N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
51735,52210,52210 51735 - NAD(P)-binding Rossmann-fold domains 52210 - Succinyl-CoA synthetase domains 52210 - Succinyl-CoA synthetase domains	0	DIRECT
50249,47781,52113 50249 - Nucleic acid-binding proteins 47781 - RuvA domain 2-like 52113 - BRCT domain	0	DIRECT
54001,56059,52440 54001 - Cysteine proteinases 56059 - Glutathione synthetase ATP-binding domain-like 52440 - PreATP-grasp domain	0	DIRECT
46785,55681,50037 46785 - "Winged helix" DNA-binding domain 55681 - Class II aaRS and biotin synthetases 50037 - C-terminal domain of transcriptional repressors	0	DIRECT
55186,55681,52954 55186 - ThrRS/AlaRS common domain 55681 - Class II aaRS and biotin synthetases 52954 - Class II aaRS ABD-related	0	DIRECT
52440,56059,52335 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like 52335 - Methylglyoxal synthase-like	0	DIRECT
50249,52113,52113 50249 - Nucleic acid-binding proteins 52113 - BRCT domain 52113 - BRCT domain	0	DIRECT
55326,56042,53328 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like 53328 - Formyltransferase	0	DIRECT
81271,55186,55681 81271 - TGS-like 55186 - ThrRS/AlaRS common domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
56059,48108,52440 56059 - Glutathione synthetase ATP-binding domain-like 48108 - Carbamoyl phosphate synthetase, large subunit connection domain 52440 - PreATP-grasp domain	0	DIRECT
55326,56042,55326 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like 55326 - PurM N-terminal domain-like	0	DIRECT
52540,-7,52317 52540 - P-loop containing nucleoside triphosphate hydrolases -7 - CATH 52317 - Class I glutamine amidotransferase-like	0	DIRECT
117018,56091,50249 117018 - ATP-dependent DNA ligase DNA-binding domain 56091 - DNA ligase/mRNA capping enzyme, catalytic domain 50249 - Nucleic acid-binding proteins	0	DIRECT
52374,47323,47060 52374 - Nucleotidylyl transferase 47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 47060 - S15/NS1 RNA-binding domain	0	DIRECT
52021,52317,52440 52021 - Carbamoyl phosphate synthetase, small subunit N-terminal domain 52317 - Class I glutamine amidotransferase-like 52440 - PreATP-grasp domain	0	DIRECT
55681,50037,53067 55681 - Class II aaRS and biotin synthetases 50037 - C-terminal domain of transcriptional repressors 53067 - Actin-like ATPase domain	0	DIRECT
101353,50447,55186 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 50447 - Translation proteins 55186 - ThrRS/AlaRS common domain	0	DIRECT
55681,101353,50447 55681 - Class II aaRS and biotin synthetases 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 50447 - Translation proteins	0	DIRECT
53244,52440,56059 53244 - MurD-like peptide ligases, peptide-binding domain 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
55326,56042,52317 55326 - PurM N-terminal domain-like 56042 - PurM C-terminal domain-like 52317 - Class I glutamine amidotransferase-like	0	DIRECT
55681,101353,55186 55681 - Class II aaRS and biotin synthetases 101353 - Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) 55186 - ThrRS/AlaRS common domain	0	DIRECT
103365,55608,103365 103365 - Hypothetical protein PH1602 55608 - Homing endonucleases 103365 - Hypothetical protein PH1602	0	DIRECT
56037,46955,55681 56037 - PheT/TilS domain 46955 - Putative DNA-binding domain 55681 - Class II aaRS and biotin synthetases	0	DIRECT
53623,53244,52440 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain 52440 - PreATP-grasp domain	0	DIRECT
51735,53623,53244 51735 - NAD(P)-binding Rossmann-fold domains 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
47060,47060,47060 47060 - S15/NS1 RNA-binding domain 47060 - S15/NS1 RNA-binding domain 47060 - S15/NS1 RNA-binding domain	0	DIRECT
82697,109736,55326 82697 - PurS-like 109736 - FGAM synthase PurL, linker domain 55326 - PurM N-terminal domain-like	0	DIRECT
63418,53623,53244 63418 - MurE/MurF N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
52335,51556,51338 52335 - Methylglyoxal synthase-like 51556 - Metallo-dependent hydrolases 51338 - Composite domain of metallo-dependent hydrolases	0	DIRECT
47616,52374,50715 47616 - GST C-terminal domain-like 52374 - Nucleotidylyl transferase 50715 - Ribosomal protein L25-like	0	DIRECT
55681,52954,64586 55681 - Class II aaRS and biotin synthetases 52954 - Class II aaRS ABD-related 64586 - C-terminal domain of ProRS	0	DIRECT
52777,52777,56801 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like	0.0002781	DIRECT
52777,56801,47336 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like	0.0006155	DIRECT
56801,47336,52777 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.002131	INHERITED FROM: Forming carbon-nitrogen bonds || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Acid--amino-acid ligases (peptide synthases)
47336,52777,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0.01595	INHERITED FROM: Forming carbon-nitrogen bonds || N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase || Acid--amino-acid ligases (peptide synthases)