Enzyme Commission (EC): Acid--amino-acid ligases (peptide synthases)

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Root: EC Hierarchy (from IntEnz release 70)

Shortest distance to current term (+ for parents, - for children)	EC term [EC ID] <#Children>	(#SF|#FA)	#Supra-domain (Single|Duplex|Triple)
+ + + 3:	root [root] <7>
+ + 2:	Ligases [6] <6>	(98|123)	(97|115|71)
+ 1:	Forming carbon-nitrogen bonds [6.3] <5>	(59|78)	(58|59|38)
0:	Acid--amino-acid ligases (peptide synthases) [6.3.2] <64>	(18|25)	(18|18|11)
- 1:	4-phosphopantoate--beta-alanine ligase [6.3.2.36]	(0|0)	(0|0|0)
- 1:	Aerobactin synthase [6.3.2.39]	(0|0)	(0|0|0)
- 1:	Carnosine synthase [6.3.2.11]	(0|0)	(0|0|0)
- 1:	Coenzyme F420-0:L-glutamate ligase [6.3.2.31]	(2|2)	(2|1|0)
- 1:	Coenzyme F420-1:gamma-L-glutamate ligase [6.3.2.34]	(2|2)	(2|1|0)
- 1:	Coenzyme gamma-F420-2:alpha-L-glutamate ligase [6.3.2.32]	(0|0)	(0|0|0)
- 1:	Cyanophycin synthase (L-arginine-adding) [6.3.2.30]	(0|0)	(1|1|1)
- 1:	Cyanophycin synthase (L-aspartate-adding) [6.3.2.29]	(0|0)	(1|1|1)
- 1:	Cyclopeptine synthase [6.3.2.40]	(0|0)	(0|0|0)
- 1:	D-alanine--D-alanine ligase [6.3.2.4]	(2|2)	(2|2|2)
- 1:	D-alanine--D-serine ligase [6.3.2.35]	(0|0)	(0|0|0)
- 1:	D-alanine--alanyl-poly(glycerolphosphate) ligase [6.3.2.16]	(0|0)	(0|0|0)
- 1:	D-ornithine--citrate ligase [6.3.2.58]	(0|0)	(0|0|0)
- 1:	Dapdiamide synthase [6.3.2.47]	(0|0)	(0|0|0)
- 1:	Dihydrofolate synthase [6.3.2.12]	(0|2)	(0|0|0)
- 1:	Enterobactin synthase [6.3.2.14]	(0|0)	(0|0|0)
- 1:	Fumarate--(S)-2,3-diaminopropanoate ligase [6.3.2.46]	(0|0)	(0|0|0)
- 1:	Gamma-glutamylhistamine synthase [6.3.2.18]	(0|0)	(0|0|0)
- 1:	Glutamate--cysteine ligase [6.3.2.2]	(1|2)	(1|1|0)
- 1:	Glutathione synthase [6.3.2.3]	(2|5)	(2|3|0)
- 1:	Homoglutathione synthase [6.3.2.23]	(0|0)	(0|0|0)
- 1:	ISG15--protein ligase [6.3.2.n3]	(0|0)	(0|0|0)
- 1:	Indoleacetate--lysine synthetase [6.3.2.20]	(0|0)	(0|0|0)
- 1:	Jasmonoyl--L-amino acid synthetase [6.3.2.52]	(0|0)	(0|0|0)
- 1:	L-2,3-diaminopropanoate--citrate ligase [6.3.2.54]	(0|0)	(0|0|0)
- 1:	L-alanine--L-anticapsin ligase [6.3.2.49]	(0|0)	(0|0|0)
- 1:	L-arginine-specific L-amino acid ligase [6.3.2.48]	(0|0)	(0|0|0)
- 1:	N(2)-citryl-N(6)-acetyl-N(6)-hydroxylysine synthase [6.3.2.38]	(0|0)	(0|0|0)
- 1:	N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase [6.3.2.26]	(4|3)	(4|5|5)
- 1:	N-acetylaspartylglutamate synthase [6.3.2.41]	(1|1)	(1|0|0)
- 1:	N-acetylaspartylglutamylglutamate synthase [6.3.2.42]	(0|0)	(0|0|0)
- 1:	Pantoate--beta-alanine ligase (ADP-forming) [6.3.2.44]	(0|0)	(0|0|0)
- 1:	Pantoate--beta-alanine ligase (AMP-forming) [6.3.2.1]	(1|2)	(1|1|0)
- 1:	Phosphopantothenate--cysteine ligase (ATP) [6.3.2.51]	(0|0)	(0|0|0)
- 1:	Phosphopantothenate--cysteine ligase (CTP) [6.3.2.5]	(2|2)	(2|1|0)
- 1:	Phosphoribosylaminoimidazolesuccinocarboxamide synthase [6.3.2.6]	(2|2)	(2|1|0)
- 1:	Staphyloferrin A synthase [6.3.2.57]	(0|0)	(0|0|0)
- 1:	Staphyloferrin B synthase [6.3.2.56]	(0|0)	(0|0|0)
- 1:	Tenuazonic acid synthetase [6.3.2.50]	(0|0)	(0|0|0)
- 1:	Tetrahydrofolate synthase [6.3.2.17]	(2|2)	(2|1|0)
- 1:	Tetrahydrosarcinapterin synthase [6.3.2.33]	(0|1)	(0|0|0)
- 1:	Transferred entry: 2.3.2.23, 2.3.2.27 and 6.2.1.45 [6.3.2.19]	(0|0)	(0|0|0)
- 1:	Transferred entry: 2.3.2.27 and 6.2.1.45 [6.3.2.21]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.1.14 [6.3.2.22]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.1.19 [6.3.2.n2]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.10 [6.3.2.15]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.37 [6.3.2.n1]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.38 and 6.3.2.39 [6.3.2.27]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.41 [6.3.2.n6]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.43 [6.3.2.n4]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.44 [6.3.2.n5]	(0|0)	(0|0|0)
- 1:	Transferred entry: 6.3.2.49 [6.3.2.28]	(0|0)	(0|0|0)
- 1:	Tubulin--tyrosine ligase [6.3.2.25]	(1|0)	(1|0|0)
- 1:	Tyrosine--arginine ligase [6.3.2.24]	(0|0)	(0|0|0)
- 1:	UDP-N-acetylmuramate--L-alanine ligase [6.3.2.8]	(3|3)	(3|3|3)
- 1:	UDP-N-acetylmuramoyl-L-alanine--D-glutamate ligase [6.3.2.9]	(3|3)	(3|3|2)
- 1:	UDP-N-acetylmuramoyl-L-alanine--L-glutamate ligase [6.3.2.53]	(0|0)	(0|0|0)
- 1:	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--2,6-diaminopimelate ligase [6.3.2.13]	(3|3)	(3|2|1)
- 1:	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--D-lysine ligase [6.3.2.37]	(0|0)	(0|0|0)
- 1:	UDP-N-acetylmuramoyl-L-alanyl-D-glutamate--L-lysine ligase [6.3.2.7]	(3|3)	(3|2|1)
- 1:	UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase [6.3.2.10]	(3|2)	(3|2|1)
- 1:	[Amino group carrier protein]--L-2-aminoadipate ligase [6.3.2.43]	(0|1)	(0|0|0)
- 1:	diaminoheptanedioate ligase [6.3.2.45]	(0|0)	(0|0|0)
- 1:	hydroxypropanoate synthase [6.3.2.55]	(0|0)	(0|0|0)

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Superfamily

Superfamily domains annotated to this EC term (SDEC level: Informative)
Highlighted in gray are those with FDR_all>0.001

SCOP term	FDR (all)	Annotation (direct or inherited)
SAICAR synthase-like	0	DIRECT
CoaB-like	0	DIRECT
Glutamine synthetase/guanido kinase	0	DIRECT
Nucleotidylyl transferase	0	DIRECT
CofE-like	0	DIRECT
PreATP-grasp domain	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
MurD-like peptide ligases, peptide-binding domain	0	DIRECT
MurCD N-terminal domain	0	DIRECT
Glutathione synthetase ATP-binding domain-like	0	DIRECT
MurD-like peptide ligases, catalytic domain	0	DIRECT
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.000000000002368	DIRECT
FMN-dependent nitroreductase-like	0.000000004744	DIRECT
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.0000000623	DIRECT
ACP-like	0.0003751	DIRECT
CoA-dependent acyltransferases	0.09337	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
Acetyl-CoA synthetase-like	0.38	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
alpha/beta-Hydrolases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase

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Family

Family domains annotated to this EC term (SDEC level: Highly Informative)
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
ATP-binding domain of peptide synthetases	0	DIRECT
Glutamate-cysteine ligase	0	DIRECT
D-Alanine ligase N-terminal domain	0	DIRECT
MurCDEF C-terminal domain	0	DIRECT
CoaB-like	0	DIRECT
MurCD N-terminal domain	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
Eukaryotic glutathione synthetase, substrate-binding domain	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
MurCDEF	0	DIRECT
SAICAR synthase	0	DIRECT
Prokaryotic glutathione synthetase, N-terminal domain	0	DIRECT
Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC)	0	DIRECT
CofE-like	0	DIRECT
Folylpolyglutamate synthetase	0	DIRECT
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.000000000002549	DIRECT
NADH oxidase/flavin reductase	0.00000006814	DIRECT
Thioesterase domain of polypeptide, polyketide and fatty acid synthases	0.0000001963	DIRECT
Peptidyl carrier domain	0.0000003077	DIRECT
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.0000006544	DIRECT
Acetyl-CoA synthetase-like	0.6953	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
Nucleotide and nucleoside kinases	1	INHERITED FROM: Pantoate--beta-alanine ligase (AMP-forming)

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Supra-domain (including individual superfamily)

Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
PreATP-grasp domain	0	DIRECT
MurCD N-terminal domain	0	DIRECT
Glutathione synthetase ATP-binding domain-like	0	DIRECT
MurD-like peptide ligases, peptide-binding domain	0	DIRECT
Glutamine synthetase/guanido kinase	0	DIRECT
MurE/MurF N-terminal domain	0	DIRECT
CofE-like	0	DIRECT
Nucleotidylyl transferase	0	DIRECT
SAICAR synthase-like	0	DIRECT
MurD-like peptide ligases, catalytic domain	0	DIRECT
CoaB-like	0	DIRECT
Homo-oligomeric flavin-containing Cys decarboxylases, HFCD	0.000000000001704	DIRECT
FMN-dependent nitroreductase-like	0.000000003564	DIRECT
N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0.00000004748	DIRECT
ACP-like	0.0003056	DIRECT
CoA-dependent acyltransferases	0.08134	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
Acetyl-CoA synthetase-like	0.3441	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase
alpha/beta-Hydrolases	1	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase

Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
51735,53623 51735 - NAD(P)-binding Rossmann-fold domains 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
52374,52540 52374 - Nucleotidylyl transferase 52540 - P-loop containing nucleoside triphosphate hydrolases	0	DIRECT
56104,52255 56104 - SAICAR synthase-like 52255 - N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE)	0	DIRECT
53623,53244 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain	0	DIRECT
144010,55469 144010 - CofE-like 55469 - FMN-dependent nitroreductase-like	0	DIRECT
55931,56059 55931 - Glutamine synthetase/guanido kinase 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
52777,53474 52777 - CoA-dependent acyltransferases 53474 - alpha/beta-Hydrolases	0	DIRECT
63418,53623 63418 - MurE/MurF N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
51984,53623 51984 - MurCD N-terminal domain 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
52440,56059 52440 - PreATP-grasp domain 56059 - Glutathione synthetase ATP-binding domain-like	0	DIRECT
56059,53623 56059 - Glutathione synthetase ATP-binding domain-like 53623 - MurD-like peptide ligases, catalytic domain	0	DIRECT
52507,102645 52507 - Homo-oligomeric flavin-containing Cys decarboxylases, HFCD 102645 - CoaB-like	0	DIRECT
53244,52440 53244 - MurD-like peptide ligases, peptide-binding domain 52440 - PreATP-grasp domain	0	DIRECT
52777,56801 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like	0.000000002961	DIRECT
56801,47336 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like	0.0000002053	DIRECT
47336,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.0000003118	DIRECT
56059,52440 56059 - Glutathione synthetase ATP-binding domain-like 52440 - PreATP-grasp domain	0.00008935	DIRECT
52777,52777 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0.001199	INHERITED FROM: N-(5-amino-5-carboxypentanoyl)-L-cysteinyl-D-valine synthase

Supra-domains annotated to this EC term (SPEC level: Informative)
Highlighted in gray are those with FDR>0.001

Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
53623,53244,52440 53623 - MurD-like peptide ligases, catalytic domain 53244 - MurD-like peptide ligases, peptide-binding domain 52440 - PreATP-grasp 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
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
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
52777,52777,53474 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases 53474 - alpha/beta-Hydrolases	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
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
52777,52777,56801 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like	0.000000002494	DIRECT
52777,56801,47336 52777 - CoA-dependent acyltransferases 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like	0.0000000061	DIRECT
56801,47336,52777 56801 - Acetyl-CoA synthetase-like 47336 - ACP-like 52777 - CoA-dependent acyltransferases	0.00000002568	DIRECT
47336,52777,52777 47336 - ACP-like 52777 - CoA-dependent acyltransferases 52777 - CoA-dependent acyltransferases	0.0000003118	DIRECT