HAMAP rule MF_00206

General rule information [?]

Accession	MF_00206
Dates	1-JUN-2001 (Created) 14-SEP-2023 (Last updated, Version 60)
Name	Lipoyl_synth
Scope(s)	Bacteria Archaea
Template(s)	P60716 (LIPA_ECOLI); O32129 (LIPA_BACSU); P9WK91 (LIPA_MYCTU); Q8DLC2 (LIPA2_THEVB); Q97U63 (LIPA_SACS2); [ Recover all ]
Triggered by	case c? <OC:Bacteria> or <OC:Archaea> HAMAP; MF_00206 (Get profile general information and statistics) end case

Propagated annotation [?]

Identifier, protein and gene names [?]

Identifier	LIPA
Protein name	RecName: Full=Lipoyl synthase; EC=2.8.1.8; AltName: Full=Lip-syn; Short=LS; AltName: Full=Lipoate synthase; AltName: Full=Lipoic acid synthase; AltName: Full=Sulfur insertion protein LipA;
Gene name	Name=lipA;

Comments [?]

FUNCTION	Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives.
CATALYTIC ACTIVITY	Reaction=[[Fe-S] cluster scaffold protein carrying a second [4Fe- 4S](2+) cluster] + 4 H(+) + N(6)-octanoyl-L-lysyl-[protein] + 2 oxidized [2Fe-2S]-[ferredoxin] + 2 S-adenosyl-L-methionine = 2 5'- deoxyadenosine + [[Fe-S] cluster scaffold protein] + 4 Fe(3+) + 2 hydrogen sulfide + 2 L-methionine + N(6)-[(R)-dihydrolipoyl]-L-lysyl- [protein] + 2 reduced [2Fe-2S]-[ferredoxin]; Xref=Rhea:RHEA:16585, Rhea:RHEA-COMP:9928, Rhea:RHEA-COMP:10000, Rhea:RHEA-COMP:10001, Rhea:RHEA-COMP:10475, Rhea:RHEA-COMP:14568, Rhea:RHEA-COMP:14569, ChEBI:CHEBI:15378, ChEBI:CHEBI:17319, ChEBI:CHEBI:29034, ChEBI:CHEBI:29919, ChEBI:CHEBI:33722, ChEBI:CHEBI:33737, ChEBI:CHEBI:33738, ChEBI:CHEBI:57844, ChEBI:CHEBI:59789, ChEBI:CHEBI:78809, ChEBI:CHEBI:83100; EC=2.8.1.8;
COFACTOR	Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883; Note=Binds 2 [4Fe-4S] clusters per subunit. One cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.;
case <OC:Bacillales>
PATHWAY	Protein modification; protein lipoylation via endogenous pathway; protein N(6)-(lipoyl)lysine from octanoyl-[acyl-carrier- protein].
else
PATHWAY	Protein modification; protein lipoylation via endogenous pathway; protein N(6)-(lipoyl)lysine from octanoyl-[acyl-carrier- protein]: step 2/2.
end case
SUBCELLULAR LOCATION	Cytoplasm.
SIMILARITY	Belongs to the radical SAM superfamily. Lipoyl synthase family.

Keywords [?]

S-adenosyl-L-methionine

Transferase

Gene Ontology [?]

GO:0016783; Molecular function:sulfurtransferase activity

GO:0016992; Molecular function:lipoate synthase activity

GO:0051539; Molecular function:4 iron, 4 sulfur cluster binding

GO:0009107; Biological process:lipoate biosynthetic process

GO:0009249; Biological process:protein lipoylation

GO:0005737; Cellular component:cytoplasm

Cross-references [?]

Pfam	PF04055; Radical_SAM; 1;
NCBIfam	TIGR00510; LipA; 1;

Features [?]

From: LIPA_MYCTU (P9WK91)

Key

From

Description

Tag

Condition

FTGroup

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="1"

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="1"

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="1"

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="2"
/ligand_note="4Fe-4S-S-AdoMet"

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="2"
/ligand_note="4Fe-4S-S-AdoMet"

BINDING

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="2"
/ligand_note="4Fe-4S-S-AdoMet"

BINDING

292

/ligand="[4Fe-4S] cluster"
/ligand_id="ChEBI:CHEBI:49883"
/ligand_label="1"

Additional information [?]

Size range	276-373 amino acids
Related rules	MF_03128 MF_03129
Fusion	Nter: None Cter: None
Comments	E.coli requires only 2 proteins for the endogenous pathway of protein lipoylation, LipB (MF_00013) and LipA (MF_00206), whereas B.subtilis (and probably many Bacillota) requires 3 enzymes: LipM (MF_02118), LipL (MF_02119) and LipA (MF_00206).

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