O31423 · SKFB_BACSU
- ProteinSporulation killing factor maturation protein SkfB
- GeneskfB
- StatusUniProtKB reviewed (Swiss-Prot)
- Organism
- Amino acids410 (go to sequence)
- Protein existenceEvidence at protein level
- Annotation score4/5
Function
function
Catalyzes the formation of the thioether bond required for production of the sporulation killing factor (SKF) from SkfA (PubMed:12817086).
Forms the cysteine-methionine thioether bond found in SKF; the acceptor amino acid can be hydrophobic, aromatic or a small hydrophilic amino acid but not a larger hydrophilic amino acid, i.e. Met=Ala, Phe, Leu, Tyr>Asn, Ser>>Gln, Glu, Lys (PubMed:23282011).
The relative position of Cys and Met in the substrate cannot be inverted, in vitro the thioether bond cannot be made in the absence of the SkfA propeptide, suggesting this is the first reaction in SKF maturation (PubMed:23282011).
In vitro, in the absence of a second substrate, cleaves S-adenosyl-L-methionine into Met and 5'-dA (PubMed:23282011).
Forms the cysteine-methionine thioether bond found in SKF; the acceptor amino acid can be hydrophobic, aromatic or a small hydrophilic amino acid but not a larger hydrophilic amino acid, i.e. Met=Ala, Phe, Leu, Tyr>Asn, Ser>>Gln, Glu, Lys (PubMed:23282011).
The relative position of Cys and Met in the substrate cannot be inverted, in vitro the thioether bond cannot be made in the absence of the SkfA propeptide, suggesting this is the first reaction in SKF maturation (PubMed:23282011).
In vitro, in the absence of a second substrate, cleaves S-adenosyl-L-methionine into Met and 5'-dA (PubMed:23282011).
Miscellaneous
Accelerated cannibalism by skf- cells is seen on solid media but not in liquid media.
Cofactor
Note: Binds 2 [4Fe-4S] clusters. One cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine (PubMed:23282011).
The other is coordinated via 3 cysteines and maybe direct contact with the SkfA precursor (Probable).
The other is coordinated via 3 cysteines and maybe direct contact with the SkfA precursor (Probable).
Features
Showing features for binding site.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Binding site | 117 | [4Fe-4S] cluster 1 (UniProtKB | ChEBI); 4Fe-4S-S-AdoMet | ||||
Sequence: C | ||||||
Binding site | 121 | [4Fe-4S] cluster 1 (UniProtKB | ChEBI); 4Fe-4S-S-AdoMet | ||||
Sequence: C | ||||||
Binding site | 124 | [4Fe-4S] cluster 1 (UniProtKB | ChEBI); 4Fe-4S-S-AdoMet | ||||
Sequence: C | ||||||
Binding site | 380 | [4Fe-4S] cluster 2 (UniProtKB | ChEBI); 4Fe-4S-S-substrate | ||||
Sequence: C | ||||||
Binding site | 385 | [4Fe-4S] cluster 2 (UniProtKB | ChEBI); 4Fe-4S-S-substrate | ||||
Sequence: C | ||||||
Binding site | 387 | [4Fe-4S] cluster 2 (UniProtKB | ChEBI); 4Fe-4S-S-substrate | ||||
Sequence: C |
GO annotations
Aspect | Term | |
---|---|---|
Cellular Component | cytoplasm | |
Molecular Function | 4 iron, 4 sulfur cluster binding | |
Molecular Function | metal ion binding | |
Molecular Function | oxidoreductase activity | |
Biological Process | bacteriocin biosynthetic process |
Keywords
- Molecular function
- Biological process
- Ligand
Enzyme and pathway databases
Names & Taxonomy
Protein names
- Recommended nameSporulation killing factor maturation protein SkfB
- EC number
Gene names
Organism names
- Organism
- Strain
- Taxonomic lineageBacteria > Bacillota > Bacilli > Bacillales > Bacillaceae > Bacillus
Accessions
- Primary accessionO31423
- Secondary accessions
Proteomes
Subcellular Location
Phenotypes & Variants
Disruption phenotype
When the skfA-skfB-skfC-skfE-skfF-skfG-skfH operon is deleted, increased rate of spore formation; a double operon deletion (sdpA-sdpC plus skfA-skfH) makes spores even faster (PubMed:12817086).
Features
Showing features for mutagenesis.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Mutagenesis | 117-124 | No longer cleaves SAM, contains 55% iron of wild-type. | ||||
Sequence: CNLSCSFC → ANLSASFA | ||||||
Mutagenesis | 380-387 | Cleaves SAM, but does not form thioether bond, contains 52% iron of wild-type. | ||||
Sequence: CEAKNCKC → AEAKNAKA |
PTM/Processing
Features
Showing features for chain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Chain | PRO_0000153049 | 1-410 | Sporulation killing factor maturation protein SkfB | |||
Sequence: MSYDRVKDFDLPELAVHLQPHGAVMIDRKSMFYFRLSGRGAQLAFLLSKNKNLHKTARIWEIMKKEEMSADQLKEELSAHPFTEAWTEGLLDQPLHVSGSLDSYLPISCTLQLTNACNLSCSFCYASSGKPYPEELSSEQWILVMQKLAAHGVADITLTGGEAKLIKGFKELVVVASSLFTNVNVFSNGLNWRDEEVELLSHLGNVSVQISIDGMDNTHDQLRGRKGGFKESMNTIKKLSEANIPVIVAMTINESNADEVSDVVEQCANAGAFIFRAGKTLSVGRATEGFKALDIDFEEMVQIQLREARHKWGDRLNIIDWEHEESSFTTDFCTPGYLAWYIRADGYVTPCQLEDLPLGHILEDSMADIGSPARLLQLKCEAKNCKCIGKIELSEPDLPFQKEVKAGIQE |
Proteomic databases
Expression
Induction
By Spo0A (PubMed:12817086) and PhoP, during nutrient starvation, especially phosphate starvation. Repressed by AbrB during normal growth when nutrients are plentiful, in association with the transcriptional repressor Abh.
Interaction
Protein-protein interaction databases
Structure
Family & Domains
Features
Showing features for domain.
Type | ID | Position(s) | Description | |||
---|---|---|---|---|---|---|
Domain | 103-314 | Radical SAM core | ||||
Sequence: SYLPISCTLQLTNACNLSCSFCYASSGKPYPEELSSEQWILVMQKLAAHGVADITLTGGEAKLIKGFKELVVVASSLFTNVNVFSNGLNWRDEEVELLSHLGNVSVQISIDGMDNTHDQLRGRKGGFKESMNTIKKLSEANIPVIVAMTINESNADEVSDVVEQCANAGAFIFRAGKTLSVGRATEGFKALDIDFEEMVQIQLREARHKWGD |
Sequence similarities
Belongs to the radical SAM superfamily.
Phylogenomic databases
Family and domain databases
Sequence
- Sequence statusComplete
- Length410
- Mass (Da)45,755
- Last updated2003-08-04 v2
- Checksum3D243C673E811C0F
Sequence caution
Keywords
- Technical term
Sequence databases
Nucleotide Sequence | Protein Sequence | Molecule Type | Status | |
---|---|---|---|---|
AB006424 EMBL· GenBank· DDBJ | BAA33087.1 EMBL· GenBank· DDBJ | Genomic DNA | Frameshift | |
AB006424 EMBL· GenBank· DDBJ | BAA33088.1 EMBL· GenBank· DDBJ | Genomic DNA | Frameshift | |
AB006424 EMBL· GenBank· DDBJ | BAA33089.1 EMBL· GenBank· DDBJ | Genomic DNA | Frameshift | |
AL009126 EMBL· GenBank· DDBJ | CAB11985.2 EMBL· GenBank· DDBJ | Genomic DNA |