HAMAP rule MF_01278
General rule information
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Accession | MF_01278 |
Dates | 16-APR-2007 (Created)
1-JUN-2023 (Last updated, Version 20) |
Name | Ser_tRNA_synth_type2 |
Scope(s) |
Archaea |
Template(s) | Q46AN5 (SYS2_METBF); Q58477 (SYS2_METJA); O30520 (SYS2_METMP); O27194 (SYS2_METTH); [ Recover all ] |
Triggered by |
HAMAP; MF_01278 (Get profile general information and statistics) |
Propagated annotation
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Identifier, protein and gene names
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Identifier | SYS2 |
Protein name | RecName: Full=Type-2 serine--tRNA ligase; EC=6.1.1.11; AltName: Full=Seryl-tRNA synthetase; Short=SerRS; AltName: Full=Seryl-tRNA(Ser/Sec) synthetase; |
Gene name | Name=serS; |
Comments
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FUNCTION | Catalyzes the attachment of serine to tRNA(Ser). Is also able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L- seryl-tRNA(Sec), which will be further converted into selenocysteinyl- tRNA(Sec). |
CATALYTIC ACTIVITY | Reaction=ATP + L-serine + tRNA(Ser) = AMP + diphosphate + H(+) + L- seryl-tRNA(Ser); Xref=Rhea:RHEA:12292, Rhea:RHEA-COMP:9669, Rhea:RHEA-COMP:9703, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, ChEBI:CHEBI:33019, ChEBI:CHEBI:33384, ChEBI:CHEBI:78442, ChEBI:CHEBI:78533, ChEBI:CHEBI:456215; EC=6.1.1.11; |
CATALYTIC ACTIVITY | Reaction=ATP + L-serine + tRNA(Sec) = AMP + diphosphate + H(+) + L- seryl-tRNA(Sec); Xref=Rhea:RHEA:42580, Rhea:RHEA-COMP:9742, Rhea:RHEA-COMP:10128, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, ChEBI:CHEBI:33019, ChEBI:CHEBI:33384, ChEBI:CHEBI:78442, ChEBI:CHEBI:78533, ChEBI:CHEBI:456215; EC=6.1.1.11; |
case <FTGroup:1> | |
COFACTOR | Name=Zn(2+); Xref=ChEBI:CHEBI:29105; Note=Binds 1 Zn(2+) ion per subunit. This ion is coordinated with 2 cysteines, 1 glutamate and a water molecule that dissociates from the zinc ion to allow the coordination of the amino group of the serine substrate, which is essential for catalysis.; |
end case | |
PATHWAY | Aminoacyl-tRNA biosynthesis; selenocysteinyl-tRNA(Sec) biosynthesis; L-seryl-tRNA(Sec) from L-serine and tRNA(Sec): step 1/1. |
SUBUNIT | Homodimer. |
SUBCELLULAR LOCATION | Cytoplasm. |
DOMAIN | Consists of two distinct domains, a catalytic core and a N- terminal extension that is presumably involved in tRNA binding. |
SIMILARITY | Belongs to the class-II aminoacyl-tRNA synthetase family. Type-2 seryl-tRNA synthetase subfamily. |
Keywords
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Cytoplasm | |
Aminoacyl-tRNA synthetase | |
ATP-binding | |
Ligase | |
Metal-binding | |
Nucleotide-binding | |
Protein biosynthesis | |
case <FTGroup:1> | |
Metal-binding | |
Zinc | |
end case |
Gene Ontology
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GO:0004828; Molecular function:serine-tRNA ligase activity | |
GO:0005524; Molecular function:ATP binding | |
case <FTGroup:1> | |
GO:0008270; Molecular function:zinc ion binding | |
end case | |
GO:0016260; Biological process:selenocysteine biosynthetic process | |
GO:0006434; Biological process:seryl-tRNA aminoacylation | |
GO:0005737; Cellular component:cytoplasm |
Cross-references
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PROSITE | PS50862; AA_TRNA_LIGASE_II; 1; |
Pfam | PF00587; tRNA-synt_2b; 1; |
NCBIfam | TIGR00415; SerS_MJ; 1; |
Features
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From: SYS2_METBF (Q46AN5) | ||||||||||||
Key | From | To | Description | Tag | Condition | FTGroup | ||||||
BINDING | 336 | 338 | /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" |
R-x-E | ||||||||
BINDING | 347 | 348 | /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" |
R-V | ||||||||
BINDING | 353 | 355 | /ligand="L-serine" /ligand_id="ChEBI:CHEBI:33384" |
R-x-E | ||||||||
BINDING | 306 | 306 | /ligand="Zn(2+)" /ligand_id="ChEBI:CHEBI:29105" /ligand_note="catalytic" |
C | 1 | |||||||
BINDING | 355 | 355 | /ligand="Zn(2+)" /ligand_id="ChEBI:CHEBI:29105" /ligand_note="catalytic" |
E | 1 | |||||||
BINDING | 461 | 461 | /ligand="Zn(2+)" /ligand_id="ChEBI:CHEBI:29105" /ligand_note="catalytic" |
C | 1 | |||||||
BINDING | 304 | 304 | /ligand="L-serine" /ligand_id="ChEBI:CHEBI:33384" |
A | ||||||||
BINDING | 336 | 336 | /ligand="L-serine" /ligand_id="ChEBI:CHEBI:33384" |
R | ||||||||
BINDING | 400 | 400 | /ligand="L-serine" /ligand_id="ChEBI:CHEBI:33384" |
Q | ||||||||
BINDING | 432 | 432 | /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" |
E | ||||||||
BINDING | 435 | 435 | /ligand="L-serine" /ligand_id="ChEBI:CHEBI:33384" |
N | ||||||||
BINDING | 468 | 468 | /ligand="ATP" /ligand_id="ChEBI:CHEBI:30616" |
R |
Additional information
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Size range | 500-527 amino acids |
Related rules |
None |
Fusion | Nter: None Cter: None |