HAMAP rule MF_00051
General rule information
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Accession | MF_00051 |
Dates | 1-JUN-2001 (Created) 19-NOV-2022 (Last updated, Version 59) |
Name | SHMT |
Scope | Bacteria
Archaea |
Templates | P0A825 (GLYA_ECOLI); D3DKC4 (GLYA_HYDTT); P9WGI9 (GLYA1_MYCTU); P9WGI7 (GLYA2_MYCTU); P39148 (GLYA_BACSU); Q58992 (GLYA_METJA); Q46A52 (GLYA_METBF); Q9UWT5 (GLYA_SACS2); O27433 (GLYA_METTH); B2DEU7 (MSHMT_PARSX): [Recover all] |
Triggered by |
Propagated annotation
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Identifier, protein and gene names
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case (<OC:Bacteria> and <FT:5=H>) or <OC:Methanomicrobia> or <OC:Halobacteria>
Identifier |
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Protein name |
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Gene name |
|
else case <OC:Bacteria> and <FT:5=T>
Identifier |
|
Protein name |
|
Gene name |
|
else case <OC:Bacteria> and not <FT:5>
Identifier |
|
Protein name |
|
Gene name |
|
else
Identifier |
|
Protein name |
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Gene name |
|
end case
Comments
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case <OC:Bacteria> and <FT:5=H>
Function | Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism. |
Catalytic activity | RHEA:15481: (6R)-5,10-methylene-5,6,7,8-tetrahydrofolate + glycine + H2O = (6S)-5,6,7,8-tetrahydrofolate + L-serine
EC 2.1.2.1 |
else case <OC:Bacteria> and <FT:5=T>
Function | Catalyzes the reversible interconversion of alpha-methyl-L-serine to D-alanine with tetrahydrofolate (THF) serving as the one-carbon carrier. |
Catalytic activity | RHEA:10064: (6R)-5,10-methylene-5,6,7,8-tetrahydrofolate + D-alanine + H2O = (6S)-5,6,7,8-tetrahydrofolate + 2-methylserine
EC 2.1.2.7 |
else case <OC:Bacteria> and not <FT:5>
Function | Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. This reaction serves as the major source of one-carbon groups required for the biosynthesis of purines, thymidylate, methionine, and other important biomolecules. |
Catalytic activity | RHEA:15481: (6R)-5,10-methylene-5,6,7,8-tetrahydrofolate + glycine + H2O = (6S)-5,6,7,8-tetrahydrofolate + L-serine
EC 2.1.2.1 |
else case <OC:Methanomicrobia> or <OC:Halobacteria>
Function | Catalyzes the reversible interconversion of serine and glycine with tetrahydrofolate (THF) serving as the one-carbon carrier. Also exhibits THF-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism. |
Catalytic activity | RHEA:15481: (6R)-5,10-methylene-5,6,7,8-tetrahydrofolate + glycine + H2O = (6S)-5,6,7,8-tetrahydrofolate + L-serine
EC 2.1.2.1 |
else case <OC:Methanobacteria> or <OC:Methanococci> or <OC:Methanopyri> or <OC:Archaeoglobi>
Function | Catalyzes the reversible interconversion of serine and glycine with tetrahydromethanopterin (H4MPT) serving as the one-carbon carrier. Also exhibits a pteridine-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism. |
Catalytic activity | RHEA:47104: 5,10-methylenetetrahydromethanopterin + glycine + H2O = 5,6,7,8-tetrahydromethanopterin + L-serine |
else
Function | Catalyzes the reversible interconversion of serine and glycine with a modified folate serving as the one-carbon carrier. Also exhibits a pteridine-independent aldolase activity toward beta-hydroxyamino acids, producing glycine and aldehydes, via a retro-aldol mechanism. |
end case
Cofactor | pyridoxal 5'-phosphate |
case <OC:Bacteria> or <OC:Methanomicrobia> or <OC:Halobacteria>
Pathway | One-carbon metabolism; tetrahydrofolate interconversion. |
end case
case <FT:5=H>
Pathway | Amino-acid biosynthesis; glycine biosynthesis; glycine from L-serine: step 1/1. |
end case
Subunit | Homodimer. |
Subcellular location | Cytoplasm. |
Similarity | Belongs to the SHMT family. |
Keywords
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case <FTTag:acetylation>
end case
case <FT:5=H>
end case
Gene Ontology
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case <FT:5=H>
GO:0004372; Molecular function: glycine hydroxymethyltransferase activity.
end case
GO:0030170; Molecular function: pyridoxal phosphate binding.
GO:0006730; Biological process: one-carbon metabolic process.
GO:0006730; Biological process: one-carbon metabolic process.
case <FT:5=H>
GO:0019264; Biological process: glycine biosynthetic process from serine.
end case
GO:0005737; Cellular component: cytoplasm.
Cross-references
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Pfam | PF00464; SHMT; 1; |
PROSITE | PS00096; SHMT; 1; |
PIRSF | PIRSF000412; SHMT; 1; |
Features
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From: GLYA_ECOLI (P0A825) | ||||||||||||
Key | From | To | Description | Tag | Condition | FTGroup | ||||||
BINDING (Optional) | 125 | 127 | /ligand="(6S)-5,6,7,8-tetrahydrofolate" /ligand_id="ChEBI:CHEBI:57453 | [GA]-H-[LIV] | ||||||||
BINDING (Optional) | 355 | 357 | /ligand="(6S)-5,6,7,8-tetrahydrofolate" /ligand_id="ChEBI:CHEBI:57453 | [ST]-x-F | ||||||||
BINDING (Optional) | 121 | 121 | /ligand="(6S)-5,6,7,8-tetrahydrofolate" /ligand_id="ChEBI:CHEBI:57453 | L | ||||||||
BINDING (Optional) | 246 | 246 | /ligand="(6S)-5,6,7,8-tetrahydrofolate" /ligand_id="ChEBI:CHEBI:57453 | E | ||||||||
SITE | 228 | 228 | Plays an important role in substrate specificity | [HT] | ||||||||
MOD_RES | 229 | 229 | N6-(pyridoxal phosphate)lysine | K |
case <OC:Escherichia> or <OC:Shigella>
end case
Additional information
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Size range | 406-574 amino acids |
Related rules | None |
Fusion | None |
Comments | The pteridine substrate used in this reaction by Archaea differs depending on the species. Methanomicrobia and Halobacteria appear to use tetrahydrofolate, whereas Methanobacteria and Methanococci use tetrahydromethanopterin, Sulfolobus solfataricus use tetrahydrosulfopterin, and hyperthermophiles use a modified folate (see PMID: 9783425 and references mentioned in template entries). M.tuberculosis possesses 2 SHMTs, one (O53441, Rv1093) binds 1 pyridoxal phosphate per homodimer whereas the other (O53615, Rv0070c) binds 1 pyridoxal phosphate per subunit like other characterized members of the SHMT family. Possible wrong start in ARCFU. Possible C-terminal problem in TREPA. |