Shmt Serine hydroxymethyl transferase [Drosophila melanogaster (fruit fly)] - Gene

Summary

Official Symbol: Shmtprovided by FlyBase
Official Full Name: Serine hydroxymethyl transferaseprovided by FlyBase
Primary source: FLYBASE:FBgn0029823
Locus tag: Dmel_CG3011
See related: AllianceGenome:FB:FBgn0029823
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Drosophila melanogaster
Lineage: Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as: 144561_at; anon-WO03040301.100; CG3011; Dmel\CG3011; HTMLA; Q9W457; shmt; SHMT; Shmt2
Summary: Enables glycine hydroxymethyltransferase activity. Involved in several processes, including behavioral response to ethanol; glycine biosynthetic process from serine; and tetrahydrofolate metabolic process. Located in cytoplasm and nucleus. Is expressed in several structures, including adult head; adult heart; embryonic/larval midgut; embryonic/larval midgut primordium; and visceral mesoderm derivative. Used to study alcohol use disorder; amino acid metabolic disorder; and cancer. Human ortholog(s) of this gene implicated in breast cancer and neurodevelopmental disorder with cardiomyopathy, spasticity, and brain abnormalities. Orthologous to several human genes including SHMT1 (serine hydroxymethyltransferase 1). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: 5C7-5C7; 1-14 cM

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
Release 6.54	current	Release 6 plus ISO1 MT (GCF_000001215.4)	X	NC_004354.4 (5913067..5916797, complement)
Release 5.57	previous assembly	Release 5 (GCF_000001215.2)	X	NC_004354.3 (5807100..5810830, complement)

Chromosome X - NC_004354.4 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

A gene-nutrient interaction between vitamin B6 and serine hydroxymethyltransferase (SHMT) affects genome integrity in Drosophila.
Title: A gene-nutrient interaction between vitamin B6 and serine hydroxymethyltransferase (SHMT) affects genome integrity in Drosophila.
data suggest that mutant eggs contain maternally-provided and SHMT-dependent metabolites in amounts that suffice for early development until interphase 13.
Title: Essential Function of the Serine Hydroxymethyl Transferase (SHMT) Gene During Rapid Syncytial Cell Cycles in Drosophila.

Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

NCBI Orthologs

Orthologs from OrthoDB

Gene Ontology Provided by FlyBase

Function	Evidence Code	Pubs
enables glycine hydroxymethyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables glycine hydroxymethyltransferase activity	IEA Inferred from Electronic Annotation more info
enables glycine hydroxymethyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables pyridoxal phosphate binding	IBA Inferred from Biological aspect of Ancestor more info
enables pyridoxal phosphate binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in behavioral response to ethanol	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in glycine biosynthetic process from serine	IBA Inferred from Biological aspect of Ancestor more info
involved_in glycine biosynthetic process from serine	IEA Inferred from Electronic Annotation more info
involved_in glycine biosynthetic process from serine	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of circadian rhythm	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in tetrahydrofolate interconversion	IEA Inferred from Electronic Annotation more info
involved_in tetrahydrofolate metabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in tetrahydrofolate metabolic process	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in mitochondrial matrix	ISS Inferred from Sequence or Structural Similarity more info
is_active_in mitochondrion	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: serine hydroxymethyl transferase

Names: CG3011-PA; CG3011-PB; CG3011-PC; Shmt-PA; Shmt-PB; Shmt-PC; beta-hydroxy-Epsilon-N-trimethyllysine aldolase; glycine hydroxylmethyltransferase; serine hydroxymethyl transferase 2; serine hydroxymethyltransferase; serine hydroxymethyltransferase 2

NP_001138162.1

EC 2.1.2.1

NP_001284916.1

EC 2.1.2.1

NP_572278.1

EC 2.1.2.1

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_004354.4 Reference assembly

Range

5913067..5916797 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_132050.2 → NP_572278.1 serine hydroxymethyl transferase, isoform A [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_572278.1

Status: REVIEWED

UniProtKB/TrEMBL

Q9W457

Related

FBpp0070792

Conserved Domains (2) summary

cd00378
Location:82 → 493

SHMT; Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl ...

PLN03226
Location:79 → 536

PLN03226; serine hydroxymethyltransferase; Provisional
NM_001297987.1 → NP_001284916.1 serine hydroxymethyl transferase, isoform C [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001284916.1

Status: REVIEWED

UniProtKB/TrEMBL

B7Z0X1

Conserved Domains (2) summary

cd00378
Location:12 → 423

SHMT; Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl ...

PLN03226
Location:9 → 466

PLN03226; serine hydroxymethyltransferase; Provisional
NM_001144690.2 → NP_001138162.1 serine hydroxymethyl transferase, isoform B [Drosophila melanogaster]

See identical proteins and their annotated locations for NP_001138162.1

Status: REVIEWED

UniProtKB/TrEMBL

B7Z0X1

Conserved Domains (2) summary

cd00378
Location:12 → 423

SHMT; Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl ...

PLN03226
Location:9 → 466

PLN03226; serine hydroxymethyltransferase; Provisional