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Entry version 215 (23 Feb 2022)
Sequence version 1 (01 Feb 1994)
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Protein

Serine hydroxymethyltransferase, cytosolic

Gene

SHMT1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Interconversion of serine and glycine (PubMed:8505317, PubMed:24698160).

2 Publications

Miscellaneous

In eukaryotes there are two forms of the enzymes: a cytosolic one and a mitochondrial one.Curated

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

pyridoxal 5'-phosphate3 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes regulatory mechanisms for enzymes, transporters or microbial transcription factors, and reports the components which regulate (by activation or inhibition) the reaction.<p><a href='/help/activity_regulation' target='_top'>More...</a></p>Activity regulationi

Inhibited by tetrahydrofolate concentrations above 40 µM.1 Publication

<p>This subsection of the 'Function' section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

  1. KM=0.18 mM for L-serine1 Publication
  2. KM=5.2 µM for tetrahydrofolate1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: tetrahydrofolate interconversion

This protein is involved in the pathway tetrahydrofolate interconversion, which is part of One-carbon metabolism.1 Publication
View all proteins of this organism that are known to be involved in the pathway tetrahydrofolate interconversion and in One-carbon metabolism.

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionTransferase
Biological processOne-carbon metabolism
LigandPyridoxal phosphate

Enzyme and pathway databases

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
2.1.2.1, 2681

Pathway Commons web resource for biological pathway data

More...
PathwayCommonsi
P34896

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-HSA-196757, Metabolism of folate and pterines
R-HSA-71262, Carnitine synthesis

SABIO-RK: Biochemical Reaction Kinetics Database

More...
SABIO-RKi
P34896

SignaLink: a signaling pathway resource with multi-layered regulatory networks

More...
SignaLinki
P34896

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00193

Protein family/group databases

MoonProt database of moonlighting proteins

More...
MoonProti
P34896

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Serine hydroxymethyltransferase, cytosolic (EC:2.1.2.12 Publications)
Short name:
SHMT
Alternative name(s):
Glycine hydroxymethyltransferase
Serine methylase
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:SHMT1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiHomo sapiens (Human)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri9606 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000005640 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 17

Organism-specific databases

Human Gene Nomenclature Database

More...
HGNCi
HGNC:10850, SHMT1

Online Mendelian Inheritance in Man (OMIM)

More...
MIMi
182144, gene

neXtProt; the human protein knowledge platform

More...
neXtProti
NX_P34896

Eukaryotic Pathogen, Vector and Host Database Resources

More...
VEuPathDBi
HostDB:ENSG00000176974

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Cytoplasm

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Organism-specific databases

DisGeNET

More...
DisGeNETi
6470

Open Targets

More...
OpenTargetsi
ENSG00000176974

The Pharmacogenetics and Pharmacogenomics Knowledge Base

More...
PharmGKBi
PA35753

Miscellaneous databases

Pharos NIH Druggable Genome Knowledgebase

More...
Pharosi
P34896, Tbio

Chemistry databases

ChEMBL database of bioactive drug-like small molecules

More...
ChEMBLi
CHEMBL1772927

Drug and drug target database

More...
DrugBanki
DB02800, 5-hydroxymethyl-5,6-dihydrofolic acid
DB00145, Glycine
DB01055, Mimosine
DB02824, N-Pyridoxyl-Glycine-5-Monophosphate
DB00114, Pyridoxal phosphate
DB00116, Tetrahydrofolic acid
DB02067, Triglu-5-formyl-tetrahydrofolate

DrugCentral

More...
DrugCentrali
P34896

Genetic variation databases

BioMuta curated single-nucleotide variation and disease association database

More...
BioMutai
SHMT1

Domain mapping of disease mutations (DMDM)

More...
DMDMi
462184

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001135041 – 483Serine hydroxymethyltransferase, cytosolicAdd BLAST483

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei257N6-(pyridoxal phosphate)lysineCombined sources1 Publication1
Isoform 2 (identifier: P34896-2)
Modified residuei271N6-acetyllysineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

Encyclopedia of Proteome Dynamics

More...
EPDi
P34896

jPOST - Japan Proteome Standard Repository/Database

More...
jPOSTi
P34896

MassIVE - Mass Spectrometry Interactive Virtual Environment

More...
MassIVEi
P34896

MaxQB - The MaxQuant DataBase

More...
MaxQBi
P34896

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P34896

PeptideAtlas

More...
PeptideAtlasi
P34896

PRoteomics IDEntifications database

More...
PRIDEi
P34896

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
4797
54945 [P34896-1]
54946 [P34896-2]
54947 [P34896-3]

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...
iPTMneti
P34896

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...
PhosphoSitePlusi
P34896

SwissPalm database of S-palmitoylation events

More...
SwissPalmi
P34896

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSG00000176974, Expressed in right lobe of liver and 228 other tissues

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
P34896, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
P34896, HS

Organism-specific databases

Human Protein Atlas

More...
HPAi
ENSG00000176974, Tissue enhanced (kidney, liver)

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homotetramer (PubMed:24698160, PubMed:25619277, PubMed:9753690). Identified in complex with ABRAXAS2 and the other subunits of the BRISC complex, at least composed of ABRAXAS2, BRCC3/BRCC36, BABAM2 and BABAM1/NBA1 (PubMed:24075985).

4 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Hide details

GO - Molecular functioni

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
112366, 70 interactors

CORUM comprehensive resource of mammalian protein complexes

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CORUMi
P34896

Protein interaction database and analysis system

More...
IntActi
P34896, 21 interactors

Molecular INTeraction database

More...
MINTi
P34896

STRING: functional protein association networks

More...
STRINGi
9606.ENSP00000318868

Chemistry databases

BindingDB database of measured binding affinities

More...
BindingDBi
P34896

Miscellaneous databases

RNAct, Protein-RNA interaction predictions for model organisms.

More...
RNActi
P34896, protein

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

Secondary structure

1483
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
P34896

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...
EvolutionaryTracei
P34896

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the SHMT family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2467, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00390000002762

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_022477_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P34896

Identification of Orthologs from Complete Genome Data

More...
OMAi
CATTHKV

Database of Orthologous Groups

More...
OrthoDBi
372408at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P34896

TreeFam database of animal gene trees

More...
TreeFami
TF314667

Family and domain databases

Conserved Domains Database

More...
CDDi
cd00378, SHMT, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.640.10, 1 hit
3.90.1150.10, 1 hit

HAMAP database of protein families

More...
HAMAPi
MF_00051, SHMT, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR015424, PyrdxlP-dep_Trfase
IPR015421, PyrdxlP-dep_Trfase_major
IPR015422, PyrdxlP-dep_Trfase_small
IPR001085, Ser_HO-MeTrfase
IPR019798, Ser_HO-MeTrfase_PLP_BS
IPR039429, SHMT-like_dom

The PANTHER Classification System

More...
PANTHERi
PTHR11680, PTHR11680, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF00464, SHMT, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF000412, SHMT, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF53383, SSF53383, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS00096, SHMT, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequences (4+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry describes 4 <p>This subsection of the 'Sequence' section lists the alternative protein sequences (isoforms) that can be generated from the same gene by a single or by the combination of up to four biological events (alternative promoter usage, alternative splicing, alternative initiation and ribosomal frameshifting). Additionally, this section gives relevant information on each alternative protein isoform.<p><a href='/help/alternative_products' target='_top'>More...</a></p> isoformsi produced by alternative splicing. AlignAdd to basket

This entry has 4 described isoforms and 3 potential isoforms that are computationally mapped.Show allAlign All

Isoform 1 (identifier: P34896-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the <p><strong>What is the canonical sequence?</strong><p><a href='/help/canonical_and_isoforms' target='_top'>More...</a></p>canonicali sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MTMPVNGAHK DADLWSSHDK MLAQPLKDSD VEVYNIIKKE SNRQRVGLEL
60 70 80 90 100
IASENFASRA VLEALGSCLN NKYSEGYPGQ RYYGGTEFID ELETLCQKRA
110 120 130 140 150
LQAYKLDPQC WGVNVQPYSG SPANFAVYTA LVEPHGRIMG LDLPDGGHLT
160 170 180 190 200
HGFMTDKKKI SATSIFFESM PYKVNPDTGY INYDQLEENA RLFHPKLIIA
210 220 230 240 250
GTSCYSRNLE YARLRKIADE NGAYLMADMA HISGLVAAGV VPSPFEHCHV
260 270 280 290 300
VTTTTHKTLR GCRAGMIFYR KGVKSVDPKT GKEILYNLES LINSAVFPGL
310 320 330 340 350
QGGPHNHAIA GVAVALKQAM TLEFKVYQHQ VVANCRALSE ALTELGYKIV
360 370 380 390 400
TGGSDNHLIL VDLRSKGTDG GRAEKVLEAC SIACNKNTCP GDRSALRPSG
410 420 430 440 450
LRLGTPALTS RGLLEKDFQK VAHFIHRGIE LTLQIQSDTG VRATLKEFKE
460 470 480
RLAGDKYQAA VQALREEVES FASLFPLPGL PDF
Length:483
Mass (Da):53,083
Last modified:February 1, 1994 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i6CDD6CA06D017C19
GO
Isoform 2 (identifier: P34896-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     274-312: Missing.

Show »
Length:444
Mass (Da):49,028
Checksum:i92091DCEB64B65D1
GO
Isoform 3 (identifier: P34896-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     273-352: Missing.

Show »
Length:403
Mass (Da):44,552
Checksum:i9CE930DFA6FC1FF7
GO
Isoform 4 (identifier: P34896-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-138: Missing.

Show »
Length:345
Mass (Da):37,672
Checksum:iDD683D88B3A1D1FA
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There are 3 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
J3KRZ5J3KRZ5_HUMAN
Glycine hydroxymethyltransferase
SHMT1
167Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
J3KRK5J3KRK5_HUMAN
Serine hydroxymethyltransferase, cy...
SHMT1
128Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
A0A087WTD8A0A087WTD8_HUMAN
Glycine hydroxymethyltransferase
SHMT1
125Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes natural variant(s) of the protein sequence.<p><a href='/help/variant' target='_top'>More...</a></p>Natural variantiVAR_059795340E → Q. Corresponds to variant dbSNP:rs7215148EnsemblClinVar.1
Natural variantiVAR_022010474L → F2 PublicationsCorresponds to variant dbSNP:rs1979277EnsemblClinVar.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section describes the sequence of naturally occurring alternative protein isoform(s). The changes in the amino acid sequence may be due to alternative splicing, alternative promoter usage, alternative initiation, or ribosomal frameshifting.<p><a href='/help/var_seq' target='_top'>More...</a></p>Alternative sequenceiVSP_0546101 – 138Missing in isoform 4. 1 PublicationAdd BLAST138
Alternative sequenceiVSP_006096273 – 352Missing in isoform 3. CuratedAdd BLAST80
Alternative sequenceiVSP_006095274 – 312Missing in isoform 2. 1 PublicationAdd BLAST39

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
L11931 mRNA Translation: AAA63257.1
L23928 mRNA Translation: AAA36020.1
L23928 mRNA Translation: AAA36019.1
L23928 mRNA Translation: AAA36018.1
Y14485 mRNA Translation: CAB54838.1
Y14486 mRNA Translation: CAB54839.1
Y14487 mRNA Translation: CAB54840.1
AK298415 mRNA Translation: BAG60641.1
AC127537 Genomic DNA No translation available.
AL353997 Genomic DNA No translation available.
CH471196 Genomic DNA Translation: EAW55637.1
CH471196 Genomic DNA Translation: EAW55640.1
CH471196 Genomic DNA Translation: EAW55641.1
BC007979 mRNA Translation: AAH07979.1
BC022874 mRNA Translation: AAH22874.1
BC038598 mRNA Translation: AAH38598.1

The Consensus CDS (CCDS) project

More...
CCDSi
CCDS11196.1 [P34896-1]
CCDS11197.1 [P34896-2]
CCDS62112.1 [P34896-4]

Protein sequence database of the Protein Information Resource

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PIRi
A46746

NCBI Reference Sequences

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RefSeqi
NP_001268715.1, NM_001281786.1 [P34896-4]
NP_004160.3, NM_004169.4 [P34896-1]
NP_683718.1, NM_148918.2 [P34896-2]
XP_005256824.1, XM_005256767.3 [P34896-1]
XP_011522294.1, XM_011523992.2 [P34896-3]
XP_016880446.1, XM_017024957.1 [P34896-1]
XP_016880447.1, XM_017024958.1 [P34896-2]

Genome annotation databases

Ensembl eukaryotic genome annotation project

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Ensembli
ENST00000316694; ENSP00000318868; ENSG00000176974
ENST00000352886; ENSP00000345881; ENSG00000176974 [P34896-4]
ENST00000354098; ENSP00000318805; ENSG00000176974 [P34896-2]
ENST00000640392; ENSP00000492715; ENSG00000284320
ENST00000644141; ENSP00000495756; ENSG00000284320

Database of genes from NCBI RefSeq genomes

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GeneIDi
6470

KEGG: Kyoto Encyclopedia of Genes and Genomes

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KEGGi
hsa:6470

Matched Annotation from NCBI and EMBL-EBI (MANE) - Phase one

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MANE-Selecti
ENST00000316694.8; ENSP00000318868.3; NM_004169.5; NP_004160.3

UCSC genome browser

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UCSCi
uc002gta.5, human [P34896-1]

Keywords - Coding sequence diversityi

Alternative splicing

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L11931 mRNA Translation: AAA63257.1
L23928 mRNA Translation: AAA36020.1
L23928 mRNA Translation: AAA36019.1
L23928 mRNA Translation: AAA36018.1
Y14485 mRNA Translation: CAB54838.1
Y14486 mRNA Translation: CAB54839.1
Y14487 mRNA Translation: CAB54840.1
AK298415 mRNA Translation: BAG60641.1
AC127537 Genomic DNA No translation available.
AL353997 Genomic DNA No translation available.
CH471196 Genomic DNA Translation: EAW55637.1
CH471196 Genomic DNA Translation: EAW55640.1
CH471196 Genomic DNA Translation: EAW55641.1
BC007979 mRNA Translation: AAH07979.1
BC022874 mRNA Translation: AAH22874.1
BC038598 mRNA Translation: AAH38598.1
CCDSiCCDS11196.1 [P34896-1]
CCDS11197.1 [P34896-2]
CCDS62112.1 [P34896-4]
PIRiA46746
RefSeqiNP_001268715.1, NM_001281786.1 [P34896-4]
NP_004160.3, NM_004169.4 [P34896-1]
NP_683718.1, NM_148918.2 [P34896-2]
XP_005256824.1, XM_005256767.3 [P34896-1]
XP_011522294.1, XM_011523992.2 [P34896-3]
XP_016880446.1, XM_017024957.1 [P34896-1]
XP_016880447.1, XM_017024958.1 [P34896-2]

3D structure databases

Select the link destinations:

Protein Data Bank Europe

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PDBei

Protein Data Bank RCSB

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RCSB PDBi

Protein Data Bank Japan

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PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1BJ4X-ray2.65A11-480[»]
6FL5X-ray3.60A/D/G/J11-481[»]
6M5WX-ray3.10A1-483[»]
SMRiP34896
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGRIDi112366, 70 interactors
CORUMiP34896
IntActiP34896, 21 interactors
MINTiP34896
STRINGi9606.ENSP00000318868

Chemistry databases

BindingDBiP34896
ChEMBLiCHEMBL1772927
DrugBankiDB02800, 5-hydroxymethyl-5,6-dihydrofolic acid
DB00145, Glycine
DB01055, Mimosine
DB02824, N-Pyridoxyl-Glycine-5-Monophosphate
DB00114, Pyridoxal phosphate
DB00116, Tetrahydrofolic acid
DB02067, Triglu-5-formyl-tetrahydrofolate
DrugCentraliP34896

Protein family/group databases

MoonProtiP34896

PTM databases

iPTMnetiP34896
PhosphoSitePlusiP34896
SwissPalmiP34896

Genetic variation databases

BioMutaiSHMT1
DMDMi462184

Proteomic databases

EPDiP34896
jPOSTiP34896
MassIVEiP34896
MaxQBiP34896
PaxDbiP34896
PeptideAtlasiP34896
PRIDEiP34896
ProteomicsDBi4797
54945 [P34896-1]
54946 [P34896-2]
54947 [P34896-3]

Protocols and materials databases

Antibodypedia a portal for validated antibodies

More...
Antibodypediai
13529, 277 antibodies from 34 providers

The DNASU plasmid repository

More...
DNASUi
6470

Genome annotation databases

EnsembliENST00000316694; ENSP00000318868; ENSG00000176974
ENST00000352886; ENSP00000345881; ENSG00000176974 [P34896-4]
ENST00000354098; ENSP00000318805; ENSG00000176974 [P34896-2]
ENST00000640392; ENSP00000492715; ENSG00000284320
ENST00000644141; ENSP00000495756; ENSG00000284320
GeneIDi6470
KEGGihsa:6470
MANE-SelectiENST00000316694.8; ENSP00000318868.3; NM_004169.5; NP_004160.3
UCSCiuc002gta.5, human [P34896-1]

Organism-specific databases

Comparative Toxicogenomics Database

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CTDi
6470
DisGeNETi6470

GeneCards: human genes, protein and diseases

More...
GeneCardsi
SHMT1
HGNCiHGNC:10850, SHMT1
HPAiENSG00000176974, Tissue enhanced (kidney, liver)
MIMi182144, gene
neXtProtiNX_P34896
OpenTargetsiENSG00000176974
PharmGKBiPA35753
VEuPathDBiHostDB:ENSG00000176974

GenAtlas: human gene database

More...
GenAtlasi
Search...

Phylogenomic databases

eggNOGiKOG2467, Eukaryota
GeneTreeiENSGT00390000002762
HOGENOMiCLU_022477_0_0_1
InParanoidiP34896
OMAiCATTHKV
OrthoDBi372408at2759
PhylomeDBiP34896
TreeFamiTF314667

Enzyme and pathway databases

UniPathwayiUPA00193
BRENDAi2.1.2.1, 2681
PathwayCommonsiP34896
ReactomeiR-HSA-196757, Metabolism of folate and pterines
R-HSA-71262, Carnitine synthesis
SABIO-RKiP34896
SignaLinkiP34896

Miscellaneous databases

BioGRID ORCS database of CRISPR phenotype screens

More...
BioGRID-ORCSi
6470, 12 hits in 1052 CRISPR screens

ChiTaRS: a database of human, mouse and fruit fly chimeric transcripts and RNA-sequencing data

More...
ChiTaRSi
SHMT1, human
EvolutionaryTraceiP34896

Database of phenotypes from RNA interference screens in Drosophila and Homo sapiens

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GenomeRNAii
6470
PharosiP34896, Tbio

Protein Ontology

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PROi
PR:P34896
RNActiP34896, protein

The Stanford Online Universal Resource for Clones and ESTs

More...
SOURCEi
Search...

Gene expression databases

BgeeiENSG00000176974, Expressed in right lobe of liver and 228 other tissues
ExpressionAtlasiP34896, baseline and differential
GenevisibleiP34896, HS

Family and domain databases

CDDicd00378, SHMT, 1 hit
Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 1 hit
HAMAPiMF_00051, SHMT, 1 hit
InterProiView protein in InterPro
IPR015424, PyrdxlP-dep_Trfase
IPR015421, PyrdxlP-dep_Trfase_major
IPR015422, PyrdxlP-dep_Trfase_small
IPR001085, Ser_HO-MeTrfase
IPR019798, Ser_HO-MeTrfase_PLP_BS
IPR039429, SHMT-like_dom
PANTHERiPTHR11680, PTHR11680, 1 hit
PfamiView protein in Pfam
PF00464, SHMT, 1 hit
PIRSFiPIRSF000412, SHMT, 1 hit
SUPFAMiSSF53383, SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00096, SHMT, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiGLYC_HUMAN
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: P34896
Secondary accession number(s): B4DPM9
, D3DXD0, Q96HY0, Q9UMD1, Q9UMD2
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1994
Last sequence update: February 1, 1994
Last modified: February 23, 2022
This is version 215 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

3D-structure, Reference proteome

Documents

  1. Human chromosome 17
    Human chromosome 17: entries, gene names and cross-references to MIM
  2. Human entries with genetic variants
    List of human entries with genetic variants
  3. Human variants curated from literature reports
    Index of human variants curated from literature reports
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  7. SIMILARITY comments
    Index of protein domains and families
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