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Protein

Serine hydroxymethyltransferase 3

Gene

glyA3

Organism
Pseudomonas fluorescens (strain Pf0-1)
Status
Reviewed-Annotation score: -Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

5,10-methylenetetrahydrofolate + glycine + H2O = tetrahydrofolate + L-serine.UniRule annotation

Cofactori

pyridoxal 5'-phosphateUniRule annotation

Pathwayi: tetrahydrofolate interconversion

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

Pathwayi: glycine biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes glycine from L-serine.UniRule annotation
Proteins known to be involved in this subpathway in this organism are:
  1. Serine hydroxymethyltransferase 3 (glyA3), Serine hydroxymethyltransferase 2 (glyA2), Serine hydroxymethyltransferase 1 (glyA1)
This subpathway is part of the pathway glycine biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes glycine from L-serine, the pathway glycine biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei35Pyridoxal phosphateUniRule annotation1
Binding sitei55Pyridoxal phosphateUniRule annotation1
Binding sitei57SubstrateUniRule annotation1
Binding sitei64SubstrateUniRule annotation1
Binding sitei65Pyridoxal phosphateUniRule annotation1
Binding sitei99Pyridoxal phosphateUniRule annotation1
Binding sitei121Substrate; via carbonyl oxygenUniRule annotation1
Binding sitei176Pyridoxal phosphateUniRule annotation1
Binding sitei204Pyridoxal phosphateUniRule annotation1
Binding sitei229Pyridoxal phosphateUniRule annotation1
Binding sitei236Pyridoxal phosphateUniRule annotation1
Binding sitei263Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation1
Binding sitei363Pyridoxal phosphateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionTransferase
Biological processAmino-acid biosynthesis, One-carbon metabolism
LigandPyridoxal phosphate

Enzyme and pathway databases

UniPathwayiUPA00193
UPA00288; UER01023

Names & Taxonomyi

Protein namesi
Recommended name:
Serine hydroxymethyltransferase 3UniRule annotation (EC:2.1.2.1UniRule annotation)
Short name:
SHMT 3UniRule annotation
Short name:
Serine methylase 3UniRule annotation
Gene namesi
Name:glyA3UniRule annotation
Ordered Locus Names:Pfl01_5208
OrganismiPseudomonas fluorescens (strain Pf0-1)
Taxonomic identifieri205922 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
Proteomesi
  • UP000002704 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002350061 – 417Serine hydroxymethyltransferase 3Add BLAST417

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei230N6-(pyridoxal phosphate)lysineUniRule annotation1

Proteomic databases

PRIDEiQ3K5K9

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi205922.Pfl01_5208

Structurei

3D structure databases

ProteinModelPortaliQ3K5K9
SMRiQ3K5K9
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni125 – 127Substrate bindingUniRule annotation3
Regioni355 – 357Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C65 Bacteria
COG0112 LUCA
HOGENOMiHOG000239404
KOiK00600
OMAiRYNDFIV
OrthoDBiPOG091H02WA

Family and domain databases

CDDicd00378 SHMT, 1 hit
Gene3Di3.40.640.10, 1 hit
3.90.1150.10, 2 hits
HAMAPiMF_00051 SHMT, 1 hit
InterProiView protein in InterPro
IPR015424 PyrdxlP-dep_Trfase
IPR015422 PyrdxlP-dep_Trfase_dom1
IPR015421 PyrdxlP-dep_Trfase_major
IPR001085 Ser_HO-MeTrfase
IPR019798 Ser_HO-MeTrfase_PLP_BS
PIRSFiPIRSF000412 SHMT, 1 hit
SUPFAMiSSF53383 SSF53383, 1 hit
PROSITEiView protein in PROSITE
PS00096 SHMT, 1 hit

Sequencei

Sequence statusi: Complete.

Q3K5K9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSKQDQIQG YDDALLAAMN AEEQRQEDHI ELIASENYTS KRVMQAQGSG
60 70 80 90 100
LTNKYAEGYP GKRYYGGCEH VDKVEALAIE RAKQLFGADY ANVQPHSGSS
110 120 130 140 150
ANSAVYLALL QAGDTILGMS LAHGGHLTHG AKVSSSGKLY NAVQYGIDTK
160 170 180 190 200
TGLIDYDEVE RLAVECKPKM IVAGFSAYSK TLDFPRFRQI ADKVGALLFV
210 220 230 240 250
DMAHVAGLVA AGLYPNPLPY ADVVTTTTHK TLRGPRGGLI LAKANEEIEK
260 270 280 290 300
KLNAAVFPGA QGGPLMHVIA GKAVCFKEAL EPGFKAYQQQ VIDNAQAMAS
310 320 330 340 350
VFIKRGYDVV SGGTDNHLFL VSLIRQGLTG KDADAALGRA HITVNKNAVP
360 370 380 390 400
NDPQSPFVTS GLRIGTPAVT TRGFKVTQCV TLAGWICDIL DNLGDADVEA
410
NVAQQVSALC ADFPVYR
Length:417
Mass (Da):44,656
Last modified:November 8, 2005 - v1
Checksum:i0CF0D3E856516329
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000094 Genomic DNA Translation: ABA76945.1
RefSeqiWP_011336274.1, NC_007492.2

Genome annotation databases

EnsemblBacteriaiABA76945; ABA76945; Pfl01_5208
KEGGipfo:Pfl01_5208

Similar proteinsi

Entry informationi

Entry nameiGLYA3_PSEPF
AccessioniPrimary (citable) accession number: Q3K5K9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 16, 2006
Last sequence update: November 8, 2005
Last modified: March 28, 2018
This is version 91 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome
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Main funding by: National Institutes of Health