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Protein

Serine hydroxymethyltransferase

Gene

glyA

Organism
Deinococcus proteolyticus (strain ATCC 35074 / DSM 20540 / JCM 6276 / NBRC 101906 / NCIMB 13154 / VKM Ac-1939 / CCM 2703 / MRP)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-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: 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 (glyA)
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.

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.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei32Pyridoxal phosphateUniRule annotation1
Binding sitei52Pyridoxal phosphateUniRule annotation1
Binding sitei54SubstrateUniRule annotation1
Binding sitei62Pyridoxal phosphateUniRule annotation1
Binding sitei96Pyridoxal phosphateUniRule annotation1
Binding sitei118Substrate; via carbonyl oxygenUniRule annotation1
Binding sitei173Pyridoxal phosphateUniRule annotation1
Binding sitei201Pyridoxal phosphateUniRule annotation1
Binding sitei226Pyridoxal phosphateUniRule annotation1
Binding sitei233Pyridoxal phosphateUniRule annotation1
Binding sitei259Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation1
Binding sitei359Pyridoxal phosphateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionMethyltransferaseImported, Transferase
Biological processAmino-acid biosynthesisUniRule annotation, One-carbon metabolismUniRule annotation
LigandPyridoxal phosphateUniRule annotation

Enzyme and pathway databases

UniPathwayiUPA00193.
UPA00288; UER01023.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine hydroxymethyltransferaseUniRule annotation (EC:2.1.2.1UniRule annotation)
Short name:
SHMTUniRule annotation
Short name:
Serine methylaseUniRule annotation
Gene namesi
Name:glyAUniRule annotation
Ordered Locus Names:Deipr_1567Imported
OrganismiDeinococcus proteolyticus (strain ATCC 35074 / DSM 20540 / JCM 6276 / NBRC 101906 / NCIMB 13154 / VKM Ac-1939 / CCM 2703 / MRP)Imported
Taxonomic identifieri693977 [NCBI]
Taxonomic lineageiBacteriaDeinococcus-ThermusDeinococciDeinococcalesDeinococcaceaeDeinococcus
Proteomesi
  • UP000007718 Componenti: Chromosome

Subcellular locationi

  • Cytoplasm UniRule annotation

GO - Cellular componenti

Keywords - Cellular componenti

CytoplasmUniRule annotation

PTM / Processingi

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei227N6-(pyridoxal phosphate)lysineUniRule annotation1

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi693977.Deipr_1567.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni122 – 124Substrate bindingUniRule annotation3

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C65. Bacteria.
COG0112. LUCA.
KOiK00600.
OMAiPLEHIIA.
OrthoDBiPOG091H02WA.

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_sub1.
IPR015422. PyrdxlP-dep_Trfase_sub2.
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.

F0RKC6-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTTPLEQKDQ TVFDLIQQEA ERQRLGLELI ASENFTSAAV REAVGSIATN
60 70 80 90 100
KYAEGYPGKR WYGGCEVIDK IEQLAIDRAC ELFGAAWANV QPHSGSSANI
110 120 130 140 150
AVYAALLEEG DTVMGMDLSH GGHLTHGSPV NFSGKRFNIV GYRVDEETER
160 170 180 190 200
LDMEAVRALA LEHRPKMIIA GASAYSRQID FAAFRAIADE VGAYLFADIA
210 220 230 240 250
HIAGLVAAGL HPNPVPHAHI VATTTHKTLR GPRSGLLLSN DPELGAKIDR
260 270 280 290 300
AIFPGHQGGP LEHVIAGKAV AFGEALQPAF KDYAAQIIKN AQALAAAMEA
310 320 330 340 350
RGYRIVTGGT DNHMFLADLR PQGLNGTKAT QALDANFITI SKSTLPFDTE
360 370 380 390 400
KILHGGGIRI GTPAVTTRGM KESDMDRVAD LIDRALKGED VKEEVHAFAG

QFPMP
Length:405
Mass (Da):43,512
Last modified:May 3, 2011 - v1
Checksum:i50F1AB5C003E8F83
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP002536 Genomic DNA. Translation: ADY26705.1.
RefSeqiWP_013615313.1. NC_015161.1.

Genome annotation databases

EnsemblBacteriaiADY26705; ADY26705; Deipr_1567.
KEGGidpt:Deipr_1567.

Similar proteinsi

Entry informationi

Entry nameiF0RKC6_DEIPM
AccessioniPrimary (citable) accession number: F0RKC6
Entry historyiIntegrated into UniProtKB/TrEMBL: May 3, 2011
Last sequence update: May 3, 2011
Last modified: November 22, 2017
This is version 52 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation

Keywords - Technical termi

Complete proteome, Reference proteomeImported