Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Serine hydroxymethyltransferase 3

Gene

glyA3

Organism
Pseudomonas fluorescens (strain Pf0-1)
Status
Reviewed-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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei35 – 351Pyridoxal phosphateUniRule annotation
Binding sitei55 – 551Pyridoxal phosphateUniRule annotation
Binding sitei57 – 571SubstrateUniRule annotation
Binding sitei64 – 641SubstrateUniRule annotation
Binding sitei65 – 651Pyridoxal phosphateUniRule annotation
Binding sitei99 – 991Pyridoxal phosphateUniRule annotation
Binding sitei121 – 1211Substrate; via carbonyl oxygenUniRule annotation
Binding sitei176 – 1761Pyridoxal phosphateUniRule annotation
Binding sitei204 – 2041Pyridoxal phosphateUniRule annotation
Binding sitei229 – 2291Pyridoxal phosphateUniRule annotation
Binding sitei236 – 2361Pyridoxal phosphateUniRule annotation
Binding sitei263 – 2631Pyridoxal phosphate; via amide nitrogen and carbonyl oxygenUniRule annotation
Binding sitei363 – 3631Pyridoxal phosphateUniRule annotation

GO - Molecular functioni

  1. glycine hydroxymethyltransferase activity Source: UniProtKB-HAMAP
  2. pyridoxal phosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. glycine biosynthetic process from serine Source: UniProtKB-HAMAP
  2. tetrahydrofolate interconversion Source: UniProtKB-UniPathway
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Amino-acid biosynthesis, One-carbon metabolism

Keywords - Ligandi

Pyridoxal phosphate

Enzyme and pathway databases

BioCyciPFLU205922:GJBD-5297-MONOMER.
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
ProteomesiUP000002704 Componenti: Chromosome

Subcellular locationi

  1. Cytoplasm UniRule annotation

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 417417Serine hydroxymethyltransferase 3PRO_0000235006Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei230 – 2301N6-(pyridoxal phosphate)lysineUniRule annotation

Proteomic databases

PRIDEiQ3K5K9.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi205922.Pfl01_5208.

Structurei

3D structure databases

ProteinModelPortaliQ3K5K9.
SMRiQ3K5K9. Positions 1-416.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni125 – 1273Substrate bindingUniRule annotation
Regioni355 – 3573Substrate bindingUniRule annotation

Sequence similaritiesi

Belongs to the SHMT family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0112.
HOGENOMiHOG000239404.
KOiK00600.
OMAiFKVTQCV.
OrthoDBiEOG6Z0QB2.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]
PANTHERiPTHR11680. PTHR11680. 1 hit.
PfamiPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFiPIRSF000412. SHMT. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiPS00096. SHMT. 1 hit.
[Graphical view]

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.
YP_350936.1. NC_007492.2.

Genome annotation databases

EnsemblBacteriaiABA76945; ABA76945; Pfl01_5208.
KEGGipfo:Pfl01_5208.
PATRICi19892636. VBIPseFlu44242_5223.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000094 Genomic DNA. Translation: ABA76945.1.
RefSeqiWP_011336274.1. NC_007492.2.
YP_350936.1. NC_007492.2.

3D structure databases

ProteinModelPortaliQ3K5K9.
SMRiQ3K5K9. Positions 1-416.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi205922.Pfl01_5208.

Proteomic databases

PRIDEiQ3K5K9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABA76945; ABA76945; Pfl01_5208.
KEGGipfo:Pfl01_5208.
PATRICi19892636. VBIPseFlu44242_5223.

Phylogenomic databases

eggNOGiCOG0112.
HOGENOMiHOG000239404.
KOiK00600.
OMAiFKVTQCV.
OrthoDBiEOG6Z0QB2.

Enzyme and pathway databases

UniPathwayiUPA00193.
UPA00288; UER01023.
BioCyciPFLU205922:GJBD-5297-MONOMER.

Family and domain databases

Gene3Di3.40.640.10. 1 hit.
3.90.1150.10. 1 hit.
HAMAPiMF_00051. SHMT.
InterProiIPR015424. PyrdxlP-dep_Trfase.
IPR015421. PyrdxlP-dep_Trfase_major_sub1.
IPR015422. PyrdxlP-dep_Trfase_major_sub2.
IPR001085. Ser_HO-MeTrfase.
IPR019798. Ser_HO-MeTrfase_PLP_BS.
[Graphical view]
PANTHERiPTHR11680. PTHR11680. 1 hit.
PfamiPF00464. SHMT. 1 hit.
[Graphical view]
PIRSFiPIRSF000412. SHMT. 1 hit.
SUPFAMiSSF53383. SSF53383. 1 hit.
PROSITEiPS00096. SHMT. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Pf0-1.

Entry informationi

Entry nameiGLYA3_PSEPF
AccessioniPrimary (citable) accession number: Q3K5K9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 16, 2006
Last sequence update: November 8, 2005
Last modified: April 29, 2015
This is version 76 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.