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Protein

Serine racemase

Gene

SR

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the synthesis of D-serine from L-serine. Has dehydratase activity towards both L-serine and D-serine. Displays high substrate specificity for L-serine, whereas L-alanine, L-arginine, and L-glutamine were poor substrates.1 Publication

Catalytic activityi

L-serine = D-serine.
L-serine = pyruvate + NH3.
D-serine = pyruvate + NH3.

Cofactori

Enzyme regulationi

Inhibited by hydroxylamine. Racemase activity is enhanced by Ca2+, Mg2+, Mn2+, and is decreased by Ni2+, Zn2+. Hydratase activity is enhanced by Ca2+, Mg2+, Mn2+, Cu2+, Fe2+, Ni2+.1 Publication

Kineticsi

  1. KM=2.5 mM for L-serine (racemase activity)1 Publication
  2. KM=0.77 mM for D-serine (racemase activity)1 Publication
  3. KM=20 mM for L-serine (dehydratase activity)1 Publication
  4. KM=5 mM for D-serine (dehydratase activity)1 Publication
  1. Vmax=5 nmol/min/mg enzyme toward L-serine (racemase activity)1 Publication
  2. Vmax=1.1 nmol/min/mg enzyme toward D-serine (racemase activity)1 Publication
  3. Vmax=250 nmol/min/mg enzyme toward L-serine (dehydratase activity)1 Publication
  4. Vmax=26 nmol/min/mg enzyme toward L-serine (dehydratase activity)1 Publication

pH dependencei

Optimum pH is 8.5 for racemization and 9.5 for dehydration.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei54ATPBy similarity1
Active sitei59Proton acceptorBy similarity1
Active sitei84Proton acceptorBy similarity1
Binding sitei121ATPBy similarity1
Binding sitei135SubstrateBy similarity1
Metal bindingi210MagnesiumBy similarity1
Metal bindingi214Magnesium; via carbonyl oxygenBy similarity1
Metal bindingi216MagnesiumBy similarity1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • D-serine ammonia-lyase activity Source: UniProtKB
  • L-serine ammonia-lyase activity Source: UniProtKB
  • metal ion binding Source: UniProtKB-KW
  • protein self-association Source: EnsemblPlants
  • pyridoxal phosphate binding Source: InterPro
  • serine racemase activity Source: TAIR

GO - Biological processi

  • D-serine metabolic process Source: UniProtKB
  • L-serine metabolic process Source: UniProtKB
  • serine family amino acid metabolic process Source: TAIR

Keywordsi

Molecular functionAllosteric enzyme, Isomerase, Lyase
LigandATP-binding, Magnesium, Metal-binding, Nucleotide-binding, Pyridoxal phosphate

Enzyme and pathway databases

BioCyciARA:AT4G11640-MONOMER
MetaCyc:MONOMER-14684
BRENDAi5.1.1.18 399
ReactomeiR-ATH-977347 Serine biosynthesis

Names & Taxonomyi

Protein namesi
Recommended name:
Serine racemase (EC:4.3.1.17, EC:4.3.1.18, EC:5.1.1.18)
Short name:
AtSR
Alternative name(s):
D-serine ammonia-lyase
D-serine dehydratase
L-serine ammonia-lyase
L-serine dehydratase
Gene namesi
Name:SR
Synonyms:SR1
Ordered Locus Names:At4g11640
ORF Names:T5C23.70
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 4

Organism-specific databases

AraportiAT4G11640
TAIRilocus:2139767 AT4G11640

Pathology & Biotechi

Disruption phenotypei

Deformations and branching of pollen tubes grown in pistils.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004203461 – 331Serine racemaseAdd BLAST331

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei59N6-(pyridoxal phosphate)lysineBy similarity1

Proteomic databases

PaxDbiQ2PGG3

Expressioni

Tissue specificityi

Expressed in the whole plant.1 Publication

Gene expression databases

ExpressionAtlasiQ2PGG3 baseline and differential
GenevisibleiQ2PGG3 AT

Interactioni

Subunit structurei

Homodimer.By similarity

GO - Molecular functioni

Protein-protein interaction databases

STRINGi3702.AT4G11640.1

Structurei

3D structure databases

ProteinModelPortaliQ2PGG3
SMRiQ2PGG3
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni237 – 238Substrate bindingBy similarity2

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1251 Eukaryota
COG1171 LUCA
HOGENOMiHOG000046974
InParanoidiQ2PGG3
KOiK12235
OMAiLIHPFDH
OrthoDBiEOG09360GVY
PhylomeDBiQ2PGG3

Family and domain databases

InterProiView protein in InterPro
IPR001926 PLP-dep
IPR000634 Ser/Thr_deHydtase_PyrdxlP-BS
IPR036052 Trypto_synt_PLP_dependent
PfamiView protein in Pfam
PF00291 PALP, 1 hit
SUPFAMiSSF53686 SSF53686, 1 hit
PROSITEiView protein in PROSITE
PS00165 DEHYDRATASE_SER_THR, 1 hit

Sequencei

Sequence statusi: Complete.

Q2PGG3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEANREKYAA DILSIKEAHD RIKPYIHRTP VLTSESLNSI SGRSLFFKCE
60 70 80 90 100
CLQKGGAFKF RGACNAVLSL DAEQAAKGVV THSSGNHAAA LSLAAKIQGI
110 120 130 140 150
PAYIVVPKGA PKCKVDNVIR YGGKVIWSEA TMSSREEIAS KVLQETGSVL
160 170 180 190 200
IHPYNDGRII SGQGTIALEL LEQIQEIDAI VVPISGGGLI SGVALAAKSI
210 220 230 240 250
KPSIRIIAAE PKGADDAAQS KVAGKIITLP VTNTIADGLR ASLGDLTWPV
260 270 280 290 300
VRDLVDDVVT LEECEIIEAM KMCYEILKVS VEPSGAIGLA AVLSNSFRNN
310 320 330
PSCRDCKNIG IVLSGGNVDL GSLWDSFKSS K
Length:331
Mass (Da):35,068
Last modified:February 7, 2006 - v1
Checksum:iF4FC4EE39DD60A7A
GO

Sequence cautioni

The sequence CAB39935 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence CAB78207 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB206823 mRNA Translation: BAE72067.1
AL049500 Genomic DNA Translation: CAB39935.1 Sequence problems.
AL161532 Genomic DNA Translation: CAB78207.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE83032.1
PIRiT04211
RefSeqiNP_192901.2, NM_117233.3
UniGeneiAt.33551

Genome annotation databases

EnsemblPlantsiAT4G11640.1; AT4G11640.1; AT4G11640
GeneIDi826769
GrameneiAT4G11640.1; AT4G11640.1; AT4G11640
KEGGiath:AT4G11640

Similar proteinsi

Entry informationi

Entry nameiSRR_ARATH
AccessioniPrimary (citable) accession number: Q2PGG3
Secondary accession number(s): Q9T0D1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 28, 2012
Last sequence update: February 7, 2006
Last modified: May 23, 2018
This is version 87 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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