UniProtKB - P78330 (SERB_HUMAN)
Phosphoserine phosphatase
PSPH
Functioni
Catalyzes the last irreversible step in the biosynthesis of L-serine from carbohydrates, the dephosphorylation of O-phospho-L-serine to L-serine (PubMed:12213811, PubMed:15291819, PubMed:9222972, PubMed:14673469, PubMed:25080166).
L-serine can then be used in protein synthesis, to produce other amino acids, in nucleotide metabolism or in glutathione synthesis, or can be racemized to D-serine, a neuromodulator (PubMed:14673469).
May also act on O-phospho-D-serine (Probable).
1 Publication1 Publication5 PublicationsCatalytic activityi
- EC:3.1.3.35 PublicationsThis reaction proceeds in the forward3 Publications direction.
- EC:3.1.3.31 PublicationThis reaction proceeds in the forward1 Publication direction.
Cofactori
Activity regulationi
: L-serine biosynthesis Pathwayi
This protein is involved in step 3 of the subpathway that synthesizes L-serine from 3-phospho-D-glycerate.3 Publications This subpathway is part of the pathway L-serine 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 L-serine from 3-phospho-D-glycerate, the pathway L-serine biosynthesis and in Amino-acid biosynthesis.
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 20 | NucleophileCombined sources1 Publication | 1 | |
Metal bindingi | 20 | MagnesiumCombined sources1 Publication | 1 | |
Active sitei | 22 | Proton donorCombined sources1 Publication | 1 | |
Metal bindingi | 22 | Magnesium; via carbonyl oxygenCombined sources1 Publication | 1 | |
Binding sitei | 52 | O-phospho-L-serineCombined sources1 Publication | 1 | |
Binding sitei | 53 | Phosphate; via amide nitrogenCombined sources1 Publication | 1 | |
Binding sitei | 158 | L-serineCombined sources1 Publication | 1 | |
Binding sitei | 158 | O-phospho-L-serineCombined sources1 Publication | 1 | |
Metal bindingi | 179 | MagnesiumCombined sources1 Publication | 1 | |
Binding sitei | 182 | O-phospho-L-serineCombined sources1 Publication | 1 | |
Binding sitei | 182 | PhosphateCombined sources1 Publication | 1 |
GO - Molecular functioni
- identical protein binding Source: IntAct
- L-phosphoserine phosphatase activity Source: UniProtKB
- magnesium ion binding Source: UniProtKB
- protein homodimerization activity Source: UniProtKB
GO - Biological processi
- dephosphorylation Source: GO_Central
- in utero embryonic development Source: Ensembl
- L-serine biosynthetic process Source: UniProtKB
- L-serine metabolic process Source: UniProtKB
- response to mechanical stimulus Source: Ensembl
- response to nutrient levels Source: Ensembl
- response to testosterone Source: Ensembl
Keywordsi
Molecular function | Hydrolase |
Biological process | Amino-acid biosynthesis, Serine biosynthesis |
Ligand | Magnesium, Metal-binding |
Enzyme and pathway databases
BRENDAi | 3.1.3.3, 2681 |
PathwayCommonsi | P78330 |
Reactomei | R-HSA-977347, Serine biosynthesis |
SignaLinki | P78330 |
UniPathwayi | UPA00135;UER00198 |
Names & Taxonomyi
Protein namesi | Recommended name: Phosphoserine phosphatase1 Publication (EC:3.1.3.36 Publications)Short name: PSP1 Publication Short name: PSPase Alternative name(s): L-3-phosphoserine phosphatase1 Publication O-phosphoserine phosphohydrolase |
Gene namesi | Name:PSPHImported |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:9577, PSPH |
MIMi | 172480, gene |
neXtProti | NX_P78330 |
VEuPathDBi | HostDB:ENSG00000146733 |
Subcellular locationi
Cytoplasm and Cytosol
- cytosol 1 Publication
Cytosol
- cytosol Source: Reactome
Other locations
- cytoplasm Source: GO_Central
- neuron projection Source: Ensembl
Keywords - Cellular componenti
CytoplasmPathology & Biotechi
Involvement in diseasei
Phosphoserine phosphatase deficiency (PSPHD)3 Publications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_022378 | 32 | D → N in PSPHD; decreased L-phosphoserine phosphatase activity. 1 PublicationCorresponds to variant dbSNP:rs104894035EnsemblClinVar. | 1 | |
Natural variantiVAR_084508 | 35 | A → T in PSPHD; decreased L-phosphoserine phosphatase activity. 1 Publication | 1 | |
Natural variantiVAR_022379 | 52 | M → T in PSPHD; decreased L-phosphoserine phosphatase activity. 1 PublicationCorresponds to variant dbSNP:rs104894036EnsemblClinVar. | 1 |
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 23 | S → A: Reduces L-phosphoserine phosphatase activity by about 50%. 1 Publication | 1 | |
Mutagenesisi | 23 | S → T: Reduces L-phosphoserine phosphatase activity by about 80%. 1 Publication | 1 | |
Mutagenesisi | 29 | E → D: Reduces L-phosphoserine phosphatase activity by about 95%. 1 Publication | 1 | |
Mutagenesisi | 29 | E → Q: Loss of L-phosphoserine phosphatase activity. 1 Publication | 1 | |
Mutagenesisi | 65 | R → A or K: Loss of L-phosphoserine phosphatase activity. 1 Publication | 1 | |
Mutagenesisi | 133 | N → A: Reduces L-phosphoserine phosphatase activity by about 75%. 1 Publication | 1 | |
Mutagenesisi | 182 | T → S: Reduces L-phosphoserine phosphatase activity by about 99%. 1 Publication | 1 | |
Mutagenesisi | 182 | T → V: Reduces L-phosphoserine phosphatase activity by about 25%. 1 Publication | 1 | |
Mutagenesisi | 202 | R → A: Reduces L-phosphoserine phosphatase activity by about 99%. 1 Publication | 1 | |
Mutagenesisi | 202 | R → K: Reduces L-phosphoserine phosphatase activity by about 95%. 1 Publication | 1 |
Keywords - Diseasei
Disease variantOrganism-specific databases
DisGeNETi | 5723 |
MalaCardsi | PSPH |
MIMi | 614023, phenotype |
OpenTargetsi | ENSG00000146733 |
Orphaneti | 79350, 3-phosphoserine phosphatase deficiency, infantile/juvenile form |
PharmGKBi | PA33928 |
Miscellaneous databases
Pharosi | P78330, Tbio |
Chemistry databases
DrugBanki | DB03292, 3-Phosphono-D-alanine DB01593, Zinc DB14487, Zinc acetate DB14533, Zinc chloride DB14548, Zinc sulfate, unspecified form |
Genetic variation databases
BioMutai | PSPH |
DMDMi | 62906870 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000156879 | 1 – 225 | Phosphoserine phosphataseAdd BLAST | 225 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 1 | N-acetylmethionineCombined sources | 1 |
Keywords - PTMi
AcetylationProteomic databases
EPDi | P78330 |
jPOSTi | P78330 |
MassIVEi | P78330 |
MaxQBi | P78330 |
PaxDbi | P78330 |
PeptideAtlasi | P78330 |
PRIDEi | P78330 |
ProteomicsDBi | 57569 |
PTM databases
DEPODi | PSPH |
GlyGeni | P78330, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | P78330 |
MetOSitei | P78330 |
PhosphoSitePlusi | P78330 |
Expressioni
Gene expression databases
Bgeei | ENSG00000146733, Expressed in C1 segment of cervical spinal cord and 224 other tissues |
ExpressionAtlasi | P78330, baseline and differential |
Genevisiblei | P78330, HS |
Organism-specific databases
HPAi | ENSG00000146733, Low tissue specificity |
Interactioni
Subunit structurei
Homodimer.
4 PublicationsBinary interactionsi
P78330
With | #Exp. | IntAct |
---|---|---|
itself | 3 | EBI-1042956,EBI-1042956 |
GO - Molecular functioni
- identical protein binding Source: IntAct
- protein homodimerization activity Source: UniProtKB
Protein-protein interaction databases
BioGRIDi | 111695, 22 interactors |
IntActi | P78330, 5 interactors |
MINTi | P78330 |
STRINGi | 9606.ENSP00000378854 |
Miscellaneous databases
RNActi | P78330, protein |
Structurei
Secondary structure
3D structure databases
SMRi | P78330 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P78330 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 20 – 22 | L-serine bindingCombined sources1 Publication | 3 | |
Regioni | 109 – 111 | L-serine bindingCombined sources1 Publication | 3 | |
Regioni | 109 – 111 | O-phospho-L-serine bindingCombined sources1 Publication | 3 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG1615, Eukaryota |
GeneTreei | ENSGT00390000003115 |
HOGENOMi | CLU_036368_2_1_1 |
InParanoidi | P78330 |
OMAi | RAQYYVT |
OrthoDBi | 1009123at2759 |
PhylomeDBi | P78330 |
TreeFami | TF315024 |
Family and domain databases
DisProti | DP02639 |
Gene3Di | 3.40.50.1000, 2 hits |
InterProi | View protein in InterPro IPR036412, HAD-like_sf IPR023214, HAD_sf IPR004469, PSP |
SUPFAMi | SSF56784, SSF56784, 1 hit |
TIGRFAMsi | TIGR00338, serB, 1 hit |
(1+)i Sequence
Sequence statusi: Complete.
This entry has 1 described isoform and 4 potential isoforms that are computationally mapped.Show allAlign All
10 20 30 40 50
MVSHSELRKL FYSADAVCFD VDSTVIREEG IDELAKICGV EDAVSEMTRR
60 70 80 90 100
AMGGAVPFKA ALTERLALIQ PSREQVQRLI AEQPPHLTPG IRELVSRLQE
110 120 130 140 150
RNVQVFLISG GFRSIVEHVA SKLNIPATNV FANRLKFYFN GEYAGFDETQ
160 170 180 190 200
PTAESGGKGK VIKLLKEKFH FKKIIMIGDG ATDMEACPPA DAFIGFGGNV
210 220
IRQQVKDNAK WYITDFVELL GELEE
Computationally mapped potential isoform sequencesi
There are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketC9JBI3 | C9JBI3_HUMAN | O-phosphoserine phosphohydrolase | PSPH | 187 | Annotation score: | ||
F8WD74 | F8WD74_HUMAN | Phosphoserine phosphatase | PSPH | 90 | Annotation score: | ||
C9JEJ7 | C9JEJ7_HUMAN | Phosphoserine phosphatase | PSPH | 46 | Annotation score: | ||
A0A1D5RMN5 | A0A1D5RMN5_HUMAN | Phosphoserine phosphatase | PSPH | 10 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 2 | V → I in CAA71318 (PubMed:9188776).Curated | 1 |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_022378 | 32 | D → N in PSPHD; decreased L-phosphoserine phosphatase activity. 1 PublicationCorresponds to variant dbSNP:rs104894035EnsemblClinVar. | 1 | |
Natural variantiVAR_084508 | 35 | A → T in PSPHD; decreased L-phosphoserine phosphatase activity. 1 Publication | 1 | |
Natural variantiVAR_022379 | 52 | M → T in PSPHD; decreased L-phosphoserine phosphatase activity. 1 PublicationCorresponds to variant dbSNP:rs104894036EnsemblClinVar. | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y10275 mRNA Translation: CAA71318.1 AK315235 mRNA Translation: BAG37662.1 BX537439 mRNA Translation: CAD97681.1 CH471140 Genomic DNA Translation: EAX07968.1 BC063614 mRNA Translation: AAH63614.1 |
CCDSi | CCDS5522.1 |
RefSeqi | NP_004568.2, NM_004577.3 XP_005271830.1, XM_005271773.1 XP_005271831.1, XM_005271774.1 XP_005271832.1, XM_005271775.1 XP_005271833.1, XM_005271776.1 XP_006715823.1, XM_006715760.1 XP_011513763.1, XM_011515461.1 XP_016867955.1, XM_017012466.1 XP_016867956.1, XM_017012467.1 |
Genome annotation databases
Ensembli | ENST00000275605; ENSP00000275605; ENSG00000146733 ENST00000395471; ENSP00000378854; ENSG00000146733 ENST00000437355; ENSP00000401639; ENSG00000146733 |
GeneIDi | 5723 |
KEGGi | hsa:5723 |
MANE-Selecti | ENST00000275605.8; ENSP00000275605.3; NM_004577.4; NP_004568.2 |
UCSCi | uc003trh.4, human |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | Y10275 mRNA Translation: CAA71318.1 AK315235 mRNA Translation: BAG37662.1 BX537439 mRNA Translation: CAD97681.1 CH471140 Genomic DNA Translation: EAX07968.1 BC063614 mRNA Translation: AAH63614.1 |
CCDSi | CCDS5522.1 |
RefSeqi | NP_004568.2, NM_004577.3 XP_005271830.1, XM_005271773.1 XP_005271831.1, XM_005271774.1 XP_005271832.1, XM_005271775.1 XP_005271833.1, XM_005271776.1 XP_006715823.1, XM_006715760.1 XP_011513763.1, XM_011515461.1 XP_016867955.1, XM_017012466.1 XP_016867956.1, XM_017012467.1 |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1L8L | X-ray | 2.51 | A/B | 1-225 | [»] | |
1L8O | X-ray | 2.80 | A/B | 1-225 | [»] | |
1NNL | X-ray | 1.53 | A/B | 1-225 | [»] | |
6HYJ | X-ray | 1.93 | A/B | 3-224 | [»] | |
6HYY | X-ray | 1.57 | A/B | 5-225 | [»] | |
6Q6J | X-ray | 1.99 | A/B | 5-224 | [»] | |
SMRi | P78330 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 111695, 22 interactors |
IntActi | P78330, 5 interactors |
MINTi | P78330 |
STRINGi | 9606.ENSP00000378854 |
Chemistry databases
DrugBanki | DB03292, 3-Phosphono-D-alanine DB01593, Zinc DB14487, Zinc acetate DB14533, Zinc chloride DB14548, Zinc sulfate, unspecified form |
PTM databases
DEPODi | PSPH |
GlyGeni | P78330, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | P78330 |
MetOSitei | P78330 |
PhosphoSitePlusi | P78330 |
Genetic variation databases
BioMutai | PSPH |
DMDMi | 62906870 |
Proteomic databases
EPDi | P78330 |
jPOSTi | P78330 |
MassIVEi | P78330 |
MaxQBi | P78330 |
PaxDbi | P78330 |
PeptideAtlasi | P78330 |
PRIDEi | P78330 |
ProteomicsDBi | 57569 |
Protocols and materials databases
Antibodypediai | 13863, 345 antibodies from 33 providers |
DNASUi | 5723 |
Genome annotation databases
Ensembli | ENST00000275605; ENSP00000275605; ENSG00000146733 ENST00000395471; ENSP00000378854; ENSG00000146733 ENST00000437355; ENSP00000401639; ENSG00000146733 |
GeneIDi | 5723 |
KEGGi | hsa:5723 |
MANE-Selecti | ENST00000275605.8; ENSP00000275605.3; NM_004577.4; NP_004568.2 |
UCSCi | uc003trh.4, human |
Organism-specific databases
CTDi | 5723 |
DisGeNETi | 5723 |
GeneCardsi | PSPH |
HGNCi | HGNC:9577, PSPH |
HPAi | ENSG00000146733, Low tissue specificity |
MalaCardsi | PSPH |
MIMi | 172480, gene 614023, phenotype |
neXtProti | NX_P78330 |
OpenTargetsi | ENSG00000146733 |
Orphaneti | 79350, 3-phosphoserine phosphatase deficiency, infantile/juvenile form |
PharmGKBi | PA33928 |
VEuPathDBi | HostDB:ENSG00000146733 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG1615, Eukaryota |
GeneTreei | ENSGT00390000003115 |
HOGENOMi | CLU_036368_2_1_1 |
InParanoidi | P78330 |
OMAi | RAQYYVT |
OrthoDBi | 1009123at2759 |
PhylomeDBi | P78330 |
TreeFami | TF315024 |
Enzyme and pathway databases
UniPathwayi | UPA00135;UER00198 |
BRENDAi | 3.1.3.3, 2681 |
PathwayCommonsi | P78330 |
Reactomei | R-HSA-977347, Serine biosynthesis |
SignaLinki | P78330 |
Miscellaneous databases
BioGRID-ORCSi | 5723, 12 hits in 1054 CRISPR screens |
ChiTaRSi | PSPH, human |
EvolutionaryTracei | P78330 |
GeneWikii | PSPH |
GenomeRNAii | 5723 |
Pharosi | P78330, Tbio |
PROi | PR:P78330 |
RNActi | P78330, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000146733, Expressed in C1 segment of cervical spinal cord and 224 other tissues |
ExpressionAtlasi | P78330, baseline and differential |
Genevisiblei | P78330, HS |
Family and domain databases
DisProti | DP02639 |
Gene3Di | 3.40.50.1000, 2 hits |
InterProi | View protein in InterPro IPR036412, HAD-like_sf IPR023214, HAD_sf IPR004469, PSP |
SUPFAMi | SSF56784, SSF56784, 1 hit |
TIGRFAMsi | TIGR00338, serB, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | SERB_HUMAN | |
Accessioni | P78330Primary (citable) accession number: P78330 Secondary accession number(s): B2RCR5, Q7Z3S5 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | May 30, 2000 |
Last sequence update: | April 26, 2005 | |
Last modified: | February 23, 2022 | |
This is version 193 of the entry and version 2 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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. |
Miscellaneousi
Keywords - Technical termi
3D-structure, Reference proteomeDocuments
- Human chromosome 7
Human chromosome 7: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants - Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PATHWAY comments
Index of metabolic and biosynthesis pathways - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families