UniProtKB - Q96GD0 (PLPP_HUMAN)
Chronophin
PDXP
Functioni
Functions as a pyridoxal phosphate (PLP) phosphatase, which also catalyzes the dephosphorylation of pyridoxine 5'-phosphate (PNP) and pyridoxamine 5'-phosphate (PMP), with order of substrate preference PLP > PNP > PMP and therefore plays a role in vitamin B6 metabolism (PubMed:14522954, PubMed:8132548).
Also functions as a protein serine phosphatase that specifically dephosphorylates 'Ser-3' in proteins of the actin-depolymerizing factor (ADF)/cofilin family like CFL1 and DSTN. Thereby, regulates cofilin-dependent actin cytoskeleton reorganization, being required for normal progress through mitosis and normal cytokinesis. Does not dephosphorylate phosphothreonines in LIMK1. Does not dephosphorylate peptides containing phosphotyrosine (PubMed:15580268).
3 PublicationsCatalytic activityi
- EC:3.1.3.741 PublicationThis reaction proceeds in the forward1 Publication direction.
- EC:3.1.3.742 PublicationsThis reaction proceeds in the forward1 Publication direction.
- EC:3.1.3.741 PublicationThis reaction proceeds in the backward1 Publication direction.
- EC:3.1.3.161 PublicationThis reaction proceeds in the forward1 Publication direction.
Cofactori
Activity regulationi
Kineticsi
- KM=2.5 µM for pyridoxal 5'-phosphate (at pH 7.4 and 37 degrees Celsius)1 Publication
- KM=43.4 µM for pyridoxine 5'-phosphate (at pH 7.4 and 37 degrees Celsius)1 Publication
- KM=80.6 µM for pyridoxamine 5'-phosphate (at pH 7.4 and 37 degrees Celsius)1 Publication
- Vmax=1.42 µmol/min/mg enzyme with pyridoxal 5'-phosphate as substrate1 Publication
- Vmax=1.17 µmol/min/mg enzyme with pyridoxine 5'-phosphate as substrate1 Publication
- Vmax=0.42 µmol/min/mg enzyme with pyridoxamine 5'-phosphate as substrate1 Publication
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Active sitei | 25 | NucleophileCombined sources2 Publications | 1 | |
Metal bindingi | 25 | MagnesiumCombined sources1 Publication | 1 | |
Active sitei | 27 | Proton donorCombined sources2 Publications | 1 | |
Metal bindingi | 27 | Magnesium; via carbonyl oxygenCombined sources1 Publication | 1 | |
Binding sitei | 182 | SubstrateCombined sources1 Publication | 1 | |
Binding sitei | 213 | SubstrateCombined sources1 Publication | 1 | |
Metal bindingi | 238 | MagnesiumCombined sources1 Publication | 1 |
GO - Molecular functioni
- glycerol-3-phosphatase activity Source: GO_Central
- heat shock protein binding Source: MGI
- magnesium ion binding Source: UniProtKB
- phosphatase activity Source: GO_Central
- phosphoprotein phosphatase activity Source: UniProtKB
- protein homodimerization activity Source: Ensembl
- protein serine phosphatase activity Source: UniProtKB-EC
- protein threonine phosphatase activity Source: UniProtKB-EC
- pyridoxal phosphatase activity Source: UniProtKB
GO - Biological processi
- actin rod assembly Source: MGI
- cellular response to ATP Source: MGI
- dephosphorylation Source: UniProtKB
- positive regulation of actin filament depolymerization Source: UniProtKB
- protein dephosphorylation Source: UniProtKB
- pyridoxal phosphate catabolic process Source: UniProtKB
- regulation of cytokinesis Source: UniProtKB
- regulation of mitotic nuclear division Source: UniProtKB
Keywordsi
Molecular function | Hydrolase |
Ligand | Magnesium, Metal-binding, Pyridoxal phosphate |
Enzyme and pathway databases
BRENDAi | 3.1.3.74, 2681 |
PathwayCommonsi | Q96GD0 |
SABIO-RKi | Q96GD0 |
SignaLinki | Q96GD0 |
SIGNORi | Q96GD0 |
Names & Taxonomyi
Protein namesi | |
Gene namesi | |
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:30259, PDXP |
MIMi | 609246, gene |
neXtProti | NX_Q96GD0 |
VEuPathDBi | HostDB:ENSG00000241360 |
Subcellular locationi
Cytoplasm and Cytosol
- cytosol 1 Publication
Plasma membrane
- ruffle membrane 1 Publication; Peripheral membrane protein 1 Publication; Cytoplasmic side 1 Publication
- lamellipodium membrane 1 Publication; Peripheral membrane protein 1 Publication; Cytoplasmic side 1 Publication
- Cell membrane 1 Publication; Peripheral membrane protein 1 Publication; Cytoplasmic side 1 Publication
Cytoskeleton
- cytoskeleton 1 Publication
Note: Colocalizes with the actin cytoskeleton in membrane ruffles and lamellipodia. Diffusely distributed throughout the cytosol during pro-metaphase and metaphase. Detected at the dynamic cell poles during telophase. Detected at the cleavage furrow and contractile ring during cytokinesis. Transiently detected at the plasma membrane in late stages of cytokinesis. Detected at the midbody.1 Publication
Cytoskeleton
- cytoskeleton Source: UniProtKB-SubCell
Cytosol
- cytosol Source: UniProtKB
Plasma Membrane
- lamellipodium membrane Source: UniProtKB-SubCell
- ruffle membrane Source: UniProtKB-SubCell
Other locations
- cell-cell junction Source: Ensembl
- cytoplasm Source: GO_Central
Keywords - Cellular componenti
Cell membrane, Cell projection, Cytoplasm, Cytoskeleton, MembranePathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 25 | D → N: Abolishes protein phosphatase activity. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 57026 |
OpenTargetsi | ENSG00000241360 |
PharmGKBi | PA134882132 |
Miscellaneous databases
Pharosi | Q96GD0, Tbio |
Chemistry databases
DrugBanki | DB00114, Pyridoxal phosphate DB00165, Pyridoxine |
DrugCentrali | Q96GD0 |
Genetic variation databases
BioMutai | PDXP |
DMDMi | 44888310 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
ChainiPRO_0000068837 | 1 – 296 | ChronophinAdd BLAST | 296 |
Proteomic databases
EPDi | Q96GD0 |
jPOSTi | Q96GD0 |
MassIVEi | Q96GD0 |
MaxQBi | Q96GD0 |
PaxDbi | Q96GD0 |
PeptideAtlasi | Q96GD0 |
PRIDEi | Q96GD0 |
ProteomicsDBi | 76616 |
2D gel databases
REPRODUCTION-2DPAGEi | IPI00025340 |
UCD-2DPAGEi | Q96GD0 |
PTM databases
DEPODi | PDXP |
iPTMneti | Q96GD0 |
PhosphoSitePlusi | Q96GD0 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000241360, Expressed in prefrontal cortex and 116 other tissues |
ExpressionAtlasi | Q96GD0, baseline and differential |
Genevisiblei | Q96GD0, HS |
Organism-specific databases
HPAi | ENSG00000241360, Tissue enhanced (brain, choroid plexus) |
Interactioni
Subunit structurei
Homodimer.
1 PublicationBinary interactionsi
Q96GD0
With | #Exp. | IntAct |
---|---|---|
Arrb1 [P29066] from Rattus norvegicus. | 2 | EBI-4303060,EBI-4303019 |
GO - Molecular functioni
- heat shock protein binding Source: MGI
- protein homodimerization activity Source: Ensembl
Protein-protein interaction databases
BioGRIDi | 121330, 24 interactors |
IntActi | Q96GD0, 5 interactors |
MINTi | Q96GD0 |
STRINGi | 9606.ENSP00000215904 |
Miscellaneous databases
RNActi | Q96GD0, protein |
Structurei
Secondary structure
3D structure databases
SMRi | Q96GD0 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q96GD0 |
Family & Domainsi
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 58 – 60 | Substrate bindingCombined sources1 Publication | 3 |
Sequence similaritiesi
Phylogenomic databases
eggNOGi | KOG2882, Eukaryota |
GeneTreei | ENSGT00940000162045 |
HOGENOMi | CLU_043473_0_1_1 |
InParanoidi | Q96GD0 |
OMAi | MDGVLIH |
PhylomeDBi | Q96GD0 |
TreeFami | TF314344 |
Family and domain databases
Gene3Di | 3.40.50.1000, 2 hits |
InterProi | View protein in InterPro IPR036412, HAD-like_sf IPR006357, HAD-SF_hydro_IIA IPR023214, HAD_sf IPR006349, PGP_euk |
Pfami | View protein in Pfam PF13344, Hydrolase_6, 1 hit |
PIRSFi | PIRSF000915, PGP-type_phosphatase, 1 hit |
SUPFAMi | SSF56784, SSF56784, 1 hit |
TIGRFAMsi | TIGR01460, HAD-SF-IIA, 1 hit TIGR01452, PGP_euk, 1 hit |
s (3+)i Sequence
Sequence statusi: Complete.
This entry describes 3 produced by isoformsialternative splicing and alternative initiation. AlignAdd to basketThis entry has 3 described isoforms and 1 potential isoform that is computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MARCERLRGA ALRDVLGRAQ GVLFDCDGVL WNGERAVPGA PELLERLARA
60 70 80 90 100
GKAALFVSNN SRRARPELAL RFARLGFGGL RAEQLFSSAL CAARLLRQRL
110 120 130 140 150
PGPPDAPGAV FVLGGEGLRA ELRAAGLRLA GDPSAGDGAA PRVRAVLVGY
160 170 180 190 200
DEHFSFAKLR EACAHLRDPE CLLVATDRDP WHPLSDGSRT PGTGSLAAAV
210 220 230 240 250
ETASGRQALV VGKPSPYMFE CITENFSIDP ARTLMVGDRL ETDILFGHRC
260 270 280 290
GMTTVLTLTG VSRLEEAQAY LAAGQHDLVP HYYVESIADL TEGLED
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Computationally mapped potential isoform sequencesi
There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basketB1AHD3 | B1AHD3_HUMAN | Chronophin | PDXP | 79 | Annotation score: |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY125047 mRNA Translation: AAM94358.1 Z83844 Genomic DNA No translation available. BC000320 mRNA Translation: AAH00320.1 BC009756 mRNA Translation: AAH09756.2 BC064922 mRNA Translation: AAH64922.1 |
CCDSi | CCDS13953.1 [Q96GD0-1] |
RefSeqi | NP_064711.1, NM_020315.4 [Q96GD0-1] |
Genome annotation databases
Ensembli | ENST00000215904; ENSP00000215904; ENSG00000241360 |
GeneIDi | 57026 |
KEGGi | hsa:57026 |
MANE-Selecti | ENST00000215904.7; ENSP00000215904.6; NM_020315.5; NP_064711.1 |
UCSCi | uc003atm.2, human [Q96GD0-1] |
Keywords - Coding sequence diversityi
Alternative initiation, Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY125047 mRNA Translation: AAM94358.1 Z83844 Genomic DNA No translation available. BC000320 mRNA Translation: AAH00320.1 BC009756 mRNA Translation: AAH09756.2 BC064922 mRNA Translation: AAH64922.1 |
CCDSi | CCDS13953.1 [Q96GD0-1] |
RefSeqi | NP_064711.1, NM_020315.4 [Q96GD0-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2CFR | X-ray | 2.40 | A | 1-296 | [»] | |
2CFS | X-ray | 2.40 | A | 1-296 | [»] | |
2CFT | X-ray | 1.80 | A | 1-296 | [»] | |
2OYC | X-ray | 1.72 | A | 2-296 | [»] | |
2P27 | X-ray | 1.90 | A | 2-296 | [»] | |
2P69 | X-ray | 2.25 | A | 2-296 | [»] | |
5GYN | X-ray | 2.00 | A | 1-296 | [»] | |
SMRi | Q96GD0 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 121330, 24 interactors |
IntActi | Q96GD0, 5 interactors |
MINTi | Q96GD0 |
STRINGi | 9606.ENSP00000215904 |
Chemistry databases
DrugBanki | DB00114, Pyridoxal phosphate DB00165, Pyridoxine |
DrugCentrali | Q96GD0 |
PTM databases
DEPODi | PDXP |
iPTMneti | Q96GD0 |
PhosphoSitePlusi | Q96GD0 |
Genetic variation databases
BioMutai | PDXP |
DMDMi | 44888310 |
2D gel databases
REPRODUCTION-2DPAGEi | IPI00025340 |
UCD-2DPAGEi | Q96GD0 |
Proteomic databases
EPDi | Q96GD0 |
jPOSTi | Q96GD0 |
MassIVEi | Q96GD0 |
MaxQBi | Q96GD0 |
PaxDbi | Q96GD0 |
PeptideAtlasi | Q96GD0 |
PRIDEi | Q96GD0 |
ProteomicsDBi | 76616 |
Protocols and materials databases
Antibodypediai | 34919, 109 antibodies from 27 providers |
DNASUi | 57026 |
Genome annotation databases
Ensembli | ENST00000215904; ENSP00000215904; ENSG00000241360 |
GeneIDi | 57026 |
KEGGi | hsa:57026 |
MANE-Selecti | ENST00000215904.7; ENSP00000215904.6; NM_020315.5; NP_064711.1 |
UCSCi | uc003atm.2, human [Q96GD0-1] |
Organism-specific databases
CTDi | 57026 |
DisGeNETi | 57026 |
GeneCardsi | PDXP |
HGNCi | HGNC:30259, PDXP |
HPAi | ENSG00000241360, Tissue enhanced (brain, choroid plexus) |
MIMi | 609246, gene |
neXtProti | NX_Q96GD0 |
OpenTargetsi | ENSG00000241360 |
PharmGKBi | PA134882132 |
VEuPathDBi | HostDB:ENSG00000241360 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG2882, Eukaryota |
GeneTreei | ENSGT00940000162045 |
HOGENOMi | CLU_043473_0_1_1 |
InParanoidi | Q96GD0 |
OMAi | MDGVLIH |
PhylomeDBi | Q96GD0 |
TreeFami | TF314344 |
Enzyme and pathway databases
BRENDAi | 3.1.3.74, 2681 |
PathwayCommonsi | Q96GD0 |
SABIO-RKi | Q96GD0 |
SignaLinki | Q96GD0 |
SIGNORi | Q96GD0 |
Miscellaneous databases
BioGRID-ORCSi | 57026, 6 hits in 1045 CRISPR screens |
ChiTaRSi | PDXP, human |
EvolutionaryTracei | Q96GD0 |
GenomeRNAii | 57026 |
Pharosi | Q96GD0, Tbio |
PROi | PR:Q96GD0 |
RNActi | Q96GD0, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000241360, Expressed in prefrontal cortex and 116 other tissues |
ExpressionAtlasi | Q96GD0, baseline and differential |
Genevisiblei | Q96GD0, HS |
Family and domain databases
Gene3Di | 3.40.50.1000, 2 hits |
InterProi | View protein in InterPro IPR036412, HAD-like_sf IPR006357, HAD-SF_hydro_IIA IPR023214, HAD_sf IPR006349, PGP_euk |
Pfami | View protein in Pfam PF13344, Hydrolase_6, 1 hit |
PIRSFi | PIRSF000915, PGP-type_phosphatase, 1 hit |
SUPFAMi | SSF56784, SSF56784, 1 hit |
TIGRFAMsi | TIGR01460, HAD-SF-IIA, 1 hit TIGR01452, PGP_euk, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | PLPP_HUMAN | |
Accessioni | Q96GD0Primary (citable) accession number: Q96GD0 Secondary accession number(s): Q9UGY2 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | March 1, 2004 |
Last sequence update: | March 1, 2004 | |
Last modified: | February 23, 2022 | |
This is version 170 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, Direct protein sequencing, Reference proteomeDocuments
- Human chromosome 22
Human chromosome 22: entries, gene names and cross-references to MIM - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - SIMILARITY comments
Index of protein domains and families