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Protein

Serine/threonine-protein phosphatase 5

Gene

PAPP5

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Isoform 2 dephosphorylates phosphorylated phytochromes, with a preference toward Pfr forms, and enhances phytochrome-mediated photoresponses, probably by enhancing their stability and their binding affinity for light signal transducers such as NDPK2. Can use para-nitrophenylphosphate (pNPP) as substrate.1 Publication

Catalytic activityi

[a protein]-serine/threonine phosphate + H2O = [a protein]-serine/threonine + phosphate.

Cofactori

Mn2+By similarityNote: Binds 2 manganese ions per subunit.By similarity

Enzyme regulationi

Activated by arachidonic acid (AA).

Kineticsi

Experiments have been done in the presence of 100 µM arachidonic acid (AA).
  1. KM=160 mM for pNPP (at pH 7.5 and 30 degrees Celsius)1 Publication
  1. Vmax=22 µmol/min/mg enzyme with pNPP as substrate (at pH 7.5 and 30 degrees Celsius)1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi282Manganese 1By similarity1
Metal bindingi284Manganese 1By similarity1
Metal bindingi311Manganese 1By similarity1
Metal bindingi311Manganese 2By similarity1
Metal bindingi343Manganese 2By similarity1
Active sitei344Proton donorBy similarity1
Metal bindingi392Manganese 2By similarity1
Metal bindingi467Manganese 2By similarity1

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • phosphoprotein phosphatase activity Source: TAIR
  • protein serine/threonine phosphatase activity Source: TAIR
  • tetrapyrrole binding Source: TAIR

GO - Biological processi

  • chloroplast-nucleus signaling pathway Source: TAIR
  • negative regulation of chlorophyll biosynthetic process Source: TAIR
  • nucleocytoplasmic transport Source: TAIR
  • red or far-red light signaling pathway Source: TAIR
  • response to cadmium ion Source: TAIR

Keywordsi

Molecular functionHydrolase, Protein phosphatase
LigandManganese, Metal-binding

Enzyme and pathway databases

ReactomeiR-ATH-5675221. Negative regulation of MAPK pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine/threonine-protein phosphatase 5 (EC:3.1.3.16)
Gene namesi
Name:PAPP5
Synonyms:PP5
Ordered Locus Names:At2g42810
ORF Names:F7D19.19
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

AraportiAT2G42810.
TAIRilocus:2052345. AT2G42810.

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Chloroplast Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertion Graphics by Christian Stolte; Source: COMPARTMENTS

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei163 – 183HelicalSequence analysisAdd BLAST21
Transmembranei185 – 205HelicalSequence analysisAdd BLAST21

Keywords - Cellular componenti

Cytoplasm, Endoplasmic reticulum, Membrane, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003089881 – 538Serine/threonine-protein phosphatase 5Add BLAST538

Proteomic databases

PaxDbiQ84XU2.
PRIDEiQ84XU2.

PTM databases

iPTMnetiQ84XU2.

Expressioni

Gene expression databases

ExpressionAtlasiQ84XU2. baseline and differential.
GenevisibleiQ84XU2. AT.

Interactioni

Subunit structurei

Interacts with PHYA and PHYB, mostly when they are phosphorylated and in Pfr forms.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
AGO1D6RUV92EBI-4445012,EBI-7498167From Nicotiana tabacum.

Protein-protein interaction databases

BioGridi4218. 3 interactors.
IntActiQ84XU2. 2 interactors.
MINTiMINT-8375614.
STRINGi3702.AT2G42810.2.

Structurei

Secondary structure

1538
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi12 – 25Combined sources14
Helixi29 – 42Combined sources14
Helixi47 – 59Combined sources13
Helixi63 – 76Combined sources14
Helixi81 – 93Combined sources13
Helixi97 – 110Combined sources14
Helixi118 – 136Combined sources19
Helixi141 – 143Combined sources3
Helixi147 – 149Combined sources3
Helixi153 – 155Combined sources3
Beta strandi223 – 225Combined sources3
Helixi228 – 239Combined sources12
Helixi246 – 261Combined sources16
Beta strandi265 – 269Combined sources5
Beta strandi276 – 280Combined sources5
Helixi287 – 297Combined sources11
Beta strandi306 – 310Combined sources5
Beta strandi313 – 317Combined sources5
Helixi319 – 332Combined sources14
Helixi334 – 336Combined sources3
Beta strandi337 – 340Combined sources4
Helixi347 – 353Combined sources7
Helixi355 – 362Combined sources8
Helixi365 – 375Combined sources11
Beta strandi380 – 384Combined sources5
Turni385 – 387Combined sources3
Beta strandi388 – 393Combined sources6
Beta strandi397 – 399Combined sources3
Helixi403 – 407Combined sources5
Beta strandi417 – 419Combined sources3
Helixi420 – 426Combined sources7
Beta strandi431 – 437Combined sources7
Beta strandi441 – 446Combined sources6
Helixi448 – 457Combined sources10
Beta strandi461 – 465Combined sources5
Beta strandi473 – 477Combined sources5
Turni478 – 481Combined sources4
Beta strandi482 – 485Combined sources4
Helixi491 – 493Combined sources3
Beta strandi499 – 505Combined sources7
Turni506 – 508Combined sources3
Beta strandi511 – 516Combined sources6
Turni526 – 529Combined sources4
Helixi532 – 535Combined sources4

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5JJTX-ray2.10A/B5-537[»]
ProteinModelPortaliQ84XU2.
SMRiQ84XU2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati13 – 46TPR 1Add BLAST34
Repeati48 – 80TPR 2Add BLAST33
Repeati81 – 114TPR 3Add BLAST34

Domaini

TPR repeats are required for the binding with phytochromes.

Sequence similaritiesi

Keywords - Domaini

Repeat, TPR repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG0376. Eukaryota.
COG0639. LUCA.
HOGENOMiHOG000172698.
InParanoidiQ84XU2.
KOiK04460.
OMAiAHMSLGK.
OrthoDBiEOG0936077E.
PhylomeDBiQ84XU2.

Family and domain databases

Gene3Di1.25.40.10. 1 hit.
3.60.21.10. 1 hit.
InterProiView protein in InterPro
IPR004843. Calcineurin-like_PHP_ApaH.
IPR029052. Metallo-depent_PP-like.
IPR013235. PPP_dom.
IPR006186. Ser/Thr-sp_prot-phosphatase.
IPR011236. Ser/Thr_PPase_5.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
IPR001440. TPR_1.
IPR019734. TPR_repeat.
PANTHERiPTHR11668:SF326. PTHR11668:SF326. 1 hit.
PfamiView protein in Pfam
PF00149. Metallophos. 1 hit.
PF08321. PPP5. 1 hit.
PF00515. TPR_1. 1 hit.
PRINTSiPR00114. STPHPHTASE.
SMARTiView protein in SMART
SM00156. PP2Ac. 1 hit.
SM00028. TPR. 3 hits.
SUPFAMiSSF48452. SSF48452. 1 hit.
SSF56300. SSF56300. 1 hit.
PROSITEiView protein in PROSITE
PS50005. TPR. 3 hits.
PS50293. TPR_REGION. 1 hit.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q84XU2-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
METKNENSDV SRAEEFKSQA NEAFKGHKYS SAIDLYTKAI ELNSNNAVYW
60 70 80 90 100
ANRAFAHTKL EEYGSAIQDA SKAIEVDSRY SKGYYRRGAA YLAMGKFKDA
110 120 130 140 150
LKDFQQVKRL SPNDPDATRK LKECEKAVMK LKFEEAISVP VSERRSVAES
160 170 180 190 200
IDFHTIGNKP RSSSMPTKTA LAAVVAAVMV VAVRGFATTE ILMVLVSVVL
210 220 230 240 250
GTFWWGSFSG KVEPQYSGAR IEGEEVTLDF VKTMMEDFKN QKTLHKRYAY
260 270 280 290 300
QIVLQTRQIL LALPSLVDIS VPHGKHITVC GDVHGQFYDL LNIFELNGLP
310 320 330 340 350
SEENPYLFNG DFVDRGSFSV EIILTLFAFK CMCPSSIYLA RGNHESKSMN
360 370 380 390 400
KIYGFEGEVR SKLSEKFVDL FAEVFCYLPL AHVINGKVFV VHGGLFSVDG
410 420 430 440 450
VKLSDIRAID RFCEPPEEGL MCELLWSDPQ PLPGRGPSKR GVGLSFGGDV
460 470 480 490 500
TKRFLQDNNL DLLVRSHEVK DEGYEVEHDG KLITVFSAPN YCDQMGNKGA
510 520 530
FIRFEAPDMK PNIVTFSAVP HPDVKPMAYA NNFLRMFN
Length:538
Mass (Da):60,283
Last modified:June 1, 2003 - v1
Checksum:i93ECC937F02D3541
GO
Isoform 2 (identifier: Q84XU2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     157-211: GNKPRSSSMPTKTALAAVVAAVMVVAVRGFATTEILMVLVSVVLGTFWWGSFSGK → E

Note: Partial isoform 2 lacking TPR repeats exhibits enhanced activity at pH 7.5 with pNPP as substrate. This partial protein is in addition inhibited by okadaic acid.
Show »
Length:484
Mass (Da):54,702
Checksum:i04780D6007B69EF8
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_029087157 – 211GNKPR…SFSGK → E in isoform 2. 2 PublicationsAdd BLAST55

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY182779 mRNA. Translation: AAO26216.1.
AC006931 Genomic DNA. Translation: AAD21727.2.
CP002685 Genomic DNA. Translation: AEC10171.1.
CP002685 Genomic DNA. Translation: AEC10172.1.
CP002685 Genomic DNA. Translation: ANM61627.1.
CP002685 Genomic DNA. Translation: ANM61628.1.
AF419574 mRNA. Translation: AAL31906.1.
AY080674 mRNA. Translation: AAL86350.1.
BT010180 mRNA. Translation: AAQ22649.1.
AK221789 mRNA. Translation: BAD93924.1.
PIRiE84858.
RefSeqiNP_001031534.1. NM_001036457.3. [Q84XU2-1]
NP_001323832.1. NM_001336995.1. [Q84XU2-2]
NP_001323833.1. NM_001336996.1. [Q84XU2-2]
NP_565985.1. NM_129842.4. [Q84XU2-2]
UniGeneiAt.23737.

Genome annotation databases

EnsemblPlantsiAT2G42810.1; AT2G42810.1; AT2G42810. [Q84XU2-2]
AT2G42810.2; AT2G42810.2; AT2G42810. [Q84XU2-1]
AT2G42810.4; AT2G42810.4; AT2G42810. [Q84XU2-2]
AT2G42810.5; AT2G42810.5; AT2G42810. [Q84XU2-2]
GeneIDi818881.
GrameneiAT2G42810.1; AT2G42810.1; AT2G42810.
AT2G42810.2; AT2G42810.2; AT2G42810.
AT2G42810.4; AT2G42810.4; AT2G42810.
AT2G42810.5; AT2G42810.5; AT2G42810.
KEGGiath:AT2G42810.

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiPPP5_ARATH
AccessioniPrimary (citable) accession number: Q84XU2
Secondary accession number(s): Q56X87
, Q8RXU0, Q8W581, Q9SJH5
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 13, 2007
Last sequence update: June 1, 2003
Last modified: September 27, 2017
This is version 117 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families