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Protein

Synaptojanin-1

Gene

Synj1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Inositol 5-phosphatase which has a role in clathrin-mediated endocytosis.

Catalytic activityi

1-phosphatidyl-1D-myo-inositol 4,5-bisphosphate + H2O = 1-phosphatidyl-1D-myo-inositol 4-phosphate + phosphate.

GO - Molecular functioni

  • nucleotide binding Source: InterPro
  • phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity Source: UniProtKB-EC
  • phosphatidylinositol phosphate 5-phosphatase activity Source: RGD
  • protein complex binding Source: RGD
  • protein C-terminus binding Source: RGD
  • RNA binding Source: UniProtKB-KW
  • SH3 domain binding Source: RGD

GO - Biological processi

  • brain development Source: RGD
  • phosphatidylinositol dephosphorylation Source: InterPro
  • positive regulation of gliogenesis Source: RGD
  • positive regulation of receptor-mediated endocytosis Source: RGD
  • response to cytokine Source: RGD
  • response to retinoic acid Source: RGD
  • synaptic vesicle endocytosis Source: ParkinsonsUK-UCL
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Endocytosis

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-RNO-1660499. Synthesis of PIPs at the plasma membrane.
R-RNO-1855183. Synthesis of IP2, IP, and Ins in the cytosol.
R-RNO-1855204. Synthesis of IP3 and IP4 in the cytosol.

Names & Taxonomyi

Protein namesi
Recommended name:
Synaptojanin-1 (EC:3.1.3.36)
Alternative name(s):
Synaptic inositol 1,4,5-trisphosphate 5-phosphatase 1
Gene namesi
Name:Synj1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 11

Organism-specific databases

RGDi69434. Synj1.

Subcellular locationi

GO - Cellular componenti

  • clathrin coat of coated pit Source: ParkinsonsUK-UCL
  • cytoplasm Source: RGD
  • cytosol Source: ParkinsonsUK-UCL
  • neuron projection Source: RGD
  • protein complex Source: RGD
  • synaptic membrane Source: ParkinsonsUK-UCL
  • terminal bouton Source: ParkinsonsUK-UCL
  • vesicle membrane Source: ParkinsonsUK-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 15741574Synaptojanin-1PRO_0000209732Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei820 – 8201PhosphoserineCombined sources
Modified residuei830 – 8301PhosphoserineBy similarity
Modified residuei1053 – 10531PhosphoserineCombined sources
Modified residuei1147 – 11471PhosphoserineBy similarity
Modified residuei1175 – 11751PhosphoserineCombined sources
Modified residuei1217 – 12171PhosphothreonineBy similarity
Modified residuei1289 – 12891PhosphoserineBy similarity
Modified residuei1350 – 13501PhosphoserineCombined sources
Modified residuei1354 – 13541PhosphothreonineBy similarity
Modified residuei1566 – 15661PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ62910.
PRIDEiQ62910.

PTM databases

iPTMnetiQ62910.
PhosphoSiteiQ62910.

Expressioni

Tissue specificityi

Isoform 1 is found in neonatal brain, and in a wide variety of adult non-neuronal tissues. Isoform 2 is expressed predominantly in the neurons, but is also found in all other tissues at much lower levels. Isoform 1 and isoform 2 are detected in the lung and heart. Isoform 1 is expressed at higher levels than isoform 2 in the testis and liver and both isoforms are not detected in the skeletal muscle. Isoform 3 with the 16-amino-acid insert is only found in the brain while isoform 3 without the 16-amino-acid insert is found in the lung.

Developmental stagei

At embryonic day 12 (E12) only isoform 1 is seen while at E16 and E18 isoform 1 and isoform 2 are seen. In the adult brain expression of isoform 2 increases dramatically as compared with its expression in embryonic brain where as isoform 1 decreases to undetectable levels.

Gene expression databases

ExpressionAtlasiQ62910. baseline and differential.

Interactioni

Subunit structurei

Interacts with ASH/GRB2. Interacts with PACSIN1, PACSIN2 and PACSIN3 (By similarity). Binds AMPH, SH3GL1, SH3GL2 and SH3GL3. Interacts with MYO1E (via SH3 domain).By similarity2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
MYO1EQ129652EBI-1149123,EBI-4279548From a different organism.
SH3GL2Q999622EBI-1149123,EBI-77938From a different organism.
Sh3gl2O351792EBI-1149123,EBI-1149197
Sh3gl3O351802EBI-1149123,EBI-1149266

GO - Molecular functioni

  • protein complex binding Source: RGD
  • protein C-terminus binding Source: RGD
  • SH3 domain binding Source: RGD

Protein-protein interaction databases

BioGridi250042. 15 interactions.
IntActiQ62910. 13 interactions.
MINTiMINT-128573.
STRINGi10116.ENSRNOP00000045019.

Structurei

3D structure databases

ProteinModelPortaliQ62910.
SMRiQ62910. Positions 895-971.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini119 – 442324SACPROSITE-ProRule annotationAdd
BLAST
Domaini894 – 97178RRMPROSITE-ProRule annotationAdd
BLAST
Repeati1401 – 140331
Repeati1410 – 141232
Repeati1421 – 142333

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni500 – 899400CatalyticSequence analysisAdd
BLAST
Regioni1401 – 1423233 X 3 AA repeats of N-P-FAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi1042 – 1285244Pro-richAdd
BLAST
Compositional biasi1533 – 154917Pro-richAdd
BLAST

Domaini

Binds to EPS15 (a clathrin coat-associated protein) via a C-terminal domain containing three Asn-Pro-Phe (NPF) repeats.By similarity
The C-terminal proline-rich region mediates binding to a variety of SH3 domain-containing proteins including AMPH, SH3GL1, SH3GL2, SH3GL3 and GRB2.
Splicing of the SAC1 domain does not alter the catalytic activity of synaptojanin 1.

Sequence similaritiesi

Belongs to the synaptojanin family.Curated
In the central section; belongs to the inositol 1,4,5-trisphosphate 5-phosphatase family.Curated
Contains 1 RRM (RNA recognition motif) domain.PROSITE-ProRule annotation
Contains 1 SAC domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0566. Eukaryota.
COG5329. LUCA.
COG5411. LUCA.
GeneTreeiENSGT00760000119075.
HOGENOMiHOG000007937.
HOVERGENiHBG079225.
InParanoidiQ62910.
KOiK01099.
PhylomeDBiQ62910.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
3.60.10.10. 1 hit.
InterProiIPR015047. DUF1866.
IPR005135. Endo/exonuclease/phosphatase.
IPR000300. IPPc.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR002013. SAC_dom.
[Graphical view]
PfamiPF08952. DUF1866. 1 hit.
PF03372. Exo_endo_phos. 1 hit.
PF02383. Syja_N. 1 hit.
[Graphical view]
SMARTiSM01165. DUF1866. 1 hit.
SM00128. IPPc. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
SSF56219. SSF56219. 2 hits.
PROSITEiPS50102. RRM. 1 hit.
PS50275. SAC. 1 hit.
[Graphical view]

Sequences (6)i

Sequence statusi: Complete.

This entry describes 6 isoformsi produced by alternative splicing. AlignAdd to basket

Note: A stop codon is created in position 1309 of isoform 1 due to alternative splicing.1 Publication

Isoform 1 (identifier: Q62910-1) [UniParc]FASTAAdd to basket

Also known as: 170 kDa

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
MAFSKGFRIY HKLDPPPFSL IVETRHKEEC LMFESGAVAV LSSAEKEAIK
60 70 80 90 100
GTYAKVLDAY GLLGVLRLNL GDTMLHYLVL VTGCMSVGKI QESEVFRVTS
110 120 130 140 150
TEFISLRVDA SDEDRISEVR KVLNSGNFYF AWSASGVSLD LSLNAHRSMQ
160 170 180 190 200
EHTTDNRFFW NQSLHLHLKH YGVNCDDWLL RLMCGGVEIR TIYAAHKQAK
210 220 230 240 250
ACLISRLSCE RAGTRFNVRG TNDDGHVANF VETEQVIYLD DCVSSFIQIR
260 270 280 290 300
GSVPLFWEQP GLQVGSHRVR MSRGFEANAP AFDRHFRTLK DLYGKQIVVN
310 320 330 340 350
LLGSKEGEHM LSKAFQSHLK ASEHASDIHM VSFDYHQMVK GGKAEKLHSV
360 370 380 390 400
LKPQVQKFLD YGFFYFDGSA VQRCQSGTVR TNCLDCLDRT NSVQAFLGLE
410 420 430 440 450
MLAKQLEALG LAEKPQLVTR FQEVFRSMWS VNGDSISKIY AGTGALEGKA
460 470 480 490 500
KLKDGARSVT RTIQNNFFDS SKQEAIDVLL LGNTLNSDLA DKARALLTTG
510 520 530 540 550
SLRVSEQTLQ SASSKVLKNM CENFYKYSKP KKIRVCVGTW NVNGGKQFRS
560 570 580 590 600
IAFKNQTLTD WLLDAPKLAG IQEFQDKRSK PTDIFAIGFE EMVELNAGNI
610 620 630 640 650
VNASTTNQKL WAVELQKTIS RDNKYVLLAS EQLVGVCLFV FIRPQHAPFI
660 670 680 690 700
RDVAVDTVKT GMGGATGNKG AVAIRMLFHT TSLCFVCSHF AAGQSQVKER
710 720 730 740 750
NEDFVEIARK LSFPMGRMLF SHDYVFWCGD FNYRIDLPNE EVKELIRQQN
760 770 780 790 800
WDSLIAGDQL INQKNAGQIF RGFLEGKVTF APTYKYDLFS EDYDTSEKCR
810 820 830 840 850
TPAWTDRVLW RRRKWPFDRS AEDLDLLNAS FQDESKILYT WTPGTLLHYG
860 870 880 890 900
RAELKTSDHR PVVALIDIDI FEVEAEERQK IYKEVIAVQG PPDGTVLVSI
910 920 930 940 950
KSSAQENTFF DDALIDELLQ QFAHFGEVIL IRFVEDKMWV TFLEGSSALN
960 970 980 990 1000
VLSLNGKELL NRTITITLKS PDWIKTLEEE MSLEKISVTL PSSTSSTLLG
1010 1020 1030 1040 1050
EDAEVSADFD MEGDVDDYSA EVEELLPQHL QPSSSSGLGT SPSSSPRTSP
1060 1070 1080 1090 1100
CQSPTAPEYS APSLPIRPSR APSRTPGPLS SQGAPVDTQP AAQKESSQTI
1110 1120 1130 1140 1150
EPKRPPPPRP VAPPARPAPP QRPPPPSGAR SPAPARKEFG GVGAPPSPGV
1160 1170 1180 1190 1200
TRREMEAPKS PGTARKDNIG RNQPSPQAGL AGPGPSGYGA ARPTIPARAG
1210 1220 1230 1240 1250
VISAPQSQAR VSAGRLTPES QSKPLETSKG PAVLPEPLKP QAAFPPQPSL
1260 1270 1280 1290 1300
PTPAQKLQDP LVPIAAPMPP SIPQSNLETP PLPPPRSRSS QSLPSDSSPQ
1310 1320 1330 1340 1350
LQQEQPTGQQ VKINGACGVK QEPTLKSDPF EDLSLSVLAV SKAQPSAQIS
1360 1370 1380 1390 1400
PVLTPDPKML IQLPSASQSK VNSLSSVSCM LTMPPVPEQS KSQESVGSSA
1410 1420 1430 1440 1450
NPFPSLPTRN PFTDRTAAPG NPFRVQSQES EATSWLSKEE PVSNSPFPPL
1460 1470 1480 1490 1500
MPLSHDMSKP SSSLDGFEDN FDLQSQSTVK TSNPKGWVTF DEDEDFPTKG
1510 1520 1530 1540 1550
KSRSVYPDSL GNTAASFDDD WSKGTNVSFC VLPARRPPPP PPPVPLLPPG
1560 1570
TTSSAGPSTT LSSKASPTLD FTER
Length:1,574
Mass (Da):172,881
Last modified:May 16, 2006 - v3
Checksum:iF24B90CE48F55508
GO
Isoform 2 (identifier: Q62910-2) [UniParc]FASTAAdd to basket

Also known as: 145 kDa

The sequence of this isoform differs from the canonical sequence as follows:
     1309-1574: Missing.

Show »
Length:1,308
Mass (Da):144,523
Checksum:i669540DA79036E60
GO
Isoform 3 (identifier: Q62910-3) [UniParc]FASTAAdd to basket

Also known as: Delta-SAC

The sequence of this isoform differs from the canonical sequence as follows:
     1-400: Missing.

Show »
Length:1,174
Mass (Da):127,788
Checksum:iECCEBCC2058FF0D5
GO
Isoform 4 (identifier: Q62910-4) [UniParc]FASTAAdd to basket

Also known as: 170 kDa-16AA

The sequence of this isoform differs from the canonical sequence as follows:
     1141-1156: Missing.

Show »
Length:1,558
Mass (Da):171,259
Checksum:i766CF67A85C9C89D
GO
Isoform 5 (identifier: Q62910-5) [UniParc]FASTAAdd to basket

Also known as: 145 kDa-16AA

The sequence of this isoform differs from the canonical sequence as follows:
     1141-1156: Missing.
     1309-1574: Missing.

Show »
Length:1,292
Mass (Da):142,901
Checksum:i476102B8F6659A03
GO
Isoform 6 (identifier: Q62910-6) [UniParc]FASTAAdd to basket

Also known as: Delta-SAC-16AA

The sequence of this isoform differs from the canonical sequence as follows:
     1-400: Missing.
     1141-1156: Missing.

Show »
Length:1,158
Mass (Da):126,166
Checksum:i49BD3EA9920B1247
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 400400Missing in isoform 3 and isoform 6. 1 PublicationVSP_002684Add
BLAST
Alternative sequencei1141 – 115616Missing in isoform 4, isoform 5 and isoform 6. 1 PublicationVSP_002685Add
BLAST
Alternative sequencei1309 – 1574266Missing in isoform 2 and isoform 5. 1 PublicationVSP_002686Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U45479 mRNA. Translation: AAB60525.2.
U91836 mRNA. Translation: AAO24807.1.
AJ006855 mRNA. Translation: CAA07267.1. Different termination.
PIRiS68448.
RefSeqiNP_445928.2. NM_053476.2. [Q62910-5]
UniGeneiRn.22685.

Genome annotation databases

EnsembliENSRNOT00000002812; ENSRNOP00000002812; ENSRNOG00000002051. [Q62910-5]
ENSRNOT00000065535; ENSRNOP00000060346; ENSRNOG00000002051. [Q62910-1]
GeneIDi85238.
KEGGirno:85238.
UCSCiRGD:69434. rat. [Q62910-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U45479 mRNA. Translation: AAB60525.2.
U91836 mRNA. Translation: AAO24807.1.
AJ006855 mRNA. Translation: CAA07267.1. Different termination.
PIRiS68448.
RefSeqiNP_445928.2. NM_053476.2. [Q62910-5]
UniGeneiRn.22685.

3D structure databases

ProteinModelPortaliQ62910.
SMRiQ62910. Positions 895-971.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi250042. 15 interactions.
IntActiQ62910. 13 interactions.
MINTiMINT-128573.
STRINGi10116.ENSRNOP00000045019.

PTM databases

iPTMnetiQ62910.
PhosphoSiteiQ62910.

Proteomic databases

PaxDbiQ62910.
PRIDEiQ62910.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000002812; ENSRNOP00000002812; ENSRNOG00000002051. [Q62910-5]
ENSRNOT00000065535; ENSRNOP00000060346; ENSRNOG00000002051. [Q62910-1]
GeneIDi85238.
KEGGirno:85238.
UCSCiRGD:69434. rat. [Q62910-1]

Organism-specific databases

CTDi8867.
RGDi69434. Synj1.

Phylogenomic databases

eggNOGiKOG0566. Eukaryota.
COG5329. LUCA.
COG5411. LUCA.
GeneTreeiENSGT00760000119075.
HOGENOMiHOG000007937.
HOVERGENiHBG079225.
InParanoidiQ62910.
KOiK01099.
PhylomeDBiQ62910.

Enzyme and pathway databases

ReactomeiR-RNO-1660499. Synthesis of PIPs at the plasma membrane.
R-RNO-1855183. Synthesis of IP2, IP, and Ins in the cytosol.
R-RNO-1855204. Synthesis of IP3 and IP4 in the cytosol.

Miscellaneous databases

PROiQ62910.

Gene expression databases

ExpressionAtlasiQ62910. baseline and differential.

Family and domain databases

Gene3Di3.30.70.330. 1 hit.
3.60.10.10. 1 hit.
InterProiIPR015047. DUF1866.
IPR005135. Endo/exonuclease/phosphatase.
IPR000300. IPPc.
IPR012677. Nucleotide-bd_a/b_plait.
IPR000504. RRM_dom.
IPR002013. SAC_dom.
[Graphical view]
PfamiPF08952. DUF1866. 1 hit.
PF03372. Exo_endo_phos. 1 hit.
PF02383. Syja_N. 1 hit.
[Graphical view]
SMARTiSM01165. DUF1866. 1 hit.
SM00128. IPPc. 1 hit.
[Graphical view]
SUPFAMiSSF54928. SSF54928. 1 hit.
SSF56219. SSF56219. 2 hits.
PROSITEiPS50102. RRM. 1 hit.
PS50275. SAC. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2; 4 AND 5).
    Strain: Sprague-Dawley.
    Tissue: Brain.
  2. "Identification and characterisation of a novel splice variant of synaptojanin1."
    Woscholski R., Finan P.M., Radley E., Parker P.J.
    FEBS Lett. 432:5-8(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3).
    Tissue: Brain.
  3. "Tissue-specific alternative splicing generates two synaptojanin isoforms with differential membrane binding properties."
    Ramjaun A.R., McPherson P.S.
    J. Biol. Chem. 271:24856-24861(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE SPLICING.
    Tissue: Brain.
  4. "The SH3p4/Sh3p8/SH3p13 protein family: binding partners for synaptojanin and dynamin via a Grb2-like Src homology 3 domain."
    Ringstad N., Nemoto Y., De Camilli P.
    Proc. Natl. Acad. Sci. U.S.A. 94:8569-8574(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH SH3GL1; SH3GL2 AND SH3GL3.
    Tissue: Brain.
  5. "Myosin 1E interacts with synaptojanin-1 and dynamin and is involved in endocytosis."
    Krendel M., Osterweil E.K., Mooseker M.S.
    FEBS Lett. 581:644-650(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH MYO1E.
  6. "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues."
    Lundby A., Secher A., Lage K., Nordsborg N.B., Dmytriyev A., Lundby C., Olsen J.V.
    Nat. Commun. 3:876-876(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-820; SER-1053; SER-1175; SER-1350 AND SER-1566, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSYNJ1_RAT
AccessioniPrimary (citable) accession number: Q62910
Secondary accession number(s): O89092, Q62911, Q810Z8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 16, 2006
Last modified: July 6, 2016
This is version 151 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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 one 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.