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Q64487 (PTPRD_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 120. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Receptor-type tyrosine-protein phosphatase delta

Short name=Protein-tyrosine phosphatase delta
Short name=R-PTP-delta
EC=3.1.3.48
Gene names
Name:Ptprd
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length1912 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

Protein tyrosine phosphate + H2O = protein tyrosine + phosphate.

Subunit structure

Interacts with PPFIA1, PPFIA2 and PPFIA3 By similarity. Interacts with IL1RAPL1 (via extracellular region); this interaction is required for IL1RAPL1-mediated synapse formation. Ref.5

Subcellular location

Membrane; Single-pass type I membrane protein.

Tissue specificity

Brain, kidney, heart, and some B-cell lines.

Post-translational modification

A cleavage occurs, separating the extracellular domain from the transmembrane segment. This process called 'ectodomain shedding' is thought to be involved in receptor desensitization, signal transduction and/or membrane localization By similarity.

Sequence similarities

Belongs to the protein-tyrosine phosphatase family. Receptor class 2A subfamily.

Contains 8 fibronectin type-III domains.

Contains 3 Ig-like C2-type (immunoglobulin-like) domains.

Contains 2 tyrosine-protein phosphatase domains.

Sequence caution

The sequence BAA03004.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Il1rapl1P598236EBI-771834,EBI-5452114

Alternative products

This entry describes 12 isoforms produced by alternative splicing. [Align] [Select]

Note: Additional isoforms seem to exist.
Isoform D (identifier: Q64487-4)

Also known as: delta;

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.
Isoform C (identifier: Q64487-1)

The sequence of this isoform differs from the canonical sequence as follows:
     184-189: Missing.
     227-230: Missing.
     775-783: Missing.
Isoform A (identifier: Q64487-2)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MCLTSCFILASHMLSCDLVFVP
     2-230: Missing.
     608-1018: Missing.
     1019-1019: V → M
Isoform B (identifier: Q64487-3)

The sequence of this isoform differs from the canonical sequence as follows:
     1-1: M → MCLTSCFILASHMLSCDLVFVP
     2-230: Missing.
     775-783: Missing.
Isoform E (identifier: Q64487-5)

Also known as: delta-DelB;

The sequence of this isoform differs from the canonical sequence as follows:
     227-230: Missing.
Isoform F (identifier: Q64487-6)

Also known as: deltaA6;

The sequence of this isoform differs from the canonical sequence as follows:
     181-183: Missing.
Isoform G (identifier: Q64487-7)

Also known as: deltaA6-DelB;

The sequence of this isoform differs from the canonical sequence as follows:
     181-183: Missing.
     227-230: Missing.
Isoform H (identifier: Q64487-8)

Also known as: deltaA3;

The sequence of this isoform differs from the canonical sequence as follows:
     184-189: Missing.
Isoform I (identifier: Q64487-9)

Also known as: deltaA3-DelB;

The sequence of this isoform differs from the canonical sequence as follows:
     184-189: Missing.
     227-230: Missing.
Isoform J (identifier: Q64487-10)

Also known as: delta-DelA;

The sequence of this isoform differs from the canonical sequence as follows:
     181-189: Missing.
Isoform K (identifier: Q64487-11)

Also known as: delta-DelAB;

The sequence of this isoform differs from the canonical sequence as follows:
     181-189: Missing.
     227-230: Missing.
Isoform L (identifier: Q64487-12)

Also known as: delta A;

The sequence of this isoform differs from the canonical sequence as follows:
     608-1018: Missing.
     1019-1019: V → M

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2020 Potential
Chain21 – 19121892Receptor-type tyrosine-protein phosphatase delta
PRO_0000025438

Regions

Topological domain21 – 12661246Extracellular Potential
Transmembrane1267 – 128721Helical; Potential
Topological domain1288 – 1912625Cytoplasmic Potential
Domain24 – 11491Ig-like C2-type 1
Domain126 – 22499Ig-like C2-type 2
Domain236 – 31883Ig-like C2-type 3
Domain325 – 41591Fibronectin type-III 1
Domain420 – 51697Fibronectin type-III 2
Domain518 – 60790Fibronectin type-III 3
Domain612 – 70998Fibronectin type-III 4
Domain714 – 822109Fibronectin type-III 5
Domain823 – 91694Fibronectin type-III 6
Domain921 – 101696Fibronectin type-III 7
Domain1020 – 110687Fibronectin type-III 8
Domain1357 – 1612256Tyrosine-protein phosphatase 1
Domain1644 – 1903260Tyrosine-protein phosphatase 2
Region180 – 18910Sufficient for interaction with IL1RAPL1
Region227 – 2304Contributes to IL1RAPL1 binding
Region1553 – 15597Substrate binding By similarity

Sites

Active site15531Phosphocysteine intermediate By similarity
Active site18441Phosphocysteine intermediate By similarity
Binding site15211Substrate By similarity
Binding site15971Substrate By similarity
Site1181 – 11822Cleavage By similarity

Amino acid modifications

Glycosylation2541N-linked (GlcNAc...) Potential
Glycosylation2991N-linked (GlcNAc...) Potential
Glycosylation7241N-linked (GlcNAc...) Potential
Glycosylation8321N-linked (GlcNAc...) Potential
Disulfide bond45 ↔ 98 Potential
Disulfide bond147 ↔ 207 Potential
Disulfide bond257 ↔ 302 Potential

Natural variations

Alternative sequence11M → MCLTSCFILASHMLSCDLVF VP in isoform A and isoform B.
VSP_043545
Alternative sequence2 – 230229Missing in isoform A and isoform B.
VSP_043546
Alternative sequence181 – 1899Missing in isoform J and isoform K.
VSP_043547
Alternative sequence181 – 1833Missing in isoform F and isoform G.
VSP_043548
Alternative sequence184 – 1896Missing in isoform C, isoform H and isoform I.
VSP_043549
Alternative sequence227 – 2304Missing in isoform C, isoform E, isoform G, isoform I and isoform K.
VSP_043550
Alternative sequence608 – 1018411Missing in isoform A and isoform L.
VSP_043551
Alternative sequence775 – 7839Missing in isoform B and isoform C.
VSP_043552
Alternative sequence10191V → M in isoform A and isoform L.
VSP_043553

Experimental info

Sequence conflict51A → R in BAA03004. Ref.1
Sequence conflict3491E → G in BAA03003. Ref.1
Sequence conflict4161A → T in BAA03003. Ref.1
Sequence conflict5511Y → D in BAA03003. Ref.1
Sequence conflict5881R → T in BAA03003. Ref.1
Sequence conflict6571F → Y in BAA03005. Ref.1
Sequence conflict663 – 6664LGIP → IGNS in BAA03005. Ref.1
Sequence conflict6961G → W in BAA03005. Ref.1
Sequence conflict761 – 7633GQP → SA in BAA03005. Ref.1
Sequence conflict8221A → S in BAA03005. Ref.1
Sequence conflict8521Missing in BAA03005. Ref.1
Sequence conflict10011G → R in BAA03005. Ref.1
Sequence conflict10041P → A in BAA03005. Ref.1
Sequence conflict1046 – 105510SAMPFKILYD → PAILSKFFMMM in BAA03003. Ref.1
Sequence conflict10841V → A in BAA03003. Ref.1
Sequence conflict12981E → D in BAA03003. Ref.1
Sequence conflict1447 – 14482RS → E in BAA03003. Ref.1
Sequence conflict1491 – 150212ATYCV…FALYK → HILCPDICTLN in BAA03003. Ref.1
Sequence conflict15101E → K in BAA03003. Ref.1
Sequence conflict1531 – 154212FLAFL…VKTCN → VPSFLTESQNLH in BAA03003. Ref.1
Sequence conflict16841T → G in BAA03003. Ref.1
Sequence conflict1786 – 179510EFKVTDARDG → NSRSRMPGI in BAA03003. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform D (delta) [UniParc].

Last modified May 16, 2012. Version 3.
Checksum: DEF494AA5A2CE814

FASTA1,912214,410
        10         20         30         40         50         60 
MVPVARPLSL LLTFFLCACA ETPPRFTRTP VDQTGVSGGV ASFICQATGD PRPKIVWNKK 

        70         80         90        100        110        120 
GKKVSNQRFE VIEFDDGSGS VLRIQPLRTP RDEAIYECVA SNNVGEISVS TRLTVLREDQ 

       130        140        150        160        170        180 
IPRGFPTIDM GPQLKVVERT RTATMLCAAS GNPDPEITWF KDFLPVDTSN NNGRIKQLRS 

       190        200        210        220        230        240 
ESIGGTPIRG ALQIEQSEES DQGKYECVAT NSAGTRYSAP ANLYVRELRE VRRVPPRFSI 

       250        260        270        280        290        300 
PPTNHEIMPG GSVNITCVAV GSPMPYVKWM LGAEDLTPED DMPIGRNVLE LNDVRQSANY 

       310        320        330        340        350        360 
TCVAMSTLGV IEAIAQITVK ALPKPPGTPV VTESTATSIT LTWDSGNPEP VSYYIIQHKP 

       370        380        390        400        410        420 
KNSEEPYKEI DGIATTRYSV AGLSPYSDYE FRVVAVNNIG RGPASEPVLT QTSEQAPSSA 

       430        440        450        460        470        480 
PRDVQARMLS STTILVQWKE PEEPNGQIQG YRVYYTMDPT QHVNNWMKHN VADSQITTIG 

       490        500        510        520        530        540 
NLVPQKTYSV KVLAFTSIGD GPLSSDIQVI TQTGVPGQPL NFKAEPESET SILLSWTPPR 

       550        560        570        580        590        600 
SDTIASYELV YRDGDQGEEQ RITIEPGTSY RLQGLKPNSL YYFRLSARSP QGLGASTAEI 

       610        620        630        640        650        660 
SARTMQSKPS APPQDISCTS PSSTSILVSW QPPPVEKQNG IITEYSLKYA AVDGEDFKPH 

       670        680        690        700        710        720 
EILGIPSDTT KYLLEQLEKW TEYRITVTAH TDVGPGPESL SVLIRTDEDV PSGPPRKVEV 

       730        740        750        760        770        780 
EAVNATAVKV SWRSPVPNKQ HGQIRGYQVH YVKMENGEPK GQPMLKDVML ADAQWEFDDT 

       790        800        810        820        830        840 
TEHDMIISGL QPETSYSLTV TAYTTKGDGA RSKPKLVSTT GAVPGKPRLV INHTQMNTAL 

       850        860        870        880        890        900 
IQWHPPVDTF GPLQGYRLKF GRKDMEPLTT LEFSEKEDHF TATDIHKGAS YVFRLSARNK 

       910        920        930        940        950        960 
VGFGEEMVKE ISVPEEIPTG FPQNLHSEGT TSTSVQLSWQ PPVLAERNGV ITKYTLLYRD 

       970        980        990       1000       1010       1020 
INVPLLPMEH LIVPADTSMT LTGLKSDTTY DVKVRAHTSK GPGPYSPSVQ FRTLPVDQVF 

      1030       1040       1050       1060       1070       1080 
AKNFHVKAVM KTSVLLSWEI PENYNSAMPF KILYDDGKMV EEVDGRATQK LIVNLKPEKS 

      1090       1100       1110       1120       1130       1140 
YSFVLTNRGN SAGGLQHRVT AKTAPDVLRT KPAFIGKTNL DGMITVQLPD VPANENIKGY 

      1150       1160       1170       1180       1190       1200 
YIIIVPLKKS RGKFIKPWES PDEMELDELL KEISRKRRSI RYGREVELKP YIAAHFDVLP 

      1210       1220       1230       1240       1250       1260 
TEFTLGDDKH YGGFTNKQLQ SGQEYVFFVL AVMDHAESKM YATSPYSDPV VSMDLDPQPI 

      1270       1280       1290       1300       1310       1320 
TDEEEGLIWV VGPVLAVVFI ICIVIAILLY KRKRAESESR KSSLPNSKEV PSHHPTDPVE 

      1330       1340       1350       1360       1370       1380 
LRRLNFQTPG MASHPPIPIL ELADHIERLK ANDNLKFSQE YESIDPGQQF TWEHSNLEVN 

      1390       1400       1410       1420       1430       1440 
KPKNRYANVI AYDHSRVLLS AIEGIPGSDY VNANYIDGYR KQNAYIATQG SLPETFGDFW 

      1450       1460       1470       1480       1490       1500 
RMIWEQRSAT VVMMTKLEER SRVKCDQYWP SRGTETHGLV QVTLLDTVEL ATYCVRTFAL 

      1510       1520       1530       1540       1550       1560 
YKNGSSEKRE VRQFQFTAWP DHGVPEHPTP FLAFLRRVKT CNPPDAGPMV VHCSAGVGRT 

      1570       1580       1590       1600       1610       1620 
GCFIVIDAML ERIKHEKTVD IYGHVTLMRA QRNYMVQTED QYIFIHDALL EAVTCGNTEV 

      1630       1640       1650       1660       1670       1680 
PARNLYAYIQ KLTQIETGEN VTGMELEFKR LASSKAHTSR FISANLPCNK FKNRLVNIMP 

      1690       1700       1710       1720       1730       1740 
YESTRVCLQP IRGVEGSDYI NASFLDGYRQ QKAYIATQGP LAETTEDFWR MLWEHNSTIV 

      1750       1760       1770       1780       1790       1800 
VMLTKLREMG REKCHQYWPA ERSARYQYFV VDPMAEYNMP QYILREFKVT DARDGQSRTV 

      1810       1820       1830       1840       1850       1860 
RQFQFTDWPE QGVPKSGEGF IDFIGQVHKT KEQFGQDGPI SVHCSAGVGR TGVFITLSIV 

      1870       1880       1890       1900       1910 
LERMRYEGVV DIFQTVKMLR TQRPAMVQTE DQYQFCYRAA LEYLGSFDHY AT 

« Hide

Isoform C [UniParc].

Checksum: 75E8EA527026E69B
Show »

FASTA1,893212,139
Isoform A [UniParc].

Checksum: BB720DA7CCF34DD6
Show »

FASTA1,293146,050
Isoform B [UniParc].

Checksum: 386F0DB5ACDD4C89
Show »

FASTA1,695190,371
Isoform E (delta-DelB) [UniParc].

Checksum: D95358289FF1576B
Show »

FASTA1,908213,882
Isoform F (deltaA6) [UniParc].

Checksum: A4103C1071DB834A
Show »

FASTA1,909214,080
Isoform G (deltaA6-DelB) [UniParc].

Checksum: B2A43376C7BFBA17
Show »

FASTA1,905213,553
Isoform H (deltaA3) [UniParc].

Checksum: 5CD10161556D78FC
Show »

FASTA1,906213,828
Isoform I (deltaA3-DelB) [UniParc].

Checksum: E612C8C07FCF9632
Show »

FASTA1,902213,300
Isoform J (delta-DelA) [UniParc].

Checksum: 978F592FB8113D1A
Show »

FASTA1,903213,499
Isoform K (delta-DelAB) [UniParc].

Checksum: EB6E8D26E1900A38
Show »

FASTA1,899212,971
Isoform L (delta A) [UniParc].

Checksum: 141D4F9E90F088AD
Show »

FASTA1,501168,928

References

« Hide 'large scale' references
[1]"MPTP delta, a putative murine homolog of HPTP delta, is expressed in specialized regions of the brain and in the B-cell lineage."
Mizuno K., Hasegawa K., Katagiri T., Ogimoto M., Ichikawa T., Yakura H.
Mol. Cell. Biol. 13:5513-5523(1993) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM A), NUCLEOTIDE SEQUENCE [MRNA] OF 1-224 (ISOFORMS C/H/I), NUCLEOTIDE SEQUENCE [MRNA] OF 606-1018 (ISOFORMS B/C), ALTERNATIVE SPLICING (ISOFORMS A; B AND C).
Strain: BALB/c.
Tissue: Brain.
[2]"Congenic mapping of alcohol and pentobarbital withdrawal liability loci to a <1 centimorgan interval of murine chromosome 4: identification of Mpdz as a candidate gene."
Fehr C., Shirley R.L., Belknap J.K., Crabbe J.C., Buck K.J.
J. Neurosci. 22:3730-3738(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM L).
Strain: C57BL/6J and DBA/2J.
Tissue: Brain.
[3]"Lineage-specific biology revealed by a finished genome assembly of the mouse."
Church D.M., Goodstadt L., Hillier L.W., Zody M.C., Goldstein S., She X., Bult C.J., Agarwala R., Cherry J.L., DiCuccio M., Hlavina W., Kapustin Y., Meric P., Maglott D., Birtle Z., Marques A.C., Graves T., Zhou S. expand/collapse author list , Teague B., Potamousis K., Churas C., Place M., Herschleb J., Runnheim R., Forrest D., Amos-Landgraf J., Schwartz D.C., Cheng Z., Lindblad-Toh K., Eichler E.E., Ponting C.P.
PLoS Biol. 7:E1000112-E1000112(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: C57BL/6J.
[4]"A novel receptor-type protein tyrosine phosphatase with a single catalytic domain is specifically expressed in mouse brain."
Hendriks W., Schepens J., Brugman C., Zeeuwen P., Wieringa B.
Biochem. J. 305:499-504(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1446-1551.
Strain: BALB/c.
Tissue: Brain.
[5]"IL-1 receptor accessory protein-like 1 associated with mental retardation and autism mediates synapse formation by trans-synaptic interaction with protein tyrosine phosphatase delta."
Yoshida T., Yasumura M., Uemura T., Lee S.J., Ra M., Taguchi R., Iwakura Y., Mishina M.
J. Neurosci. 31:13485-13499(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH IL1RAPL1, ALTERNATIVE SPLICING (ISOFORMS D/E/F/G/H/I/J/K), IDENTIFICATION BY MASS SPECTROMETRY.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
D13903 mRNA. Translation: BAA03003.1.
D13905 mRNA. Translation: BAA03005.1.
D13904 mRNA. Translation: BAA03004.1. Different initiation.
AF326559 mRNA. Translation: AAL37405.1.
AF326560 mRNA. Translation: AAL37406.1.
AL844848 Genomic DNA. No translation available.
AL845517 Genomic DNA. No translation available.
AL929181 Genomic DNA. No translation available.
Z23051 mRNA. Translation: CAA80586.1.
PIRC54689.
D54689.
RefSeqNP_035341.2. NM_011211.3.
UniGeneMm.184021.
Mm.403663.
Mm.477158.
Mm.489057.

3D structure databases

ProteinModelPortalQ64487.
SMRQ64487. Positions 21-318, 323-719, 921-1016, 1331-1906.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

IntActQ64487. 3 interactions.
MINTMINT-129768.

PTM databases

PhosphoSiteQ64487.

Proteomic databases

MaxQBQ64487.
PaxDbQ64487.
PRIDEQ64487.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSMUST00000107289; ENSMUSP00000102910; ENSMUSG00000028399. [Q64487-4]
GeneID19266.
KEGGmmu:19266.
UCSCuc008tjl.1. mouse.

Organism-specific databases

CTD5789.
MGIMGI:97812. Ptprd.

Phylogenomic databases

eggNOGCOG5599.
GeneTreeENSGT00590000082937.
HOGENOMHOG000010250.
HOVERGENHBG053758.
KOK06777.
OMATMDPSQH.
OrthoDBEOG7M98FB.

Gene expression databases

ArrayExpressQ64487.
BgeeQ64487.
CleanExMM_PTPRD.
GenevestigatorQ64487.

Family and domain databases

Gene3D2.60.40.10. 11 hits.
3.90.190.10. 2 hits.
InterProIPR003961. Fibronectin_type3.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR013098. Ig_I-set.
IPR003598. Ig_sub2.
IPR029021. Prot-tyrosine_phosphatase-like.
IPR000387. Tyr/Dual-sp_Pase.
IPR016130. Tyr_Pase_AS.
IPR000242. Tyr_Pase_rcpt/non-rcpt.
[Graphical view]
PfamPF00041. fn3. 7 hits.
PF07679. I-set. 3 hits.
PF00102. Y_phosphatase. 2 hits.
[Graphical view]
PRINTSPR00700. PRTYPHPHTASE.
SMARTSM00060. FN3. 8 hits.
SM00408. IGc2. 3 hits.
SM00194. PTPc. 2 hits.
[Graphical view]
SUPFAMSSF49265. SSF49265. 6 hits.
SSF52799. SSF52799. 2 hits.
PROSITEPS50853. FN3. 8 hits.
PS50835. IG_LIKE. 3 hits.
PS00383. TYR_PHOSPHATASE_1. 2 hits.
PS50056. TYR_PHOSPHATASE_2. 2 hits.
PS50055. TYR_PHOSPHATASE_PTP. 2 hits.
[Graphical view]
ProtoNetSearch...

Other

ChiTaRSPTPRD. mouse.
NextBio296140.
PROQ64487.
SOURCESearch...

Entry information

Entry namePTPRD_MOUSE
AccessionPrimary (citable) accession number: Q64487
Secondary accession number(s): G3X9S7 expand/collapse secondary AC list , Q64486, Q64488, Q64495, Q8VBV0
Entry history
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: May 16, 2012
Last modified: June 11, 2014
This is version 120 of the entry and version 3 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot