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Protein

E3 ubiquitin-protein ligase PDZRN3

Gene

Pdzrn3

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase. Plays an important role in regulating the surface level of MUSK on myotubes. Mediates the ubiquitination of MUSK, promoting its endocytosis and lysosomal degradation. Might contribute to terminal myogenic differentiation.2 Publications

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri18 – 5639RING-type; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri100 – 15859TRAF-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • ligase activity Source: UniProtKB-KW
  • ubiquitin protein ligase activity Source: MGI
  • ubiquitin-protein transferase activity Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • neuromuscular junction development Source: UniProtKB
  • protein ubiquitination Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

UniPathwayiUPA00143.

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase PDZRN3 (EC:6.3.2.-)
Alternative name(s):
PDZ domain-containing RING finger protein 3
Semaphorin cytoplasmic domain-associated protein 3
Short name:
Protein SEMACAP3
Gene namesi
Name:Pdzrn3
Synonyms:Kiaa1095, Semcap3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:1933157. Pdzrn3.

Subcellular locationi

GO - Cellular componenti

  • neuromuscular junction Source: UniProtKB
Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi18 – 181C → A: Loss of E3 ligase activity. 1 Publication
Mutagenesisi38 – 381C → A: Loss of E3 ligase activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10631063E3 ubiquitin-protein ligase PDZRN3PRO_0000055918Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei427 – 4271PhosphoserineCombined sources

Post-translational modificationi

Auto-ubiquitinated.1 Publication

Keywords - PTMi

Phosphoprotein, Ubl conjugation

Proteomic databases

MaxQBiQ69ZS0.
PaxDbiQ69ZS0.
PRIDEiQ69ZS0.

PTM databases

iPTMnetiQ69ZS0.
PhosphoSiteiQ69ZS0.

Expressioni

Tissue specificityi

Highly expressed in skeletal and cardiac muscle and at lower levels in spinal cord and brain (at protein level). Also expressed in kidney and lung. In muscles, concentrated at the neuromuscular junction (NMJ).1 Publication

Developmental stagei

First detected at the NMJ at approximately 16.5 dpc, when NMJs have just formed. As the NMJ grows and matures, expression levels increase in concert with that of acetylcholine receptors. Levels stay relatively high until 14 days after birth, but decrease significantly by 21 days. Up-regulated during myogenic differentiation in C2C12 cells and during injury-induced muscle regeneration.2 Publications

Gene expression databases

BgeeiQ69ZS0.
CleanExiMM_PDZRN3.
GenevisibleiQ69ZS0. MM.

Interactioni

Subunit structurei

Interacts with NLGN1 and EFNB2 (By similarity). Interacts with UBE2D2 and with MUSK via the first PDZ domain. In myotubes, the interaction between PDZRN3 and MUSK is enhanced upon agrin stimulation.By similarity1 Publication

Protein-protein interaction databases

BioGridi207755. 1 interaction.
IntActiQ69ZS0. 1 interaction.
STRINGi10090.ENSMUSP00000075376.

Structurei

3D structure databases

ProteinModelPortaliQ69ZS0.
SMRiQ69ZS0. Positions 248-339, 404-515.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini249 – 33991PDZ 1PROSITE-ProRule annotationAdd
BLAST
Domaini419 – 50385PDZ 2PROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili680 – 70526Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi986 – 9894Poly-Arg

Domaini

The RING-type zinc finger domain is required for E3 ligase activity.

Sequence similaritiesi

Contains 2 PDZ (DHR) domains.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.PROSITE-ProRule annotation
Contains 1 TRAF-type zinc finger.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri18 – 5639RING-type; degeneratePROSITE-ProRule annotationAdd
BLAST
Zinc fingeri100 – 15859TRAF-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Coiled coil, Repeat, Zinc-finger

Phylogenomic databases

eggNOGiKOG0297. Eukaryota.
KOG0312. Eukaryota.
ENOG4111S26. LUCA.
GeneTreeiENSGT00510000046421.
HOGENOMiHOG000231379.
HOVERGENiHBG053554.
InParanoidiQ69ZS0.
KOiK15682.
OMAiGDIHQEM.
OrthoDBiEOG70ZZNP.
PhylomeDBiQ69ZS0.
TreeFamiTF315909.

Family and domain databases

Gene3Di2.30.42.10. 2 hits.
3.30.40.10. 1 hit.
3.90.890.10. 1 hit.
InterProiIPR001478. PDZ.
IPR013323. SIAH-type.
IPR008974. TRAF-like.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
IPR001293. Znf_TRAF.
[Graphical view]
PfamiPF00595. PDZ. 2 hits.
[Graphical view]
SMARTiSM00228. PDZ. 2 hits.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF49599. SSF49599. 1 hit.
SSF50156. SSF50156. 2 hits.
PROSITEiPS50106. PDZ. 2 hits.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
PS50145. ZF_TRAF. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q69ZS0-1) [UniParc]FASTAAdd to basket

Also known as: SEMCAP-3A, PDZRN3B

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
MGFELDRFDG DVDPDLKCAL CHKVLEDPLT TPCGHVFCAG CVLPWVVQEG
60 70 80 90 100
SCPARCRGRL SAKELNHVLP LKRLILKLDI KCAHAARGCG RVVKLQDLPE
110 120 130 140 150
HLERCDFAPA RCRHAGCGQL LLRRDVEAHM RDACDARPVG RCQEGCGLPL
160 170 180 190 200
THGEQRAGGH CCARALRAHN GALQARLGAL HKALKKEALR AGKREKSLVA
210 220 230 240 250
QLAAAQLELQ MTALRYQKKF TEYSARLDSL SRCVAAPPGG KGEETKSLTL
260 270 280 290 300
VLHRDSGSLG FNIIGGRPCV DNQDGSSSEG IFVSKIVDSG PAAKEGGLQI
310 320 330 340 350
HDRIIEVNGK DLSRATHDQA VEAFKTAKEP IVVQVLRRTP RTKMFTPASE
360 370 380 390 400
SQLVDTGTQT DITFEHIMAL TKMSSPSPPV LDPYLLPEEH PASHDYYDPN
410 420 430 440 450
DYMGDIHQDM DREELELEEV GLYRMNSQDK LGLTVCYRTD DEDDIGIYIS
460 470 480 490 500
EIDPNSIAAK DGRIREGDRI IQINGIEVQN REEAVALLTS EENKNFSLLI
510 520 530 540 550
ARPELQLDEG WMDDDRNDFL DDLHMDMLEE QHHQAMQFTA SVLQQKKHEE
560 570 580 590 600
DGGTTDTATI LSNQHEKDSG VGRTDESTRN DESSEQENNG EDATASANPL
610 620 630 640 650
AGQRKLTCSQ DTLGSGDLPF SNESFISADC TDVDYLGIPE DECERFRELL
660 670 680 690 700
ELKCQVQSAS PYSLYYPSSP LDAAGKSDPE SVDKELELLN EELRSIELEC
710 720 730 740 750
LSIVRAHKMQ QLKEQYRESW MLHHSGFRNY NTSVDVRRHE LSDITELPEK
760 770 780 790 800
SDKDSSSAYN TGESCRSTPL TLEISPDNSL RRVAEGSSEG ATANIEAYRP
810 820 830 840 850
SPKNLLAITE DPEVSTPSYN PSAKELDPSQ ALEIKERRGS DGSRSPTASP
860 870 880 890 900
KLGNAYLPSY HHSPYKHAHI PAHAQHYQSY MHLIQQKSAV EYAQSQMSLV
910 920 930 940 950
SMCKDLNSSN SVEPRMEWKV KIRSDGTRYI TKRPVRDRLL RERALKIREE
960 970 980 990 1000
RSGLTTDDDA MSEMKMGRYW SKEERKQHLV KAKEQRRRRE FMMQSRLDCL
1010 1020 1030 1040 1050
KEQQASDDRK EMNILELSHK KMMKKRNKKI FDNWMTIQEL LTHGTKSPDG
1060
TRVYNSFLSV TTV
Length:1,063
Mass (Da):119,401
Last modified:October 5, 2010 - v3
Checksum:iAC87470326242BED
GO
Isoform 2 (identifier: Q69ZS0-2) [UniParc]FASTAAdd to basket

Also known as: SEMCAP-3B

The sequence of this isoform differs from the canonical sequence as follows:
     82-133: Missing.

Show »
Length:1,011
Mass (Da):113,609
Checksum:i8F56A96668753DE9
GO
Isoform 3 (identifier: Q69ZS0-3) [UniParc]FASTAAdd to basket

Also known as: PDZRN3A

The sequence of this isoform differs from the canonical sequence as follows:
     419-451: Missing.

Show »
Length:1,030
Mass (Da):115,607
Checksum:iADA277BE9E5A3D1E
GO

Sequence cautioni

The sequence AAH10329.1 differs from that shown. Reason: Erroneous termination at position 408. Translated as Gln.Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti82 – 821C → R in BAD32376 (PubMed:15368895).Curated
Sequence conflicti199 – 1991V → L in AAF22131 (Ref. 2) Curated
Sequence conflicti199 – 1991V → L in AAF22132 (Ref. 2) Curated
Sequence conflicti596 – 5961S → Y in AAF22131 (Ref. 2) Curated
Sequence conflicti596 – 5961S → Y in AAF22132 (Ref. 2) Curated
Sequence conflicti731 – 7311N → Y in AAF22131 (Ref. 2) Curated
Sequence conflicti731 – 7311N → Y in AAF22132 (Ref. 2) Curated
Sequence conflicti823 – 8231A → S in AAH10329 (PubMed:15489334).Curated
Sequence conflicti912 – 9121V → A in AAH10329 (PubMed:15489334).Curated
Sequence conflicti938 – 9381R → K in AAF22131 (Ref. 2) Curated
Sequence conflicti938 – 9381R → K in AAF22132 (Ref. 2) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei82 – 13352Missing in isoform 2. 1 PublicationVSP_012610Add
BLAST
Alternative sequencei419 – 45133Missing in isoform 3. 1 PublicationVSP_039769Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
HM560981 mRNA. Translation: ADK56111.1.
AF127084 mRNA. Translation: AAF22131.1.
AF127085 mRNA. Translation: AAF22132.1.
AK173098 mRNA. Translation: BAD32376.1.
BC010329 mRNA. Translation: AAH10329.1. Sequence problems.
CCDSiCCDS20392.1. [Q69ZS0-1]
RefSeqiNP_061372.2. NM_018884.2. [Q69ZS0-1]
UniGeneiMm.321654.

Genome annotation databases

EnsembliENSMUST00000075994; ENSMUSP00000075376; ENSMUSG00000035357. [Q69ZS0-1]
GeneIDi55983.
KEGGimmu:55983.
UCSCiuc009dcd.2. mouse. [Q69ZS0-1]
uc012eps.1. mouse. [Q69ZS0-3]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
HM560981 mRNA. Translation: ADK56111.1.
AF127084 mRNA. Translation: AAF22131.1.
AF127085 mRNA. Translation: AAF22132.1.
AK173098 mRNA. Translation: BAD32376.1.
BC010329 mRNA. Translation: AAH10329.1. Sequence problems.
CCDSiCCDS20392.1. [Q69ZS0-1]
RefSeqiNP_061372.2. NM_018884.2. [Q69ZS0-1]
UniGeneiMm.321654.

3D structure databases

ProteinModelPortaliQ69ZS0.
SMRiQ69ZS0. Positions 248-339, 404-515.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi207755. 1 interaction.
IntActiQ69ZS0. 1 interaction.
STRINGi10090.ENSMUSP00000075376.

PTM databases

iPTMnetiQ69ZS0.
PhosphoSiteiQ69ZS0.

Proteomic databases

MaxQBiQ69ZS0.
PaxDbiQ69ZS0.
PRIDEiQ69ZS0.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000075994; ENSMUSP00000075376; ENSMUSG00000035357. [Q69ZS0-1]
GeneIDi55983.
KEGGimmu:55983.
UCSCiuc009dcd.2. mouse. [Q69ZS0-1]
uc012eps.1. mouse. [Q69ZS0-3]

Organism-specific databases

CTDi23024.
MGIiMGI:1933157. Pdzrn3.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG0297. Eukaryota.
KOG0312. Eukaryota.
ENOG4111S26. LUCA.
GeneTreeiENSGT00510000046421.
HOGENOMiHOG000231379.
HOVERGENiHBG053554.
InParanoidiQ69ZS0.
KOiK15682.
OMAiGDIHQEM.
OrthoDBiEOG70ZZNP.
PhylomeDBiQ69ZS0.
TreeFamiTF315909.

Enzyme and pathway databases

UniPathwayiUPA00143.

Miscellaneous databases

ChiTaRSiPdzrn3. mouse.
PROiQ69ZS0.
SOURCEiSearch...

Gene expression databases

BgeeiQ69ZS0.
CleanExiMM_PDZRN3.
GenevisibleiQ69ZS0. MM.

Family and domain databases

Gene3Di2.30.42.10. 2 hits.
3.30.40.10. 1 hit.
3.90.890.10. 1 hit.
InterProiIPR001478. PDZ.
IPR013323. SIAH-type.
IPR008974. TRAF-like.
IPR001841. Znf_RING.
IPR013083. Znf_RING/FYVE/PHD.
IPR017907. Znf_RING_CS.
IPR001293. Znf_TRAF.
[Graphical view]
PfamiPF00595. PDZ. 2 hits.
[Graphical view]
SMARTiSM00228. PDZ. 2 hits.
SM00184. RING. 1 hit.
[Graphical view]
SUPFAMiSSF49599. SSF49599. 1 hit.
SSF50156. SSF50156. 2 hits.
PROSITEiPS50106. PDZ. 2 hits.
PS00518. ZF_RING_1. 1 hit.
PS50089. ZF_RING_2. 1 hit.
PS50145. ZF_TRAF. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Regulation of synaptic growth and maturation by a synapse-associated E3 ubiquitin ligase at the neuromuscular junction."
    Lu Z., Je H.S., Young P., Gross J., Lu B., Feng G.
    J. Cell Biol. 177:1077-1089(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), FUNCTION, INTERACTION WITH MUSK AND UBE2D2, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, AUTOUBIQUITINATION, MUTAGENESIS OF CYS-18 AND CYS-38.
  2. "Cloning and characterization of a novel PDZ domain containing protein interacting with the transmembrane semaphorin, M-semF."
    Wang L.-H., Strittmatter S.M.
    Submitted (FEB-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
  3. "Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H., Nagase T., Ohara O., Koga H.
    DNA Res. 11:205-218(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 12-1063 (ISOFORM 1).
    Tissue: Fetal brain.
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 392-1063.
    Strain: FVB/N.
    Tissue: Mammary tumor.
  5. "PDZRN3 (LNX3, SEMCAP3) is required for the differentiation of C2C12 myoblasts into myotubes."
    Ko J.A., Kimura Y., Matsuura K., Yamamoto H., Gondo T., Inui M.
    J. Cell Sci. 119:5106-5113(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DEVELOPMENTAL STAGE.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-427, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain.

Entry informationi

Entry nameiPZRN3_MOUSE
AccessioniPrimary (citable) accession number: Q69ZS0
Secondary accession number(s): Q91Z03, Q9QY54, Q9QY55
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: October 5, 2010
Last modified: June 8, 2016
This is version 111 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. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. 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.