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Q9JK11

- RTN4_RAT

UniProt

Q9JK11 - RTN4_RAT

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Protein

Reticulon-4

Gene

Rtn4

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

Functioni

Developmental neurite growth regulatory factor with a role as a negative regulator of axon-axon adhesion and growth, and as a facilitator of neurite branching. Regulates neurite fasciculation, branching and extension in the developing nervous system. Involved in down-regulation of growth, stabilization of wiring and restriction of plasticity in the adult CNS. Regulates the radial migration of cortical neurons via an RTN4R-LINGO1 containing receptor complex. Isoform 2 and isoform 3 inhibit BACE1 activity and amyloid precursor protein processing.3 Publications

GO - Molecular functioni

  1. protein complex binding Source: RGD

GO - Biological processi

  1. aging Source: RGD
  2. axonal fasciculation Source: UniProtKB
  3. cerebral cortex radial glia guided migration Source: UniProtKB
  4. negative regulation of axon extension Source: UniProtKB
  5. negative regulation of axonogenesis Source: RGD
  6. negative regulation of neuron differentiation Source: RGD
  7. negative regulation of neuron projection development Source: RGD
  8. negative regulation of neuron projection regeneration Source: RGD
  9. olfactory nerve development Source: RGD
  10. oligodendrocyte differentiation Source: RGD
  11. positive regulation of dopamine secretion Source: RGD
  12. positive regulation of glial cell differentiation Source: RGD
  13. regulation of axon regeneration Source: RGD
  14. regulation of branching morphogenesis of a nerve Source: UniProtKB
  15. regulation of sensory perception of pain Source: RGD
  16. response to activity Source: RGD
Complete GO annotation...

Keywords - Biological processi

Neurogenesis

Names & Taxonomyi

Protein namesi
Recommended name:
Reticulon-4
Alternative name(s):
Foocen
Glut4 vesicle 20 kDa protein
Neurite outgrowth inhibitor
Short name:
Nogo protein
Gene namesi
Name:Rtn4
Synonyms:Nogo
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494: Chromosome 14

Organism-specific databases

RGDi620989. Rtn4.

Subcellular locationi

Endoplasmic reticulum membrane By similarity; Multi-pass membrane protein By similarity
Note: Anchored to the membrane of the endoplasmic reticulum through 2 putative transmembrane domains.By similarity

GO - Cellular componenti

  1. cytoplasm Source: RGD
  2. endoplasmic reticulum Source: RGD
  3. integral component of endoplasmic reticulum membrane Source: UniProtKB
  4. integral component of membrane Source: RGD
  5. intracellular Source: UniProtKB
  6. myelin sheath Source: RGD
  7. neuronal cell body Source: RGD
  8. neuron projection Source: RGD
  9. nuclear envelope Source: UniProtKB
  10. plasma membrane Source: RGD
  11. protein complex Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 11631163Reticulon-4PRO_0000168167Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei7 – 71PhosphoserineBy similarity
Modified residuei16 – 161PhosphoserineBy similarity
Modified residuei107 – 1071Phosphoserine1 Publication
Modified residuei149 – 1491PhosphoserineBy similarity
Modified residuei169 – 1691PhosphoserineBy similarity
Modified residuei343 – 3431PhosphoserineBy similarity
Modified residuei488 – 4881PhosphoserineBy similarity
Modified residuei689 – 6891PhosphoserineBy similarity
Modified residuei1075 – 10751N6-acetyllysineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ9JK11.
PRIDEiQ9JK11.

PTM databases

PhosphoSiteiQ9JK11.

Expressioni

Tissue specificityi

Isoforms 1, 2 and 3 are present in optic nerve, spinal cord and cerebral cortex. Isoforms 1 and 2 are present in dorsal root ganglion, sciatic nerve and PC12 cells after longer exposure. Isoforms 2 and 3 are detected in kidney, cartilage, skin, lung and spleen. Isoform 3 is expressed at high level in skeletal muscle. In adult animals isoform 1 is expressed mainly in the nervous system.

Gene expression databases

ExpressionAtlasiQ9JK11. baseline and differential.
GenevestigatoriQ9JK11.

Interactioni

Subunit structurei

Binds to RTN4R. Interacts with Bcl-xl and Bcl-2. Isoform 2 binds to NGBR and RTN3. Isoform 2 and isoform 3 interact ith BACE1 and BACE2 By similarity. Interacts with RTN4IP1 By similarity. Interacts in trans with CNTNAP1. Interacts with ATL1.By similarity2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ATL1Q8WXF72EBI-920002,EBI-2410266From a different organism.
Atl1Q6PST46EBI-919989,EBI-2410213

Protein-protein interaction databases

BioGridi249825. 2 interactions.
DIPiDIP-37179N.
IntActiQ9JK11. 3 interactions.
MINTiMINT-4998315.
STRINGi10116.ENSRNOP00000006443.

Structurei

3D structure databases

ProteinModelPortaliQ9JK11.
SMRiQ9JK11. Positions 1026-1085.
ModBaseiSearch...
MobiDBiSearch...

Topological domain

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 989989CytoplasmicSequence AnalysisAdd
BLAST
Topological domaini1011 – 110494LumenalSequence AnalysisAdd
BLAST
Topological domaini1126 – 116338CytoplasmicSequence AnalysisAdd
BLAST

Transmembrane

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transmembranei990 – 101021HelicalSequence AnalysisAdd
BLAST
Transmembranei1105 – 112521HelicalSequence AnalysisAdd
BLAST

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini976 – 1163188ReticulonPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi33 – 4614Poly-GluAdd
BLAST
Compositional biasi73 – 764Poly-Ala
Compositional biasi140 – 1456Poly-Pro

Domaini

Three regions, residues 59-172, 544-725 and the loop 66 amino acids, known as Nogo-66 loop, appear to be responsible for the inhibitory effect on neurite outgrowth and the spreading of neurons. This Nogo-66 loop, mediates also the binding of RTN4 to its receptor.

Sequence similaritiesi

Contains 1 reticulon domain.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG306139.
GeneTreeiENSGT00390000009934.
HOGENOMiHOG000148576.
HOVERGENiHBG023134.
InParanoidiQ9JK11.
PhylomeDBiQ9JK11.

Family and domain databases

InterProiIPR003388. Reticulon.
[Graphical view]
PANTHERiPTHR10994. PTHR10994. 1 hit.
PfamiPF02453. Reticulon. 1 hit.
[Graphical view]
PROSITEiPS50845. RETICULON. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. Align

Isoform 1 (identifier: Q9JK11-1) [UniParc]FASTAAdd to Basket

Also known as: Nogo-A, NI-220-250

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
MEDIDQSSLV SSSTDSPPRP PPAFKYQFVT EPEDEEDEEE EEDEEEDDED
60 70 80 90 100
LEELEVLERK PAAGLSAAAV PPAAAAPLLD FSSDSVPPAP RGPLPAAPPA
110 120 130 140 150
APERQPSWER SPAAPAPSLP PAAAVLPSKL PEDDEPPARP PPPPPAGASP
160 170 180 190 200
LAEPAAPPST PAAPKRRGSG SVDETLFALP AASEPVIPSS AEKIMDLMEQ
210 220 230 240 250
PGNTVSSGQE DFPSVLLETA ASLPSLSPLS TVSFKEHGYL GNLSAVSSSE
260 270 280 290 300
GTIEETLNEA SKELPERATN PFVNRDLAEF SELEYSEMGS SFKGSPKGES
310 320 330 340 350
AILVENTKEE VIVRSKDKED LVCSAALHSP QESPVGKEDR VVSPEKTMDI
360 370 380 390 400
FNEMQMSVVA PVREEYADFK PFEQAWEVKD TYEGSRDVLA ARANVESKVD
410 420 430 440 450
RKCLEDSLEQ KSLGKDSEGR NEDASFPSTP EPVKDSSRAY ITCASFTSAT
460 470 480 490 500
ESTTANTFPL LEDHTSENKT DEKKIEERKA QIITEKTSPK TSNPFLVAVQ
510 520 530 540 550
DSEADYVTTD TLSKVTEAAV SNMPEGLTPD LVQEACESEL NEATGTKIAY
560 570 580 590 600
ETKVDLVQTS EAIQESLYPT AQLCPSFEEA EATPSPVLPD IVMEAPLNSL
610 620 630 640 650
LPSAGASVVQ PSVSPLEAPP PVSYDSIKLE PENPPPYEEA MNVALKALGT
660 670 680 690 700
KEGIKEPESF NAAVQETEAP YISIACDLIK ETKLSTEPSP DFSNYSEIAK
710 720 730 740 750
FEKSVPEHAE LVEDSSPESE PVDLFSDDSI PEVPQTQEEA VMLMKESLTE
760 770 780 790 800
VSETVAQHKE ERLSASPQEL GKPYLESFQP NLHSTKDAAS NDIPTLTKKE
810 820 830 840 850
KISLQMEEFN TAIYSNDDLL SSKEDKIKES ETFSDSSPIE IIDEFPTFVS
860 870 880 890 900
AKDDSPKLAK EYTDLEVSDK SEIANIQSGA DSLPCLELPC DLSFKNIYPK
910 920 930 940 950
DEVHVSDEFS ENRSSVSKAS ISPSNVSALE PQTEMGSIVK SKSLTKEAEK
960 970 980 990 1000
KLPSDTEKED RSLSAVLSAE LSKTSVVDLL YWRDIKKTGV VFGASLFLLL
1010 1020 1030 1040 1050
SLTVFSIVSV TAYIALALLS VTISFRIYKG VIQAIQKSDE GHPFRAYLES
1060 1070 1080 1090 1100
EVAISEELVQ KYSNSALGHV NSTIKELRRL FLVDDLVDSL KFAVLMWVFT
1110 1120 1130 1140 1150
YVGALFNGLT LLILALISLF SIPVIYERHQ VQIDHYLGLA NKSVKDAMAK
1160
IQAKIPGLKR KAD
Length:1,163
Mass (Da):126,388
Last modified:October 1, 2000 - v1
Checksum:i8CB894B09E94F0B6
GO
Isoform 2 (identifier: Q9JK11-2) [UniParc]FASTAAdd to Basket

Also known as: Nogo-B, Foocen-M1

The sequence of this isoform differs from the canonical sequence as follows:
     173-975: Missing.

Show »
Length:360
Mass (Da):38,822
Checksum:i149714AD6C3D65A7
GO
Isoform 3 (identifier: Q9JK11-3) [UniParc]FASTAAdd to Basket

Also known as: Nogo-C, VP20

The sequence of this isoform differs from the canonical sequence as follows:
     1-964: Missing.
     965-975: AVLSAELSKTS → MDGQKKHWKDK

Show »
Length:199
Mass (Da):22,403
Checksum:i2FD805453543DC95
GO
Isoform 4 (identifier: Q9JK11-4) [UniParc]FASTAAdd to Basket

Also known as: Foocen-M2

The sequence of this isoform differs from the canonical sequence as follows:
     192-975: Missing.

Show »
Length:379
Mass (Da):40,719
Checksum:i9F15AB942D36ED0F
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti1130 – 11312Missing in AAD31020. 1 PublicationCurated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 964964Missing in isoform 3. 2 PublicationsVSP_005656Add
BLAST
Alternative sequencei173 – 975803Missing in isoform 2. 2 PublicationsVSP_005658Add
BLAST
Alternative sequencei192 – 975784Missing in isoform 4. 1 PublicationVSP_005659Add
BLAST
Alternative sequencei965 – 97511AVLSAELSKTS → MDGQKKHWKDK in isoform 3. 2 PublicationsVSP_005657Add
BLAST

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF051335 mRNA. Translation: AAF01564.1.
AJ242961 mRNA. Translation: CAB71027.1.
AJ242962 mRNA. Translation: CAB71028.1.
AJ242963 mRNA. Translation: CAB71029.1.
AF132045 mRNA. Translation: AAD31019.1.
AF132046 mRNA. Translation: AAD31020.1.
RefSeqiNP_114019.1. NM_031831.1. [Q9JK11-1]
XP_006251671.1. XM_006251609.2. [Q9JK11-3]
UniGeneiRn.1348.
Rn.163269.

Genome annotation databases

EnsembliENSRNOT00000006957; ENSRNOP00000006957; ENSRNOG00000004621. [Q9JK11-2]
ENSRNOT00000041638; ENSRNOP00000042870; ENSRNOG00000004621. [Q9JK11-4]
ENSRNOT00000042965; ENSRNOP00000040760; ENSRNOG00000004621. [Q9JK11-3]
GeneIDi83765.
KEGGirno:83765.
UCSCiRGD:620989. rat. [Q9JK11-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Web resourcesi

Protein Spotlight

Nerve regrowth: nipped by a no-go - Issue 69 of April 2006

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF051335 mRNA. Translation: AAF01564.1 .
AJ242961 mRNA. Translation: CAB71027.1 .
AJ242962 mRNA. Translation: CAB71028.1 .
AJ242963 mRNA. Translation: CAB71029.1 .
AF132045 mRNA. Translation: AAD31019.1 .
AF132046 mRNA. Translation: AAD31020.1 .
RefSeqi NP_114019.1. NM_031831.1. [Q9JK11-1 ]
XP_006251671.1. XM_006251609.2. [Q9JK11-3 ]
UniGenei Rn.1348.
Rn.163269.

3D structure databases

ProteinModelPortali Q9JK11.
SMRi Q9JK11. Positions 1026-1085.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 249825. 2 interactions.
DIPi DIP-37179N.
IntActi Q9JK11. 3 interactions.
MINTi MINT-4998315.
STRINGi 10116.ENSRNOP00000006443.

PTM databases

PhosphoSitei Q9JK11.

Proteomic databases

PaxDbi Q9JK11.
PRIDEi Q9JK11.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSRNOT00000006957 ; ENSRNOP00000006957 ; ENSRNOG00000004621 . [Q9JK11-2 ]
ENSRNOT00000041638 ; ENSRNOP00000042870 ; ENSRNOG00000004621 . [Q9JK11-4 ]
ENSRNOT00000042965 ; ENSRNOP00000040760 ; ENSRNOG00000004621 . [Q9JK11-3 ]
GeneIDi 83765.
KEGGi rno:83765.
UCSCi RGD:620989. rat. [Q9JK11-1 ]

Organism-specific databases

CTDi 57142.
RGDi 620989. Rtn4.

Phylogenomic databases

eggNOGi NOG306139.
GeneTreei ENSGT00390000009934.
HOGENOMi HOG000148576.
HOVERGENi HBG023134.
InParanoidi Q9JK11.
PhylomeDBi Q9JK11.

Miscellaneous databases

NextBioi 616333.
PROi Q9JK11.

Gene expression databases

ExpressionAtlasi Q9JK11. baseline and differential.
Genevestigatori Q9JK11.

Family and domain databases

InterProi IPR003388. Reticulon.
[Graphical view ]
PANTHERi PTHR10994. PTHR10994. 1 hit.
Pfami PF02453. Reticulon. 1 hit.
[Graphical view ]
PROSITEi PS50845. RETICULON. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning and characterization of a 22 kDa protein from rat adipocytes: a new member of the reticulon family."
    Morris N.J., Ross S.A., Neveu J.M., Lane W.S., Lienhard G.E.
    Biochim. Biophys. Acta 1450:68-76(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3), PARTIAL PROTEIN SEQUENCE.
    Strain: Sprague-Dawley.
    Tissue: Adipocyte.
  2. "Nogo-A is a myelin-associated neurite outgrowth inhibitor and an antigen for monoclonal antibody IN-1."
    Chen M.S., Huber A.B., Van der Haar M.E., Frank M., Schnell L., Spillmann A.A., Christ F., Schwab M.E.
    Nature 403:434-439(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3).
  3. "Cloning of a member of the reticulon gene family in rat: one of two minor splice variants."
    Ito T., Schwartz S.M.
    Submitted (FEB-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 4).
    Strain: Wistar Kyoto.
    Tissue: Vascular smooth muscle.
  4. "Nogo-66 receptor antagonist peptide promotes axonal regeneration."
    GrandPre T., Li S., Strittmatter S.M.
    Nature 417:547-551(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  5. Cited for: INTERACTION WITH CNTNAP1.
  6. "Nogo-A inhibits neurite outgrowth and cell spreading with three discrete regions."
    Oertle T., van der Haar M.E., Bandtlow C.E., Robeva A., Burfeind P., Buss A., Huber A.B., Simonen M., Schnell L., Brosamle C., Kaupmann K., Vallon R., Schwab M.E.
    J. Neurosci. 23:5393-5406(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "Quantitative phosphoproteomics of vasopressin-sensitive renal cells: regulation of aquaporin-2 phosphorylation at two sites."
    Hoffert J.D., Pisitkun T., Wang G., Shen R.-F., Knepper M.A.
    Proc. Natl. Acad. Sci. U.S.A. 103:7159-7164(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-107, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. "A class of dynamin-like GTPases involved in the generation of the tubular ER network."
    Hu J., Shibata Y., Zhu P.-P., Voss C., Rismanchi N., Prinz W.A., Rapoport T.A., Blackstone C.
    Cell 138:549-561(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ATL1.
  9. "Neuronal Nogo-A regulates neurite fasciculation, branching and extension in the developing nervous system."
    Petrinovic M.M., Duncan C.S., Bourikas D., Weinman O., Montani L., Schroeter A., Maerki D., Sommer L., Stoeckli E.T., Schwab M.E.
    Development 137:2539-2550(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiRTN4_RAT
AccessioniPrimary (citable) accession number: Q9JK11
Secondary accession number(s): Q9JK10
, Q9R0D9, Q9WUE9, Q9WUF0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: October 1, 2000
Last modified: October 29, 2014
This is version 105 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Protein Spotlight
    Protein Spotlight articles and cited UniProtKB/Swiss-Prot entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3