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Protein

Neuroplastin

Gene

Nptn

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

Functioni

Probable homophilic and heterophilic cell adhesion molecule involved in long term potentiation at hippocampal excitatory synapses through activation of p38MAPK. May also regulate neurite outgrowth by activating the FGFR1 signaling pathway. May play a role in synaptic plasticity.

GO - Molecular functioni

  • cell adhesion molecule binding Source: HGNC
  • fibroblast growth factor receptor binding Source: RGD
  • ion channel binding Source: RGD
  • transmembrane receptor protein tyrosine kinase activity Source: InterPro
  • type 1 fibroblast growth factor receptor binding Source: UniProtKB

GO - Biological processi

  • chemical synaptic transmission Source: Reactome
  • excitatory synapse assembly Source: Ensembl
  • homophilic cell adhesion via plasma membrane adhesion molecules Source: HGNC
  • long-term synaptic potentiation Source: UniProtKB
  • positive regulation of cellular protein localization Source: RGD
  • positive regulation of cytosolic calcium ion concentration Source: UniProtKB
  • positive regulation of ERK1 and ERK2 cascade Source: RGD
  • positive regulation of fibroblast growth factor receptor signaling pathway Source: UniProtKB
  • positive regulation of long-term neuronal synaptic plasticity Source: HGNC
  • positive regulation of long-term synaptic potentiation Source: RGD
  • positive regulation of neuron projection development Source: UniProtKB
  • positive regulation of protein phosphorylation Source: UniProtKB
  • regulation of cell adhesion Source: HGNC
  • regulation of receptor localization to synapse Source: Ensembl
  • transmembrane receptor protein tyrosine kinase signaling pathway Source: InterPro
  • visual learning Source: RGD
Complete GO annotation...

Keywords - Biological processi

Cell adhesion, Neurogenesis

Enzyme and pathway databases

ReactomeiR-RNO-112314. Neurotransmitter Receptor Binding And Downstream Transmission In The Postsynaptic Cell.

Names & Taxonomyi

Protein namesi
Recommended name:
Neuroplastin
Alternative name(s):
Glycoprotein 55/65
Short name:
gp55/65
Stromal cell-derived receptor 1
Short name:
SDR-1
Gene namesi
Name:Nptn
Synonyms:Sdfr1, Sdr1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 8

Organism-specific databases

RGDi620296. Nptn.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini29 – 338ExtracellularSequence analysisAdd BLAST310
Transmembranei339 – 359HelicalSequence analysisAdd BLAST21
Topological domaini360 – 393CytoplasmicSequence analysisAdd BLAST34

GO - Cellular componenti

  • cell Source: GOC
  • cell surface Source: RGD
  • dendrite Source: RGD
  • inhibitory synapse Source: RGD
  • integral component of membrane Source: BHF-UCL
  • plasma membrane Source: Reactome
  • postsynaptic density Source: RGD
  • postsynaptic membrane Source: HGNC
  • presynaptic membrane Source: HGNC
  • synaptic membrane Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 28By similarityAdd BLAST28
ChainiPRO_000039447229 – 393NeuroplastinAdd BLAST365

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi52 ↔ 116PROSITE-ProRule annotation
Disulfide bondi169 ↔ 217PROSITE-ProRule annotation1 Publication
Glycosylationi170N-linked (GlcNAc...)1 Publication1
Glycosylationi196N-linked (GlcNAc...)Sequence analysis1
Glycosylationi228N-linked (GlcNAc...)1 Publication1
Disulfide bondi258 ↔ 315PROSITE-ProRule annotation1 Publication
Glycosylationi283N-linked (GlcNAc...)1 Publication1
Glycosylationi295N-linked (GlcNAc...)1 Publication1
Glycosylationi316N-linked (GlcNAc...)Sequence analysis1

Post-translational modificationi

Isoform 1 and isoform 2 are N-glycosylated.2 Publications

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiP97546.
PRIDEiP97546.

PTM databases

iPTMnetiP97546.
PhosphoSitePlusiP97546.
SwissPalmiP97546.
UniCarbKBiP97546.

Expressioni

Tissue specificityi

Isoform 1 is ubiquitously expressed. Isoform 2 is brain-specific. In brain isoform 2 is highly expressed in hippocampus and cerebral cortex and weakly in cerebellum and lower brain regions. In the hippocampus isoform 2 is found in the dentate gyrus and CA1-CA4, the striatum oriens of CA3 shows the higher level.2 Publications

Developmental stagei

Isoform 1 is detectable at all developmental stages starting from postnatal day 1. Isoform 2 is low at postnatal day 1, increases steadily until postnatal days 20-25 and then declines to an intermediate level.1 Publication

Gene expression databases

BgeeiENSRNOG00000009029.
ExpressionAtlasiP97546. baseline and differential.
GenevisibleiP97546. RN.

Interactioni

GO - Molecular functioni

  • cell adhesion molecule binding Source: HGNC
  • fibroblast growth factor receptor binding Source: RGD
  • ion channel binding Source: RGD
  • type 1 fibroblast growth factor receptor binding Source: UniProtKB

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000012091.

Structurei

Secondary structure

1393
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi149 – 152Combined sources4
Beta strandi161 – 163Combined sources3
Beta strandi165 – 173Combined sources9
Beta strandi178 – 185Combined sources8
Beta strandi198 – 206Combined sources9
Helixi209 – 211Combined sources3
Beta strandi213 – 221Combined sources9
Beta strandi224 – 234Combined sources11
Beta strandi238 – 242Combined sources5
Beta strandi244 – 249Combined sources6
Beta strandi254 – 261Combined sources8
Beta strandi267 – 274Combined sources8
Beta strandi277 – 280Combined sources4
Beta strandi288 – 292Combined sources5
Beta strandi294 – 301Combined sources8
Turni306 – 308Combined sources3
Beta strandi311 – 318Combined sources8
Beta strandi323 – 333Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2WV3X-ray1.95A148-333[»]
ProteinModelPortaliP97546.
SMRiP97546.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP97546.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini29 – 134Ig-like 1Add BLAST106
Domaini148 – 234Ig-like 2Add BLAST87
Domaini237 – 327Ig-like 3Add BLAST91

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni149 – 161Narpin; mediates binding with FGFR1 and has antidepressant-like activityAdd BLAST13

Domaini

Some isoforms lack the first Ig-like domain which may confer homophilic adhesion activity. However, they can bind and activate FGFR1.

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IJET. Eukaryota.
ENOG4111V1Q. LUCA.
GeneTreeiENSGT00390000010516.
HOGENOMiHOG000263411.
HOVERGENiHBG008120.
InParanoidiP97546.
OMAiTINTAYG.
PhylomeDBiP97546.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR027112. Neuroplastin.
IPR016243. Tyr_kinase_CSF1/PDGF_rcpt.
[Graphical view]
PANTHERiPTHR10075:SF5. PTHR10075:SF5. 1 hit.
PIRSFiPIRSF000615. TyrPK_CSF1-R. 1 hit.
SMARTiSM00409. IG. 3 hits.
SM00408. IGc2. 2 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
PROSITEiPS50835. IG_LIKE. 3 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

Isoform 2 (identifier: P97546-2) [UniParc]FASTAAdd to basket
Also known as: gp65, np65

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
MSGSSLPGAL ALSLLLVSGS LLPGPGAAQN AGFVKSPMSE TKLTGDAFEL
60 70 80 90 100
YCDVVGSPTP EIQWWYAEVN RAESFRQLWD GARKRRVTVN TAYGSNGVSV
110 120 130 140 150
LRITRLTLED SGTYECRASN DPKRNDLRQN PSITWIRAQA TISVLQKPRI
160 170 180 190 200
VTSEEVIIRD SLLPVTLQCN LTSSSHTLMY SYWTKNGVEL TATRKNASNM
210 220 230 240 250
EYRINKPRAE DSGEYHCVYH FVSAPKANAT IEVKAAPDIT GHKRSENKNE
260 270 280 290 300
GQDAMMYCKS VGYPHPEWMW RKKENGVFEE ISNSSGRFFI INKENYTELN
310 320 330 340 350
IVNLQITEDP GEYECNATNS IGSASVSTVL RVRSHLAPLW PFLGILAEII
360 370 380 390
ILVVIIVVYE KRKRPDEVPD AGPMKTNSTN NHKDKNLRQR NTN
Length:393
Mass (Da):43,932
Last modified:June 15, 2010 - v2
Checksum:iF11C6B9DF3A6D69A
GO
Isoform 1 (identifier: P97546-1) [UniParc]FASTAAdd to basket
Also known as: gp55, np55

The sequence of this isoform differs from the canonical sequence as follows:
     31-147: AGFVKSPMSE...AQATISVLQK → E
     370-370: D → DDDEP

Show »
Length:281
Mass (Da):31,292
Checksum:i92BFFB64844B211E
GO
Isoform 3 (identifier: P97546-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     31-147: AGFVKSPMSE...AQATISVLQK → E

Show »
Length:277
Mass (Da):30,836
Checksum:i898F4F38F138D7E4
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_03925831 – 147AGFVK…SVLQK → E in isoform 1 and isoform 3. 2 PublicationsAdd BLAST117
Alternative sequenceiVSP_039259370D → DDDEP in isoform 1. 1 Publication1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X99337 mRNA. Translation: CAA67711.1.
X99338 mRNA. Translation: CAA67712.1.
BC070947 mRNA. Translation: AAH70947.1.
RefSeqiNP_062253.1. NM_019380.1. [P97546-2]
XP_006243236.1. XM_006243174.3. [P97546-1]
XP_008764552.1. XM_008766330.2. [P97546-3]
UniGeneiRn.37476.

Genome annotation databases

EnsembliENSRNOT00000012091; ENSRNOP00000012091; ENSRNOG00000009029. [P97546-2]
ENSRNOT00000012295; ENSRNOP00000012295; ENSRNOG00000009029. [P97546-1]
GeneIDi56064.
KEGGirno:56064.
UCSCiRGD:620296. rat. [P97546-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X99337 mRNA. Translation: CAA67711.1.
X99338 mRNA. Translation: CAA67712.1.
BC070947 mRNA. Translation: AAH70947.1.
RefSeqiNP_062253.1. NM_019380.1. [P97546-2]
XP_006243236.1. XM_006243174.3. [P97546-1]
XP_008764552.1. XM_008766330.2. [P97546-3]
UniGeneiRn.37476.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2WV3X-ray1.95A148-333[»]
ProteinModelPortaliP97546.
SMRiP97546.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000012091.

PTM databases

iPTMnetiP97546.
PhosphoSitePlusiP97546.
SwissPalmiP97546.
UniCarbKBiP97546.

Proteomic databases

PaxDbiP97546.
PRIDEiP97546.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000012091; ENSRNOP00000012091; ENSRNOG00000009029. [P97546-2]
ENSRNOT00000012295; ENSRNOP00000012295; ENSRNOG00000009029. [P97546-1]
GeneIDi56064.
KEGGirno:56064.
UCSCiRGD:620296. rat. [P97546-2]

Organism-specific databases

CTDi27020.
RGDi620296. Nptn.

Phylogenomic databases

eggNOGiENOG410IJET. Eukaryota.
ENOG4111V1Q. LUCA.
GeneTreeiENSGT00390000010516.
HOGENOMiHOG000263411.
HOVERGENiHBG008120.
InParanoidiP97546.
OMAiTINTAYG.
PhylomeDBiP97546.

Enzyme and pathway databases

ReactomeiR-RNO-112314. Neurotransmitter Receptor Binding And Downstream Transmission In The Postsynaptic Cell.

Miscellaneous databases

EvolutionaryTraceiP97546.
PROiP97546.

Gene expression databases

BgeeiENSRNOG00000009029.
ExpressionAtlasiP97546. baseline and differential.
GenevisibleiP97546. RN.

Family and domain databases

Gene3Di2.60.40.10. 3 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR027112. Neuroplastin.
IPR016243. Tyr_kinase_CSF1/PDGF_rcpt.
[Graphical view]
PANTHERiPTHR10075:SF5. PTHR10075:SF5. 1 hit.
PIRSFiPIRSF000615. TyrPK_CSF1-R. 1 hit.
SMARTiSM00409. IG. 3 hits.
SM00408. IGc2. 2 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 3 hits.
PROSITEiPS50835. IG_LIKE. 3 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNPTN_RAT
AccessioniPrimary (citable) accession number: P97546
Secondary accession number(s): P97547, Q6IRE8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: June 15, 2010
Last modified: November 2, 2016
This is version 120 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. 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.