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Protein

Neuroplastin

Gene

Nptn

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: -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
  • cell-cell adhesion mediator activity Source: GO_Central
  • fibroblast growth factor receptor binding Source: RGD
  • ion channel binding Source: RGD
  • type 1 fibroblast growth factor receptor binding Source: UniProtKB

GO - Biological processi

Keywordsi

Biological processCell adhesion, Neurogenesis

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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 8

Organism-specific databases

RGDi620296 Nptn

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Topology

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

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...) asparagine1 Publication1
Glycosylationi196N-linked (GlcNAc...) asparagineCombined sources1
Glycosylationi228N-linked (GlcNAc...) asparagineCombined sources1 Publication1
Disulfide bondi258 ↔ 315PROSITE-ProRule annotation1 Publication
Glycosylationi283N-linked (GlcNAc...) asparagine1 Publication1
Glycosylationi295N-linked (GlcNAc...) asparagine1 Publication1
Glycosylationi316N-linked (GlcNAc...) asparagineSequence 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 Expressed in 10 organ(s), highest expression level in brain
GenevisibleiP97546 RN

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000012091

Structurei

Secondary structure

1393
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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.

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IJET Eukaryota
ENOG4111V1Q LUCA
GeneTreeiENSGT00390000010516
HOGENOMiHOG000263411
HOVERGENiHBG008120
InParanoidiP97546
KOiK22653
OMAiQKPRINA
PhylomeDBiP97546

Family and domain databases

Gene3Di2.60.40.10, 3 hits
InterProiView protein in InterPro
IPR007110 Ig-like_dom
IPR036179 Ig-like_dom_sf
IPR013783 Ig-like_fold
IPR003599 Ig_sub
IPR003598 Ig_sub2
IPR027112 Neuroplastin
PANTHERiPTHR10075:SF5 PTHR10075:SF5, 1 hit
SMARTiView protein in SMART
SM00409 IG, 3 hits
SM00408 IGc2, 2 hits
SUPFAMiSSF48726 SSF48726, 3 hits
PROSITEiView protein in PROSITE
PS50835 IG_LIKE, 3 hits

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

Similar proteinsi

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
KOiK22653
OMAiQKPRINA
PhylomeDBiP97546

Miscellaneous databases

EvolutionaryTraceiP97546
PROiPR:P97546

Gene expression databases

BgeeiENSRNOG00000009029 Expressed in 10 organ(s), highest expression level in brain
GenevisibleiP97546 RN

Family and domain databases

Gene3Di2.60.40.10, 3 hits
InterProiView protein in InterPro
IPR007110 Ig-like_dom
IPR036179 Ig-like_dom_sf
IPR013783 Ig-like_fold
IPR003599 Ig_sub
IPR003598 Ig_sub2
IPR027112 Neuroplastin
PANTHERiPTHR10075:SF5 PTHR10075:SF5, 1 hit
SMARTiView protein in SMART
SM00409 IG, 3 hits
SM00408 IGc2, 2 hits
SUPFAMiSSF48726 SSF48726, 3 hits
PROSITEiView protein in PROSITE
PS50835 IG_LIKE, 3 hits
ProtoNetiSearch...

Entry informationi

Entry nameiNPTN_RAT
AccessioniPrimary (citable) accession number: P97546
Secondary accession number(s): P97547, Q6IRE8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: June 15, 2010
Last modified: November 7, 2018
This is version 136 of the entry and version 2 of the sequence. See 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
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