Q9Y639 (NPTN_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Neuroplastin

Alternative name(s):
Stromal cell-derived receptor 1
Short name=SDR-1

Gene names

Name:	NPTN
Synonyms:	SDFR1, SDR1

Organism

Homo sapiens (Human) [Reference proteome]

Taxonomic identifier

9606 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Primates › Haplorrhini › Simiiformes › Catarrhini › Hominoidea › Hominidae › Homininae › Homo

Protein attributes

Sequence length	398 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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 By similarity.
Subcellular location	Cell membrane; Single-pass type I membrane protein Potential. Note: Enriched at postsynaptic density By similarity.
Tissue specificity	Isoform 1 is ubiquitously expressed. Isoform 2 is expressed in brain cortex and cerebellum (at protein level). Ref.1 Ref.7
Domain	Some isoforms lack the first Ig-like domain which may confer homophilic adhesion activity. However, they can bind and activate FGFR1 By similarity.
Sequence similarities	Contains 3 Ig-like (immunoglobulin-like) domains.
Sequence caution	The sequence BAD93049.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.

Ontologies

Keywords
Biological process	Cell adhesion Neurogenesis
Cellular component	Cell membrane Membrane
Coding sequence diversity	Alternative splicing
Domain	Immunoglobulin domain Repeat Signal Transmembrane Transmembrane helix
PTM	Disulfide bond Glycoprotein
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	elevation of cytosolic calcium ion concentration Inferred from sequence or structural similarity. Source: UniProtKB homophilic cell adhesion Inferred from sequence or structural similarity. Source: HGNC long-term synaptic potentiation Inferred from sequence or structural similarity. Source: UniProtKB positive regulation of fibroblast growth factor receptor signaling pathway Inferred from sequence or structural similarity. Source: UniProtKB positive regulation of long-term neuronal synaptic plasticity Inferred from sequence or structural similarity. Source: HGNC positive regulation of neuron projection development Inferred from sequence or structural similarity. Source: UniProtKB positive regulation of protein phosphorylation Inferred from sequence or structural similarity. Source: UniProtKB
Cellular_component	integral to membrane Inferred from electronic annotation. Source: UniProtKB-KW plasma membrane Inferred from electronic annotation. Source: UniProtKB-SubCell presynaptic membrane Inferred from sequence or structural similarity. Source: HGNC
Molecular_function	cell adhesion molecule binding Inferred from sequence or structural similarity. Source: HGNC type 1 fibroblast growth factor receptor binding Inferred from sequence or structural similarity. Source: UniProtKB
Complete GO annotation...

Alternative products

This entry describes 5 isoforms produced by alternative splicing. [Align] [Select]

Isoform 2 (identifier: Q9Y639-2)

Also known as: SDR-1-beta;

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 1 (identifier: Q9Y639-1)

Also known as: SDR-1-alpha;

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

Isoform 3 (identifier: Q9Y639-3)

The sequence of this isoform differs from the canonical sequence as follows:
     31-147: AGFVKSPMSE...AQATISVLQK → E
     372-375: Missing.

Isoform 4 (identifier: Q9Y639-4)

The sequence of this isoform differs from the canonical sequence as follows:
     320-398: NAIGSASVVT...DKNLRQRNTN → WPHSGLSWEFWLKLSSLW

Note: No experimental confirmation available.

Isoform 5 (identifier: Q9Y639-5)

The sequence of this isoform differs from the canonical sequence as follows:
     372-375: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 28	28	Ref.6
	Chain	29 – 398	370	Neuroplastin		PRO_0000394470
Regions
	Topological domain	29 – 339	311	Extracellular Potential
	Transmembrane	340 – 360	21	Helical; Potential
	Topological domain	361 – 398	38	Cytoplasmic Potential
	Domain	29 – 134	106	Ig-like 1
	Domain	148 – 235	88	Ig-like 2
	Domain	238 – 329	92	Ig-like 3
	Region	149 – 161	13	Narpin; mediates binding with FGFR1 and has antidepressant-like activity By similarity
Amino acid modifications
	Glycosylation	171	1	N-linked (GlcNAc...) Potential
	Glycosylation	197	1	N-linked (GlcNAc...) Potential
	Glycosylation	229	1	N-linked (GlcNAc...) Ref.9
	Glycosylation	284	1	N-linked (GlcNAc...) Ref.8
	Glycosylation	296	1	N-linked (GlcNAc...) Ref.8
	Glycosylation	317	1	N-linked (GlcNAc...) Potential
	Disulfide bond	52 ↔ 116		By similarity
	Disulfide bond	170 ↔ 218		By similarity
	Disulfide bond	259 ↔ 316		By similarity
Natural variations
	Alternative sequence	31 – 147	117	AGFVK…SVLQK → E in isoform 1 and isoform 3.		VSP_039251
	Alternative sequence	320 – 398	79	NAIGS…QRNTN → WPHSGLSWEFWLKLSSLW in isoform 4.		VSP_039252
	Alternative sequence	372 – 375	4	Missing in isoform 3 and isoform 5.		VSP_039253
Experimental info
	Sequence conflict	299	1	E → K in BAH12519. Ref.2

Sequences

	Sequence		Length	Mass (Da)
	Isoform 2 (SDR-1-beta) [UniParc]. Last modified June 15, 2010. Version 2. Checksum: 5109E3C03B4967EA	FASTA	398	44,387
	10 20 30 40 50 60 MSGSSLPSAL ALSLLLVSGS LLPGPGAAQN AGFVKSPMSE TKLTGDAFEL YCDVVGSPTP 70 80 90 100 110 120 EIQWWYAEVN RAESFRQLWD GARKRRVTVN TAYGSNGVSV LRITRLTLED SGTYECRASN 130 140 150 160 170 180 DPKRNDLRQN PSITWIRAQA TISVLQKPRI VTSEEVIIRD SPVLPVTLQC NLTSSSHTLT 190 200 210 220 230 240 YSYWTKNGVE LSATRKNASN MEYRINKPRA EDSGEYHCVY HFVSAPKANA TIEVKAAPDI 250 260 270 280 290 300 TGHKRSENKN EGQDATMYCK SVGYPHPDWI WRKKENGMPM DIVNTSGRFF IINKENYTEL 310 320 330 340 350 360 NIVNLQITED PGEYECNATN AIGSASVVTV LRVRSHLAPL WPFLGILAEI IILVVIIVVY 370 380 390 EKRKRPDEVP DDDEPAGPMK TNSTNNHKDK NLRQRNTN
	Isoform 1 (SDR-1-alpha) [UniParc]. Checksum: B3E48A23984A6C4A	FASTA	282	31,291
	10 20 30 40 50 60 MSGSSLPSAL ALSLLLVSGS LLPGPGAAQN EPRIVTSEEV IIRDSPVLPV TLQCNLTSSS 70 80 90 100 110 120 HTLTYSYWTK NGVELSATRK NASNMEYRIN KPRAEDSGEY HCVYHFVSAP KANATIEVKA 130 140 150 160 170 180 APDITGHKRS ENKNEGQDAT MYCKSVGYPH PDWIWRKKEN GMPMDIVNTS GRFFIINKEN 190 200 210 220 230 240 YTELNIVNLQ ITEDPGEYEC NATNAIGSAS VVTVLRVRSH LAPLWPFLGI LAEIIILVVI 250 260 270 280 IVVYEKRKRP DEVPDDDEPA GPMKTNSTNN HKDKNLRQRN TN
	Isoform 3 [UniParc]. Checksum: 458E026CC87DD657	FASTA	278	30,835
	10 20 30 40 50 60 MSGSSLPSAL ALSLLLVSGS LLPGPGAAQN EPRIVTSEEV IIRDSPVLPV TLQCNLTSSS 70 80 90 100 110 120 HTLTYSYWTK NGVELSATRK NASNMEYRIN KPRAEDSGEY HCVYHFVSAP KANATIEVKA 130 140 150 160 170 180 APDITGHKRS ENKNEGQDAT MYCKSVGYPH PDWIWRKKEN GMPMDIVNTS GRFFIINKEN 190 200 210 220 230 240 YTELNIVNLQ ITEDPGEYEC NATNAIGSAS VVTVLRVRSH LAPLWPFLGI LAEIIILVVI 250 260 270 IVVYEKRKRP DEVPDAGPMK TNSTNNHKDK NLRQRNTN
	Isoform 4 [UniParc]. Checksum: 8C043513B3BCD50C	FASTA	337	37,792
	10 20 30 40 50 60 MSGSSLPSAL ALSLLLVSGS LLPGPGAAQN AGFVKSPMSE TKLTGDAFEL YCDVVGSPTP 70 80 90 100 110 120 EIQWWYAEVN RAESFRQLWD GARKRRVTVN TAYGSNGVSV LRITRLTLED SGTYECRASN 130 140 150 160 170 180 DPKRNDLRQN PSITWIRAQA TISVLQKPRI VTSEEVIIRD SPVLPVTLQC NLTSSSHTLT 190 200 210 220 230 240 YSYWTKNGVE LSATRKNASN MEYRINKPRA EDSGEYHCVY HFVSAPKANA TIEVKAAPDI 250 260 270 280 290 300 TGHKRSENKN EGQDATMYCK SVGYPHPDWI WRKKENGMPM DIVNTSGRFF IINKENYTEL 310 320 330 NIVNLQITED PGEYECNATW PHSGLSWEFW LKLSSLW
	Isoform 5 [UniParc]. Checksum: C68D09CC61FB4B49	FASTA	394	43,931
	10 20 30 40 50 60 MSGSSLPSAL ALSLLLVSGS LLPGPGAAQN AGFVKSPMSE TKLTGDAFEL YCDVVGSPTP 70 80 90 100 110 120 EIQWWYAEVN RAESFRQLWD GARKRRVTVN TAYGSNGVSV LRITRLTLED SGTYECRASN 130 140 150 160 170 180 DPKRNDLRQN PSITWIRAQA TISVLQKPRI VTSEEVIIRD SPVLPVTLQC NLTSSSHTLT 190 200 210 220 230 240 YSYWTKNGVE LSATRKNASN MEYRINKPRA EDSGEYHCVY HFVSAPKANA TIEVKAAPDI 250 260 270 280 290 300 TGHKRSENKN EGQDATMYCK SVGYPHPDWI WRKKENGMPM DIVNTSGRFF IINKENYTEL 310 320 330 340 350 360 NIVNLQITED PGEYECNATN AIGSASVVTV LRVRSHLAPL WPFLGILAEI IILVVIIVVY 370 380 390 EKRKRPDEVP DAGPMKTNST NNHKDKNLRQ RNTN

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isoform specific expression of the SDR-1 protein, alpha and beta in subregions of adult rodent brain." Lopez N.D., Kinoshita A., Taniwaki M., Tada H., Shirozu M., Nakano T., Tashiro K., Honjo T. Biomed. Res. 20:43-49(1999) Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1; 2 AND 3), TISSUE SPECIFICITY.
[2]	"Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S. Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 5). Tissue: Brain and Stomach.
[3]	Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S., Ohara O., Nagase T., Kikuno R.F. Submitted (MAR-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4). Tissue: Brain.
[4]	Mural R.J., Istrail S., Sutton G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C. Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"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] (ISOFORMS 1 AND 3). Tissue: Brain and Skin.
[6]	"Signal peptide prediction based on analysis of experimentally verified cleavage sites." Zhang Z., Henzel W.J. Protein Sci. 13:2819-2824(2004) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 29-43 (ISOFORM 1).
[7]	"The immunolocalization of the synaptic glycoprotein neuroplastin differs substantially between the human and the rodent brain." Bernstein H.G., Smalla K.H., Bogerts B., Gordon-Weeks P.R., Beesley P.W., Gundelfinger E.D., Kreutz M.R. Brain Res. 1134:107-112(2007) [PubMed] [Europe PMC] [Abstract] Cited for: TISSUE SPECIFICITY.
[8]	"Glycoproteomics analysis of human liver tissue by combination of multiple enzyme digestion and hydrazide chemistry." Chen R., Jiang X., Sun D., Han G., Wang F., Ye M., Wang L., Zou H. J. Proteome Res. 8:651-661(2009) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-284 AND ASN-296, MASS SPECTROMETRY. Tissue: Liver.
[9]	"Mass-spectrometric identification and relative quantification of N-linked cell surface glycoproteins." Wollscheid B., Bausch-Fluck D., Henderson C., O'Brien R., Bibel M., Schiess R., Aebersold R., Watts J.D. Nat. Biotechnol. 27:378-386(2009) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-229, MASS SPECTROMETRY. Tissue: Leukemic T-cell.
[10]	"Initial characterization of the human central proteome." Burkard T.R., Planyavsky M., Kaupe I., Breitwieser F.P., Buerckstuemmer T., Bennett K.L., Superti-Furga G., Colinge J. BMC Syst. Biol. 5:17-17(2011) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF109126 mRNA. Translation: AAD43217.1. AF109127 mRNA. Translation: AAD43218.1. AK297184 mRNA. Translation: BAH12519.1. AK314248 mRNA. Translation: BAG36914.1. AB209812 mRNA. Translation: BAD93049.1. Different initiation. CH471082 Genomic DNA. Translation: EAW77931.1. BC105979 mRNA. Translation: AAI05980.1. BC117462 mRNA. Translation: AAI17463.1. BC143880 mRNA. Translation: AAI43881.1. BC143881 mRNA. Translation: AAI43882.1.
IPI	IPI00011578. IPI00018311. IPI00654584. IPI00657724. IPI00964352.
PIR	T17219.
RefSeq	NP_001154835.1. NM_001161363.1. NP_001154836.1. NM_001161364.1. NP_036560.1. NM_012428.3. NP_059429.1. NM_017455.3.
UniGene	Hs.704983.
3D structure databases
ProteinModelPortal	Q9Y639.
SMR	Q9Y639. Positions 31-335.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9Y639. 1 interaction.
STRING	9606.ENSP00000290401.
PTM databases
PhosphoSite	Q9Y639.
Polymorphism databases
DMDM	298286871.
Proteomic databases
PaxDb	Q9Y639.
PRIDE	Q9Y639.
Protocols and materials databases
DNASU	27020.
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENST00000345330; ENSP00000290401; ENSG00000156642. ENST00000351217; ENSP00000342958; ENSG00000156642. ENST00000562924; ENSP00000456349; ENSG00000156642. ENST00000563691; ENSP00000457028; ENSG00000156642.
GeneID	27020.
KEGG	hsa:27020.
UCSC	uc002avr.3. human. uc002avs.3. human. uc010bjc.3. human.
Organism-specific databases
CTD	27020.
GeneCards	GC15M073852.
HGNC	HGNC:17867. NPTN.
HPA	HPA051497.
MIM	612820. gene.
neXtProt	NX_Q9Y639.
PharmGKB	PA134927704.
GenAtlas	Search...
Phylogenomic databases
eggNOG	NOG149118.
HOVERGEN	HBG008120.
OMA	KQLWDGA.
OrthoDB	EOG4W0XD9.
Gene expression databases
ArrayExpress	Q9Y639.
Bgee	Q9Y639.
CleanEx	HS_NPTN.
Genevestigator	Q9Y639.
GermOnline	ENSG00000156642. Homo sapiens.
Family and domain databases
Gene3D	2.60.40.10. 3 hits.
InterPro	IPR007110. Ig-like_dom. IPR013783. Ig-like_fold. IPR013098. Ig_I-set. IPR003599. Ig_sub. IPR003598. Ig_sub2. IPR027112. Neuroplastin. [Graphical view]
PANTHER	PTHR10075:SF5. PTHR10075:SF5. 1 hit.
Pfam	PF07679. I-set. 2 hits. [Graphical view]
SMART	SM00409. IG. 1 hit. SM00408. IGc2. 2 hits. [Graphical view]
PROSITE	PS50835. IG_LIKE. 3 hits. [Graphical view]
ProtoNet	Search...
Other
ChiTaRS	NPTN. human.
GenomeRNAi	27020.
NextBio	49544.
SOURCE	Search...

Entry information

Entry name

NPTN_HUMAN

Accession

Primary (citable) accession number: Q9Y639
Secondary accession number(s): B2RAL7 , B7Z4D3, B7ZLL2, Q17R52, Q59EJ9, Q6NVX7, Q9Y640

Entry history

Integrated into UniProtKB/Swiss-Prot:	January 10, 2006
Last sequence update:	June 15, 2010
Last modified:	May 1, 2013
This is version 101 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

Disclaimer

Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.