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Protein

Neuropilin-1

Gene

Nrp1

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

Functioni

Receptor involved in the development of the cardiovascular system, in angiogenesis, in the formation of certain neuronal circuits and in organogenesis outside the nervous system. It mediates the chemorepulsant activity of semaphorins. It binds to semaphorin 3A, the PLGF-2 isoform of PGF, the VEGF-165 isoform of VEGF and VEGF-B. Coexpression with KDR results in increased VEGF-165 binding to KDR as well as increased chemotaxis. It may regulate VEGF-induced angiogenesis (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi195CalciumBy similarity1
Metal bindingi209CalciumBy similarity1
Metal bindingi250CalciumBy similarity1

GO - Molecular functioni

  • heparin binding Source: UniProtKB-KW
  • metal ion binding Source: UniProtKB-KW
  • semaphorin receptor activity Source: RGD
  • vascular endothelial growth factor-activated receptor activity Source: RGD

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Developmental protein, Receptor

Keywords - Biological processi

Angiogenesis, Differentiation, Neurogenesis

Keywords - Ligandi

Calcium, Heparin-binding, Metal-binding

Enzyme and pathway databases

ReactomeiR-RNO-194306. Neurophilin interactions with VEGF and VEGFR.
R-RNO-399954. Sema3A PAK dependent Axon repulsion.
R-RNO-399955. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
R-RNO-399956. CRMPs in Sema3A signaling.
R-RNO-445144. Signal transduction by L1.

Names & Taxonomyi

Protein namesi
Recommended name:
Neuropilin-1
Alternative name(s):
Vascular endothelial cell growth factor 165 receptor
CD_antigen: CD304
Gene namesi
Name:Nrp1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 19

Organism-specific databases

RGDi621588. Nrp1.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini22 – 855ExtracellularSequence analysisAdd BLAST834
Transmembranei856 – 880HelicalSequence analysisAdd BLAST25
Topological domaini881 – 922CytoplasmicSequence analysisAdd BLAST42

GO - Cellular componenti

  • axon Source: RGD
  • cell surface Source: RGD
  • cytosol Source: Ensembl
  • early endosome Source: Ensembl
  • extracellular space Source: Ensembl
  • focal adhesion Source: Ensembl
  • growth cone Source: RGD
  • integral component of membrane Source: RGD
  • neurofilament Source: Ensembl
  • neuronal cell body Source: RGD
  • plasma membrane Source: Ensembl
  • sorting endosome Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Chemistry databases

ChEMBLiCHEMBL3309098.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 21Sequence analysisAdd BLAST21
ChainiPRO_000002186122 – 922Neuropilin-1Add BLAST901

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi27 ↔ 541 Publication
Disulfide bondi82 ↔ 1041 Publication
Disulfide bondi147 ↔ 173By similarity
Glycosylationi150N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi206 ↔ 228By similarity
Glycosylationi261N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi275 ↔ 4241 Publication
Glycosylationi300N-linked (GlcNAc...)Sequence analysis1
Disulfide bondi431 ↔ 5831 Publication
Glycosylationi522N-linked (GlcNAc...)Sequence analysis1
Glycosylationi612O-linked (Xyl...) (chondroitin sulfate); alternateBy similarity1
Glycosylationi612O-linked (Xyl...) (heparan sulfate); alternateBy similarity1
Glycosylationi841N-linked (GlcNAc...)Sequence analysis1
Modified residuei893PhosphoserineBy similarity1

Keywords - PTMi

Disulfide bond, Glycoprotein, Heparan sulfate, Phosphoprotein, Proteoglycan

Proteomic databases

PaxDbiQ9QWJ9.
PRIDEiQ9QWJ9.

PTM databases

iPTMnetiQ9QWJ9.
PhosphoSitePlusiQ9QWJ9.
SwissPalmiQ9QWJ9.

Expressioni

Tissue specificityi

Found in the embryonic nervous system.

Gene expression databases

BgeeiENSRNOG00000010744.
GenevisibleiQ9QWJ9. RN.

Interactioni

Subunit structurei

Homodimer, and heterodimer with NRP2. Binds PLXNB1. Interacts with FER (By similarity).By similarity

Protein-protein interaction databases

BioGridi251596. 1 interactor.
DIPiDIP-44935N.
IntActiQ9QWJ9. 1 interactor.
MINTiMINT-1542085.
STRINGi10116.ENSRNOP00000014492.

Chemistry databases

BindingDBiQ9QWJ9.

Structurei

Secondary structure

1922
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Turni281 – 283Combined sources3
Helixi288 – 290Combined sources3
Beta strandi291 – 294Combined sources4
Helixi299 – 301Combined sources3
Helixi303 – 305Combined sources3
Beta strandi326 – 342Combined sources17
Turni347 – 349Combined sources3
Beta strandi352 – 368Combined sources17
Beta strandi385 – 389Combined sources5
Beta strandi391 – 414Combined sources24
Beta strandi417 – 424Combined sources8
Helixi426 – 428Combined sources3
Beta strandi429 – 431Combined sources3
Beta strandi432 – 434Combined sources3
Turni437 – 439Combined sources3
Helixi442 – 444Combined sources3
Beta strandi445 – 449Combined sources5
Helixi459 – 462Combined sources4
Turni464 – 466Combined sources3
Beta strandi467 – 469Combined sources3
Beta strandi471 – 473Combined sources3
Beta strandi485 – 501Combined sources17
Beta strandi503 – 505Combined sources3
Beta strandi508 – 510Combined sources3
Beta strandi512 – 525Combined sources14
Beta strandi534 – 537Combined sources4
Beta strandi544 – 547Combined sources4
Beta strandi550 – 570Combined sources21
Beta strandi573 – 583Combined sources11

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ORXX-ray2.40A273-586[»]
2ORZX-ray2.15A273-586[»]
ProteinModelPortaliQ9QWJ9.
SMRiQ9QWJ9.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9QWJ9.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini27 – 141CUB 1PROSITE-ProRule annotationAdd BLAST115
Domaini147 – 265CUB 2PROSITE-ProRule annotationAdd BLAST119
Domaini275 – 424F5/8 type C 1PROSITE-ProRule annotationAdd BLAST150
Domaini431 – 583F5/8 type C 2PROSITE-ProRule annotationAdd BLAST153
Domaini645 – 811MAMPROSITE-ProRule annotationAdd BLAST167

Domaini

The tandem CUB domains mediate binding to semaphorin, while the tandem F5/8 domains are responsible for heparin and VEGF binding.By similarity

Sequence similaritiesi

Belongs to the neuropilin family.Curated
Contains 2 CUB domains.PROSITE-ProRule annotation
Contains 2 F5/8 type C domains.PROSITE-ProRule annotation
Contains 1 MAM domain.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IE8T. Eukaryota.
ENOG410YRBE. LUCA.
GeneTreeiENSGT00760000119073.
HOGENOMiHOG000039978.
HOVERGENiHBG000502.
InParanoidiQ9QWJ9.
KOiK06724.
OMAiYCACWHN.
PhylomeDBiQ9QWJ9.
TreeFamiTF316506.

Family and domain databases

CDDicd00041. CUB. 2 hits.
cd06263. MAM. 1 hit.
Gene3Di2.60.120.260. 2 hits.
2.60.120.290. 2 hits.
InterProiIPR013320. ConA-like_dom.
IPR000859. CUB_dom.
IPR000421. FA58C.
IPR008979. Galactose-bd-like.
IPR000998. MAM_dom.
IPR014648. Neuropilin.
IPR022579. Neuropilin_C.
IPR027146. NRP1.
[Graphical view]
PANTHERiPTHR10127:SF654. PTHR10127:SF654. 1 hit.
PfamiPF00431. CUB. 2 hits.
PF11980. DUF3481. 1 hit.
PF00754. F5_F8_type_C. 2 hits.
PF00629. MAM. 1 hit.
[Graphical view]
PIRSFiPIRSF036960. Neuropilin. 1 hit.
PRINTSiPR00020. MAMDOMAIN.
SMARTiSM00042. CUB. 2 hits.
SM00231. FA58C. 2 hits.
SM00137. MAM. 1 hit.
[Graphical view]
SUPFAMiSSF49785. SSF49785. 2 hits.
SSF49854. SSF49854. 2 hits.
SSF49899. SSF49899. 1 hit.
PROSITEiPS01180. CUB. 2 hits.
PS01285. FA58C_1. 2 hits.
PS01286. FA58C_2. 2 hits.
PS50022. FA58C_3. 2 hits.
PS00740. MAM_1. 1 hit.
PS50060. MAM_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q9QWJ9-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MERGLPLLCA TLALALALAG AFRSDKCGGT IKIENPGYLT SPGYPHSYHP
60 70 80 90 100
SEKCEWLIQA PEPYQRIMIN FNPHFDLEDR DCKYDYVEVI DGENEGGRLW
110 120 130 140 150
GKFCGKIAPS PVVSSGPFLF IKFVSDYETH GAGFSIRYEI FKRGPECSQN
160 170 180 190 200
YTAPTGVIKS PGFPEKYPNS LECTYIIFAP KMSEIILEFE SFDLEQDSNP
210 220 230 240 250
PGGVFCRYDR LEIWDGFPEV GPHIGRYCGQ KTPGRIRSSS GILSMVFYTD
260 270 280 290 300
SAIAKEGFSA NYSVLQSSIS EDFKCMEALG MESGEIHSDQ ITASSQYGTN
310 320 330 340 350
WSVERSRLNY PENGWTPGED SYREWIQVDL GLLRFVTAVG TQGAISKETK
360 370 380 390 400
KKYYVKTYRV DISSNGEDWI TLKEGNKAII FQGNTNPTDV VFGVFPKPLI
410 420 430 440 450
TRFVRIKPAS WETGISMRFE VYGCKITDYP CSGMLGMVSG LISDSQITAS
460 470 480 490 500
NQGDRNWMPE NIRLVTSRTG WALPPSPHPY INEWLQVDLG DEKIVRGVII
510 520 530 540 550
QGGKHRENKV FMRKFKIAYS NNGSDWKMIM DDSKRKAKSF EGNNNYDTPE
560 570 580 590 600
LRAFTPLSTR FIRIYPERAT HSGLGLRMEL LGCEVEVPTA GPTTPNGNPV
610 620 630 640 650
DECDDDQANC HSGTGDDFQL TGGTTVLATE KPTIIDSTIQ SEFPTYGFNC
660 670 680 690 700
EFGWGSHKTF CHWEHDSHAQ LRWRVLTSKT GPIQDHTGDG NFIYSQADEN
710 720 730 740 750
QKGKVARLVS PVVYSQSSAH CMTFWYHMSG SHVGTLRVKL HYQKPEEYDQ
760 770 780 790 800
LVWMVVGHQG DHWKEGRVLL HKSLKLYQVI FEGEIGKGNL GGIAVDDISI
810 820 830 840 850
NNHIPQEDCA KPTDLDKKNT EIKIDETGST PGYEEGKGDK NISRKPGNVL
860 870 880 890 900
KTLDPILITI IAMSALGVLL GAVCGVVLYC ACWHNGMSER NLSALENYNF
910 920
ELVDGVKLKK DKLNPQSNYS EA
Length:922
Mass (Da):103,082
Last modified:May 1, 2000 - v1
Checksum:iCC6F82AD098B0F2E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF016296 mRNA. Translation: AAC53337.1.
BC085689 mRNA. Translation: AAH85689.1.
RefSeqiNP_659566.1. NM_145098.2.
XP_006255887.1. XM_006255825.3.
UniGeneiRn.10815.
Rn.165344.

Genome annotation databases

EnsembliENSRNOT00000014492; ENSRNOP00000014492; ENSRNOG00000010744.
ENSRNOT00000080465; ENSRNOP00000075034; ENSRNOG00000010744.
GeneIDi246331.
KEGGirno:246331.
UCSCiRGD:621588. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF016296 mRNA. Translation: AAC53337.1.
BC085689 mRNA. Translation: AAH85689.1.
RefSeqiNP_659566.1. NM_145098.2.
XP_006255887.1. XM_006255825.3.
UniGeneiRn.10815.
Rn.165344.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ORXX-ray2.40A273-586[»]
2ORZX-ray2.15A273-586[»]
ProteinModelPortaliQ9QWJ9.
SMRiQ9QWJ9.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi251596. 1 interactor.
DIPiDIP-44935N.
IntActiQ9QWJ9. 1 interactor.
MINTiMINT-1542085.
STRINGi10116.ENSRNOP00000014492.

Chemistry databases

BindingDBiQ9QWJ9.
ChEMBLiCHEMBL3309098.

PTM databases

iPTMnetiQ9QWJ9.
PhosphoSitePlusiQ9QWJ9.
SwissPalmiQ9QWJ9.

Proteomic databases

PaxDbiQ9QWJ9.
PRIDEiQ9QWJ9.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000014492; ENSRNOP00000014492; ENSRNOG00000010744.
ENSRNOT00000080465; ENSRNOP00000075034; ENSRNOG00000010744.
GeneIDi246331.
KEGGirno:246331.
UCSCiRGD:621588. rat.

Organism-specific databases

CTDi8829.
RGDi621588. Nrp1.

Phylogenomic databases

eggNOGiENOG410IE8T. Eukaryota.
ENOG410YRBE. LUCA.
GeneTreeiENSGT00760000119073.
HOGENOMiHOG000039978.
HOVERGENiHBG000502.
InParanoidiQ9QWJ9.
KOiK06724.
OMAiYCACWHN.
PhylomeDBiQ9QWJ9.
TreeFamiTF316506.

Enzyme and pathway databases

ReactomeiR-RNO-194306. Neurophilin interactions with VEGF and VEGFR.
R-RNO-399954. Sema3A PAK dependent Axon repulsion.
R-RNO-399955. SEMA3A-Plexin repulsion signaling by inhibiting Integrin adhesion.
R-RNO-399956. CRMPs in Sema3A signaling.
R-RNO-445144. Signal transduction by L1.

Miscellaneous databases

EvolutionaryTraceiQ9QWJ9.
PROiQ9QWJ9.

Gene expression databases

BgeeiENSRNOG00000010744.
GenevisibleiQ9QWJ9. RN.

Family and domain databases

CDDicd00041. CUB. 2 hits.
cd06263. MAM. 1 hit.
Gene3Di2.60.120.260. 2 hits.
2.60.120.290. 2 hits.
InterProiIPR013320. ConA-like_dom.
IPR000859. CUB_dom.
IPR000421. FA58C.
IPR008979. Galactose-bd-like.
IPR000998. MAM_dom.
IPR014648. Neuropilin.
IPR022579. Neuropilin_C.
IPR027146. NRP1.
[Graphical view]
PANTHERiPTHR10127:SF654. PTHR10127:SF654. 1 hit.
PfamiPF00431. CUB. 2 hits.
PF11980. DUF3481. 1 hit.
PF00754. F5_F8_type_C. 2 hits.
PF00629. MAM. 1 hit.
[Graphical view]
PIRSFiPIRSF036960. Neuropilin. 1 hit.
PRINTSiPR00020. MAMDOMAIN.
SMARTiSM00042. CUB. 2 hits.
SM00231. FA58C. 2 hits.
SM00137. MAM. 1 hit.
[Graphical view]
SUPFAMiSSF49785. SSF49785. 2 hits.
SSF49854. SSF49854. 2 hits.
SSF49899. SSF49899. 1 hit.
PROSITEiPS01180. CUB. 2 hits.
PS01285. FA58C_1. 2 hits.
PS01286. FA58C_2. 2 hits.
PS50022. FA58C_3. 2 hits.
PS00740. MAM_1. 1 hit.
PS50060. MAM_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiNRP1_RAT
AccessioniPrimary (citable) accession number: Q9QWJ9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 2000
Last modified: November 30, 2016
This is version 143 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

3D-structure, Complete proteome, 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.