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Protein

Neurexin-1-beta

Gene

Nrxn1

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

Functioni

Neuronal cell surface protein that may be involved in cell recognition and cell adhesion by forming intracellular junctions through binding to neuroligins. May play a role in formation or maintenance of synaptic junctions. May mediate intracellular signaling. May play a role in angiogenesis (By similarity).By similarity1 Publication

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi137 – 1371Calcium
Metal bindingi154 – 1541Calcium; via carbonyl oxygen
Metal bindingi236 – 2361Calcium; via carbonyl oxygen
Metal bindingi238 – 2381Calcium

GO - Molecular functioni

  • calcium-dependent protein binding Source: BHF-UCL
  • calcium ion binding Source: RGD
  • cell adhesion molecule binding Source: BHF-UCL
  • neuroligin family protein binding Source: BHF-UCL
  • receptor binding Source: BHF-UCL
  • transmembrane signaling receptor activity Source: BHF-UCL

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Angiogenesis, Cell adhesion

Keywords - Ligandi

Calcium, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Neurexin-1-beta
Alternative name(s):
Neurexin I-beta
Gene namesi
Name:Nrxn1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi628659. Nrxn1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini47 – 391345ExtracellularSequence analysisAdd
BLAST
Transmembranei392 – 41423HelicalSequence analysisAdd
BLAST
Topological domaini415 – 46854CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • axonal growth cone Source: BHF-UCL
  • cell junction Source: UniProtKB-KW
  • cell surface Source: BHF-UCL
  • endocytic vesicle Source: BHF-UCL
  • endoplasmic reticulum Source: BHF-UCL
  • integral component of membrane Source: UniProtKB-KW
  • neuronal cell body Source: BHF-UCL
  • nuclear membrane Source: BHF-UCL
  • plasma membrane Source: RGD
  • presynaptic membrane Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Synapse

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 46461 PublicationAdd
BLAST
Chaini47 – 468422Neurexin-1-betaPRO_0000019494Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi184 – 1841N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

Highly O-glycosylated and minor N-glycosylated.1 Publication

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ63373.
PRIDEiQ63373.

Expressioni

Tissue specificityi

Brain.

Interactioni

Subunit structurei

The cytoplasmic C-terminal region binds to CASK. Isoforms 3b and 4b bind neuroligins NLGN1, NLGN2 and NLGN3, alpha-dystroglycan and alpha-latrotoxin. Binding to neuroligins is calcium-dependent, and the binding preference ranks as follow: NLGN1 > NLGN4 >> NLGN3 > NLGN2. Interacts with CBLN1, CBLN2 and more weakly with CBLN4. CBLN1-binding is calcium-independent (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
CASKO149363EBI-1780696,EBI-1215506From a different organism.
Nlgn1Q627655EBI-1780696,EBI-7281118
NLGN4XQ8N0W45EBI-1780696,EBI-2862707From a different organism.

GO - Molecular functioni

  • calcium-dependent protein binding Source: BHF-UCL
  • cell adhesion molecule binding Source: BHF-UCL
  • neuroligin family protein binding Source: BHF-UCL
  • receptor binding Source: BHF-UCL

Protein-protein interaction databases

DIPiDIP-40508N.
IntActiQ63373. 5 interactions.
MINTiMINT-1519111.
STRINGi10116.ENSRNOP00000066979.

Structurei

Secondary structure

1
468
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi84 – 9916Combined sources
Helixi102 – 1043Combined sources
Beta strandi108 – 11811Combined sources
Beta strandi122 – 13211Combined sources
Beta strandi138 – 1447Combined sources
Beta strandi147 – 15711Combined sources
Beta strandi159 – 1624Combined sources
Beta strandi170 – 1723Combined sources
Beta strandi174 – 1818Combined sources
Beta strandi184 – 1896Combined sources
Beta strandi195 – 1973Combined sources
Helixi218 – 23215Combined sources
Helixi233 – 2353Combined sources
Beta strandi240 – 2478Combined sources
Turni248 – 2514Combined sources
Beta strandi256 – 2638Combined sources
Helixi268 – 2736Combined sources
Beta strandi279 – 2879Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C4RX-ray2.60A/B/C/D/E/F/G/H81-292[»]
2R1BX-ray1.72A/B77-294[»]
2R1DX-ray2.60A/B/C/D/E/F/G/H/I/W48-302[»]
2WQZX-ray3.90C/D80-288[»]
2XB6X-ray2.60C/D80-288[»]
ProteinModelPortaliQ63373.
SMRiQ63373. Positions 80-294.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ63373.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini87 – 285199Laminin G-likePROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi315 – 3184Poly-Thr
Compositional biasi400 – 4034Poly-Ala

Sequence similaritiesi

Belongs to the neurexin family.Curated
Contains 1 laminin G-like domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3514. Eukaryota.
ENOG410XNU6. LUCA.
HOVERGENiHBG052670.
PhylomeDBiQ63373.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR013320. ConA-like_dom.
IPR001791. Laminin_G.
IPR029824. Neurexin-1.
IPR003585. Neurexin-like.
IPR027789. Syndecan/Neurexin_dom.
[Graphical view]
PANTHERiPTHR10127:SF565. PTHR10127:SF565. 2 hits.
PfamiPF02210. Laminin_G_2. 1 hit.
PF01034. Syndecan. 1 hit.
[Graphical view]
SMARTiSM00294. 4.1m. 1 hit.
SM00282. LamG. 1 hit.
[Graphical view]
SUPFAMiSSF49899. SSF49899. 2 hits.
PROSITEiPS50025. LAM_G_DOMAIN. 1 hit.
[Graphical view]

Sequences (17)i

Sequence statusi: Complete.

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

This entry describes 17 isoformsi produced by alternative promoter usage and alternative splicing. AlignAdd to basket

Note: A number of isoforms, alpha-type and beta-type are produced by alternative promoter usage. Beta-type isoforms differ from alpha-type isoforms in their N-terminus. There is a combination of two alternatively spliced domains at sites 4 and 5 which are shared with alpha isoforms and which seem to be used independently. Experimental confirmation may be lacking for some isoforms.

Isoform 1b (identifier: Q63373-1) [UniParc]FASTAAdd to basket

Also known as: Beta-4A5A

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
MYQRMLRCGA ELGSPGGGSS GGAGGRLALL WIVPLTLSGL LGVAWGASSL
60 70 80 90 100
GAHHIHHFHG SSKHHSVPIA IYRSPASLRG GHAGTTYIFS KGGGQITYKW
110 120 130 140 150
PPNDRPSTRA DRLAIGFSTV QKEAVLVRVD SSSGLGDYLE LHIHQGKIGV
160 170 180 190 200
KFNVGTDDIA IEESNAIIND GKYHVVRFTR SGGNATLQVD SWPVIERYPA
210 220 230 240 250
GNNDNERLAI ARQRIPYRLG RVVDEWLLDK GRQLTIFNSQ ATIIIGGKEQ
260 270 280 290 300
GQPFQGQLSG LYYNGLKVLN MAAENDANIA IVGNVRLVGE VPSSMTTEST
310 320 330 340 350
ATAMQSEMST SIMETTTTLA TSTARRGKPP TKEPISQTTD DILVASAECP
360 370 380 390 400
SDDEDIDPCE PSSGGLANPT RVGGREPYPG SAEVIRESSS TTGMVVGIVA
410 420 430 440 450
AAALCILILL YAMYKYRNRD EGSYHVDESR NYISNSAQSN GAVVKEKQPS
460
SAKSANKNKK NKDKEYYV
Length:468
Mass (Da):50,268
Last modified:November 1, 1996 - v1
Checksum:iB24A3CEFF5A2394E
GO
Isoform 2b (identifier: Q63373-2) [UniParc]FASTAAdd to basket

Also known as: Beta-4A5B

The sequence of this isoform differs from the canonical sequence as follows:
     363-468: Missing.

Show »
Length:362
Mass (Da):38,808
Checksum:i35003D4A15C4E4D1
GO
Isoform 3b (identifier: Q63373-3) [UniParc]FASTAAdd to basket

Also known as: Beta-4B5A

The sequence of this isoform differs from the canonical sequence as follows:
     201-230: Missing.

Show »
Length:438
Mass (Da):46,704
Checksum:i97B712B6C594042E
GO
Isoform 4b (identifier: Q63373-4) [UniParc]FASTAAdd to basket

Also known as: Beta-4B5B

The sequence of this isoform differs from the canonical sequence as follows:
     201-230: Missing.
     363-468: Missing.

Show »
Length:332
Mass (Da):35,245
Checksum:i5021E39F9A6B9CBB
GO
Isoform 1a (identifier: Q63372-2) [UniParc]FASTAAdd to basket

Also known as: Alpha-1A2A3A4A5A

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,530
Mass (Da):167,923
GO
Isoform 2a (identifier: Q63372-1) [UniParc]FASTAAdd to basket

Also known as: Alpha-1B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,514
Mass (Da):166,168
GO
Isoform 3a (identifier: Q63372-3) [UniParc]FASTAAdd to basket

Also known as: Alpha-1C

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,529
Mass (Da):167,793
GO
Isoform 4a (identifier: Q63372-4) [UniParc]FASTAAdd to basket

Also known as: Alpha-1D

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,526
Mass (Da):167,522
GO
Isoform 5a (identifier: Q63372-5) [UniParc]FASTAAdd to basket

Also known as: Alpha-1E

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,525
Mass (Da):167,393
GO
Isoform 6a (identifier: Q63372-6) [UniParc]FASTAAdd to basket

Also known as: Alpha-1F

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,520
Mass (Da):166,868
GO
Isoform 7a (identifier: Q63372-7) [UniParc]FASTAAdd to basket

Also known as: Alpha-1G

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,510
Mass (Da):165,767
GO
Isoform 8a (identifier: Q63372-8) [UniParc]FASTAAdd to basket

Also known as: Alpha-2B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,523
Mass (Da):167,141
GO
Isoform 9a (identifier: Q63372-9) [UniParc]FASTAAdd to basket

Also known as: Alpha-2C

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,515
Mass (Da):166,350
GO
Isoform 10a (identifier: Q63372-10) [UniParc]FASTAAdd to basket

Also known as: Alpha-3B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,521
Mass (Da):166,873
GO
Isoform 11a (identifier: Q63372-11) [UniParc]FASTAAdd to basket

Also known as: Alpha-4B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,500
Mass (Da):164,360
GO
Isoform 12a (identifier: Q63372-12) [UniParc]FASTAAdd to basket

Also known as: Alpha-5B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,528
Mass (Da):167,809
GO
Isoform 13a (identifier: Q63372-13) [UniParc]FASTAAdd to basket

Also known as: Alpha-1B2B

The sequence of this isoform can be found in the external entry Q63372.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,507
Mass (Da):165,386
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei201 – 23030Missing in isoform 3b and isoform 4b. CuratedVSP_003496Add
BLAST
Alternative sequencei363 – 468106Missing in isoform 2b and isoform 4b. CuratedVSP_003497Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M96375 mRNA. Translation: AAA41705.1.
PIRiB40228.
UniGeneiRn.54924.

Genome annotation databases

UCSCiRGD:628659. rat. [Q63373-1]

Keywords - Coding sequence diversityi

Alternative promoter usage, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M96375 mRNA. Translation: AAA41705.1.
PIRiB40228.
UniGeneiRn.54924.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1C4RX-ray2.60A/B/C/D/E/F/G/H81-292[»]
2R1BX-ray1.72A/B77-294[»]
2R1DX-ray2.60A/B/C/D/E/F/G/H/I/W48-302[»]
2WQZX-ray3.90C/D80-288[»]
2XB6X-ray2.60C/D80-288[»]
ProteinModelPortaliQ63373.
SMRiQ63373. Positions 80-294.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-40508N.
IntActiQ63373. 5 interactions.
MINTiMINT-1519111.
STRINGi10116.ENSRNOP00000066979.

Proteomic databases

PaxDbiQ63373.
PRIDEiQ63373.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

UCSCiRGD:628659. rat. [Q63373-1]

Organism-specific databases

RGDi628659. Nrxn1.

Phylogenomic databases

eggNOGiKOG3514. Eukaryota.
ENOG410XNU6. LUCA.
HOVERGENiHBG052670.
PhylomeDBiQ63373.

Miscellaneous databases

EvolutionaryTraceiQ63373.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR013320. ConA-like_dom.
IPR001791. Laminin_G.
IPR029824. Neurexin-1.
IPR003585. Neurexin-like.
IPR027789. Syndecan/Neurexin_dom.
[Graphical view]
PANTHERiPTHR10127:SF565. PTHR10127:SF565. 2 hits.
PfamiPF02210. Laminin_G_2. 1 hit.
PF01034. Syndecan. 1 hit.
[Graphical view]
SMARTiSM00294. 4.1m. 1 hit.
SM00282. LamG. 1 hit.
[Graphical view]
SUPFAMiSSF49899. SSF49899. 2 hits.
PROSITEiPS50025. LAM_G_DOMAIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Neurexins: synaptic cell surface proteins related to the alpha-latrotoxin receptor and laminin."
    Ushkaryov Y.A., Petrenko A.G., Geppert M., Suedhof T.C.
    Science 257:50-56(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], ALTERNATIVE SPLICING.
    Tissue: Brain.
  2. "Conserved domain structure of beta-neurexins. Unusual cleaved signal sequences in receptor-like neuronal cell-surface proteins."
    Ushkaryov Y.A., Hata Y., Ichtchenko K., Moomaw C., Afendis S., Slaughter C.A., Suedhof T.C.
    J. Biol. Chem. 269:11987-11992(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF N-TERMINUS, GLYCOSYLATION.
    Tissue: Brain.
  3. "Binding properties of neuroligin 1 and neurexin 1beta reveal function as heterophilic cell adhesion molecules."
    Nguyen T., Suedhof T.C.
    J. Biol. Chem. 272:26032-26039(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH NLGN1.
  4. "Structures, alternative splicing, and neurexin binding of multiple neuroligins."
    Ichtchenko K., Nguyen T., Suedhof T.C.
    J. Biol. Chem. 271:2676-2682(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH NLGN1; NLGN2 AND NLGN3.
  5. "CASK: a novel dlg/PSD95 homolog with an N-terminal calmodulin-dependent protein kinase domain identified by interaction with neurexins."
    Hata Y., Butz S., Suedhof T.C.
    J. Neurosci. 16:2488-2494(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH CASK.
  6. "Neurexins are functional alpha-latrotoxin receptors."
    Sugita S., Khvochtev M., Suedhof T.C.
    Neuron 22:489-496(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ALPHA-LATROTOXIN.
  7. "A stoichiometric complex of neurexins and dystroglycan in brain."
    Sugita S., Saito F., Tang J., Satz J., Campbell K., Suedhof T.C.
    J. Cell Biol. 154:435-445(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ALPHA-DYSTROGLYCAN.
  8. "Gene selection, alternative splicing, and post-translational processing regulate neuroligin selectivity for beta-neurexins."
    Comoletti D., Flynn R.E., Boucard A.A., Demeler B., Schirf V., Shi J., Jennings L.L., Newlin H.R., Sudhof T.C., Taylor P.
    Biochemistry 45:12816-12827(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBUNIT.
  9. "Neurexin Ibeta and neuroligin are localized on opposite membranes in mature central synapses."
    Berninghausen O., Rahman M.A., Silva J.P., Davletov B., Hopkins C., Ushkaryov Y.A.
    J. Neurochem. 103:1855-1863(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  10. "The structure of the ligand-binding domain of neurexin Ibeta: regulation of LNS domain function by alternative splicing."
    Rudenko G., Nguyen T., Chelliah Y., Suedhof T.C., Deisenhofer J.
    Cell 99:93-101(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.6 ANGSTROMS) OF 47-302.
  11. "Structural analysis of the synaptic protein neuroligin and its beta-neurexin complex: determinants for folding and cell adhesion."
    Fabrichny I.P., Leone P., Sulzenbacher G., Comoletti D., Miller M.T., Taylor P., Bourne Y., Marchot P.
    Neuron 56:979-991(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (3.9 ANGSTROMS) OF 80-288 IN COMPLEX WITH HUMAN NLGN4X, CALCIUM-BINDING SITES.

Entry informationi

Entry nameiNRX1B_RAT
AccessioniPrimary (citable) accession number: Q63373
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: November 1, 1996
Last modified: May 11, 2016
This is version 130 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, 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.