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P58400

- NRX1B_HUMAN

UniProt

P58400 - NRX1B_HUMAN

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Protein
Neurexin-1-beta
Gene
NRXN1
Organism
Homo sapiens (Human)
Status
Reviewed - 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.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi141 – 1411Calcium
Metal bindingi158 – 1581Calcium; via carbonyl oxygen
Metal bindingi210 – 2101Calcium; via carbonyl oxygen
Metal bindingi212 – 2121Calcium

GO - Molecular functioni

  1. calcium channel regulator activity Source: BHF-UCL
  2. calcium-dependent protein binding Source: BHF-UCL
  3. cell adhesion molecule binding Source: BHF-UCL
  4. metal ion binding Source: UniProtKB-KW
  5. neuroligin family protein binding Source: BHF-UCL
  6. receptor binding Source: BHF-UCL

GO - Biological processi

  1. N-methyl-D-aspartate receptor clustering Source: BHF-UCL
  2. adult behavior Source: BHF-UCL
  3. angiogenesis Source: UniProtKB
  4. calcium-dependent cell-cell adhesion Source: BHF-UCL
  5. cerebellar granule cell differentiation Source: BHF-UCL
  6. establishment of protein localization Source: BHF-UCL
  7. gamma-aminobutyric acid receptor clustering Source: BHF-UCL
  8. gephyrin clustering Source: BHF-UCL
  9. guanylate kinase-associated protein clustering Source: BHF-UCL
  10. heterophilic cell-cell adhesion Source: BHF-UCL
  11. learning Source: BHF-UCL
  12. negative regulation of filopodium assembly Source: BHF-UCL
  13. neuroligin clustering Source: BHF-UCL
  14. neuron cell-cell adhesion Source: BHF-UCL
  15. neuronal signal transduction Source: BHF-UCL
  16. neurotransmitter secretion Source: BHF-UCL
  17. positive regulation of establishment of protein localization to plasma membrane Source: BHF-UCL
  18. positive regulation of excitatory postsynaptic membrane potential Source: BHF-UCL
  19. positive regulation of synapse maturation Source: BHF-UCL
  20. positive regulation of synaptic transmission, glutamatergic Source: BHF-UCL
  21. postsynaptic density protein 95 clustering Source: BHF-UCL
  22. postsynaptic membrane assembly Source: BHF-UCL
  23. presynaptic membrane assembly Source: BHF-UCL
  24. protein localization to synapse Source: BHF-UCL
  25. receptor localization to synapse Source: BHF-UCL
  26. regulation of N-methyl-D-aspartate selective glutamate receptor activity Source: BHF-UCL
  27. regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity Source: BHF-UCL
  28. social behavior Source: BHF-UCL
  29. synapse assembly Source: BHF-UCL
  30. synaptic transmission Source: BHF-UCL
  31. synaptic vesicle clustering Source: BHF-UCL
  32. vocalization behavior Source: BHF-UCL
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
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 2

Organism-specific databases

HGNCiHGNC:8008. NRXN1.

Subcellular locationi

Cell membrane; Single-pass type I membrane protein. Cell junctionsynapse
Note: Localized on the pre-synaptic membrane By similarity.

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini51 – 363313Extracellular Reviewed prediction
Add
BLAST
Transmembranei364 – 38623Helical; Reviewed prediction
Add
BLAST
Topological domaini387 – 44256Cytoplasmic Reviewed prediction
Add
BLAST

GO - Cellular componenti

  1. axonal growth cone Source: BHF-UCL
  2. cell junction Source: UniProtKB-KW
  3. cell surface Source: BHF-UCL
  4. endocytic vesicle Source: BHF-UCL
  5. integral component of membrane Source: UniProtKB-KW
  6. plasma membrane Source: BHF-UCL
  7. presynaptic membrane Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Synapse

Pathology & Biotechi

Organism-specific databases

Orphaneti106. Autism.
221150. Pitt-Hopkins-like syndrome.
3140. Schizophrenia.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 5050 By similarity
Add
BLAST
Chaini51 – 442392Neurexin-1-beta
PRO_0000019493Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi188 – 1881N-linked (GlcNAc...) Reviewed prediction

Post-translational modificationi

Highly O-glycosylated and minor N-glycosylated By similarity.

Keywords - PTMi

Glycoprotein

Proteomic databases

PRIDEiP58400.

Expressioni

Gene expression databases

ArrayExpressiP58400.
BgeeiP58400.
CleanExiHS_NRXN1.
GenevestigatoriP58400.

Interactioni

Subunit structurei

The cytoplasmic C-terminal region binds to CASK. Isoforms Beta 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 By similarity. Interacts with CBLN1, CBLN2 and more weakly with CBLN4. CBLN1-binding is calcium-independent By similarity.

Protein-protein interaction databases

BioGridi114779. 11 interactions.
DIPiDIP-46402N.
STRINGi9606.ENSP00000385142.

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi91 – 10313
Beta strandi112 – 12312
Beta strandi126 – 13510
Beta strandi142 – 1487
Beta strandi151 – 16010
Beta strandi163 – 1664
Beta strandi174 – 1763
Beta strandi178 – 1858
Beta strandi188 – 1969
Beta strandi199 – 2013
Beta strandi214 – 2207
Turni222 – 2254
Beta strandi230 – 2378
Helixi242 – 2465
Turni247 – 2493
Beta strandi253 – 2608

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3B3QX-ray2.40E/F85-266[»]
ProteinModelPortaliP58400.
SMRiP58400. Positions 88-263.

Miscellaneous databases

EvolutionaryTraceiP58400.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini91 – 259169Laminin G-like
Add
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi289 – 2924Poly-Thr
Compositional biasi374 – 3774Poly-Ala

Sequence similaritiesi

Belongs to the neurexin family.

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

HOGENOMiHOG000230482.
HOVERGENiHBG052670.
KOiK07377.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
InterProiIPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR001791. Laminin_G.
IPR003585. Neurexin-like.
IPR027789. Syndecan/Neurexin_dom.
[Graphical view]
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. 1 hit.
PROSITEiPS50025. LAM_G_DOMAIN. 1 hit.
[Graphical view]

Sequences (4)i

Sequence statusi: Complete.

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

This entry describes 4 isoformsi produced by alternative promoter usage and alternative splicing. Align

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.

Isoform 1b (identifier: P58400-1) [UniParc]FASTAAdd to Basket

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

MYQRMLRCGA ELGSPGGGGG GGGGGGAGGR LALLWIVPLT LSGLLGVAWG    50
ASSLGAHHIH HFHGSSKHHS VPIAIYRSPA SLRGGHAGTT YIFSKGGGQI 100
TYKWPPNDRP STRADRLAIG FSTVQKEAVL VRVDSSSGLG DYLELHIHQG 150
KIGVKFNVGT DDIAIEESNA IINDGKYHVV RFTRSGGNAT LQVDSWPVIE 200
RYPAGRQLTI FNSQATIIIG GKEQGQPFQG QLSGLYYNGL KVLNMAAEND 250
ANIAIVGNVR LVGEVPSSMT TESTATAMQS EMSTSIMETT TTLATSTARR 300
GKPPTKEPIS QTTDDILVAS AECPSDDEDI DPCEPSSGGL ANPTRAGGRE 350
PYPGSAEVIR ESSSTTGMVV GIVAAAALCI LILLYAMYKY RNRDEGSYHV 400
DESRNYISNS AQSNGAVVKE KQPSSAKSSN KNKKNKDKEY YV 442
Length:442
Mass (Da):46,861
Last modified:February 8, 2011 - v2
Checksum:i49A8DA1E2DEDA804
GO
Isoform 1a (identifier: Q9ULB1-1) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q9ULB1.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.
Length:1,477
Mass (Da):161,883
GO
Isoform 2a (identifier: Q9ULB1-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q9ULB1.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by alternative splicing. No experimental confirmation available.

Length:1,499
Mass (Da):164,655
GO
Isoform 3a (identifier: Q9ULB1-3) [UniParc]FASTAAdd to Basket

The sequence of this isoform can be found in the external entry Q9ULB1.
Isoforms of the same protein are often annotated in two different entries if their sequences differ significantly.

Note: Produced by alternative splicing.

Length:1,547
Mass (Da):169,913
GO

Sequence cautioni

The sequence AF064842 differs from that shown. Reason: Frameshift at position 54.

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti20 – 201G → R in AF064842. 1 Publication
Sequence conflicti46 – 461G → R in AF064842. 1 Publication
Sequence conflicti158 – 1581V → I in AF064842. 1 Publication
Sequence conflicti258 – 2581N → D in AF064842. 1 Publication
Sequence conflicti314 – 3141D → G in AF064842. 1 Publication
Sequence conflicti385 – 3851Y → C in AF064842. 1 Publication
Sequence conflicti388 – 3903YKY → NKC in AF064842. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF064842 mRNA. No translation available.
AC068725 Genomic DNA. No translation available.
AC069550 Genomic DNA. No translation available.
AC078994 Genomic DNA. No translation available.
CCDSiCCDS1845.1. [P58400-1]
RefSeqiNP_620072.1. NM_138735.2. [P58400-1]
UniGeneiHs.637685.

Genome annotation databases

EnsembliENST00000342183; ENSP00000341184; ENSG00000179915. [P58400-1]
GeneIDi9378.
KEGGihsa:9378.
UCSCiuc010fbp.3. human. [P58400-1]

Polymorphism databases

DMDMi322510054.

Keywords - Coding sequence diversityi

Alternative promoter usage, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF064842 mRNA. No translation available.
AC068725 Genomic DNA. No translation available.
AC069550 Genomic DNA. No translation available.
AC078994 Genomic DNA. No translation available.
CCDSi CCDS1845.1. [P58400-1 ]
RefSeqi NP_620072.1. NM_138735.2. [P58400-1 ]
UniGenei Hs.637685.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3B3Q X-ray 2.40 E/F 85-266 [» ]
ProteinModelPortali P58400.
SMRi P58400. Positions 88-263.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 114779. 11 interactions.
DIPi DIP-46402N.
STRINGi 9606.ENSP00000385142.

Polymorphism databases

DMDMi 322510054.

Proteomic databases

PRIDEi P58400.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENST00000342183 ; ENSP00000341184 ; ENSG00000179915 . [P58400-1 ]
GeneIDi 9378.
KEGGi hsa:9378.
UCSCi uc010fbp.3. human. [P58400-1 ]

Organism-specific databases

CTDi 9378.
GeneCardsi GC02M050145.
HGNCi HGNC:8008. NRXN1.
MIMi 600565. gene.
neXtProti NX_P58400.
Orphaneti 106. Autism.
221150. Pitt-Hopkins-like syndrome.
3140. Schizophrenia.
GenAtlasi Search...

Phylogenomic databases

HOGENOMi HOG000230482.
HOVERGENi HBG052670.
KOi K07377.

Miscellaneous databases

ChiTaRSi NRXN1. human.
EvolutionaryTracei P58400.
GeneWikii NRXN1.
GenomeRNAii 9378.
NextBioi 35134.
PROi P58400.
SOURCEi Search...

Gene expression databases

ArrayExpressi P58400.
Bgeei P58400.
CleanExi HS_NRXN1.
Genevestigatori P58400.

Family and domain databases

Gene3Di 2.60.120.200. 1 hit.
InterProi IPR008985. ConA-like_lec_gl_sf.
IPR013320. ConA-like_subgrp.
IPR001791. Laminin_G.
IPR003585. Neurexin-like.
IPR027789. Syndecan/Neurexin_dom.
[Graphical view ]
Pfami PF02210. Laminin_G_2. 1 hit.
PF01034. Syndecan. 1 hit.
[Graphical view ]
SMARTi SM00294. 4.1m. 1 hit.
SM00282. LamG. 1 hit.
[Graphical view ]
SUPFAMi SSF49899. SSF49899. 1 hit.
PROSITEi PS50025. LAM_G_DOMAIN. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1B).
    Tissue: Brain.
  2. "Generation and annotation of the DNA sequences of human chromosomes 2 and 4."
    Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H.
    , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K.
    Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "Structural basis for synaptic adhesion mediated by neuroligin-neurexin interactions."
    Chen X., Liu H., Shim A.H., Focia P.J., He X.
    Nat. Struct. Mol. Biol. 15:50-56(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS) OF 85-266 IN COMPLEX WITH MOUSE NLRG1, CALCIUM-BINDING SITES.

Entry informationi

Entry nameiNRX1B_HUMAN
AccessioniPrimary (citable) accession number: P58400
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: February 8, 2011
Last modified: July 9, 2014
This is version 115 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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