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P58400

- NRX1B_HUMAN

UniProt

P58400 - NRX1B_HUMAN

Protein

Neurexin-1-beta

Gene

NRXN1

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 116 (01 Oct 2014)
      Sequence version 2 (08 Feb 2011)
      Previous versions | rss
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    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 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. adult behavior Source: BHF-UCL
    2. angiogenesis Source: UniProtKB
    3. calcium-dependent cell-cell adhesion Source: BHF-UCL
    4. cerebellar granule cell differentiation Source: BHF-UCL
    5. establishment of protein localization Source: BHF-UCL
    6. gamma-aminobutyric acid receptor clustering Source: BHF-UCL
    7. gephyrin clustering Source: BHF-UCL
    8. guanylate kinase-associated protein clustering Source: BHF-UCL
    9. heterophilic cell-cell adhesion Source: BHF-UCL
    10. learning Source: BHF-UCL
    11. negative regulation of filopodium assembly Source: BHF-UCL
    12. neuroligin clustering Source: BHF-UCL
    13. neuronal signal transduction Source: BHF-UCL
    14. neuron cell-cell adhesion Source: BHF-UCL
    15. neurotransmitter secretion Source: BHF-UCL
    16. N-methyl-D-aspartate receptor clustering 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 alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity Source: BHF-UCL
    27. regulation of N-methyl-D-aspartate 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

    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

    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

    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 – 5050By similarityAdd
    BLAST
    Chaini51 – 442392Neurexin-1-betaPRO_0000019493Add
    BLAST

    Amino acid modifications

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

    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.By similarity

    Protein-protein interaction databases

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

    Structurei

    Secondary structure

    1
    442
    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.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP58400.

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini51 – 363313ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini387 – 44256CytoplasmicSequence AnalysisAdd
    BLAST

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei364 – 38623HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini91 – 259169Laminin G-likePROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

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

    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.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti20 – 201G → R in AF064842. (PubMed:9921901)Curated
    Sequence conflicti46 – 461G → R in AF064842. (PubMed:9921901)Curated
    Sequence conflicti158 – 1581V → I in AF064842. (PubMed:9921901)Curated
    Sequence conflicti258 – 2581N → D in AF064842. (PubMed:9921901)Curated
    Sequence conflicti314 – 3141D → G in AF064842. (PubMed:9921901)Curated
    Sequence conflicti385 – 3851Y → C in AF064842. (PubMed:9921901)Curated
    Sequence conflicti388 – 3903YKY → NKC in AF064842. (PubMed:9921901)Curated

    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

    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: October 1, 2014
    This is version 116 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