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(-) Description

Title :  ALPHA-NEUREXIN-1 ECTODOMAIN FRAGMENT; LNS5-EGF3-LNS6
 
Authors :  H. Tanaka, T. Nogi, N. Yasui, J. Takagi
Date :  13 Dec 10  (Deposition) - 13 Apr 11  (Release) - 01 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Beta-Sandwich, Cell Adhesion, Synapse Maturation, Neuroligin, N- Glycosylation, Membrane (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  H. Tanaka, T. Nogi, N. Yasui, K. Iwasaki, J. Takagi
Structural Basis For Variant-Specific Neuroligin-Binding By Alpha-Neurexin
Plos One V. 6 E1941 2011
PubMed-ID: 21552542  |  Reference-DOI: 10.1371/JOURNAL.PONE.0019411

(-) Compounds

Molecule 1 - NEUREXIN-1-ALPHA
    ChainsA
    EngineeredYES
    Expression SystemCRICETULUS GRISEUS
    Expression System CellCHO LEC 3.2.8.1
    Expression System Taxid10029
    Expression System VectorPCDNA3.1
    Expression System Vector TypeVECTOR
    FragmentUNP RESIDUES 923-1323
    GeneNRXN1
    Organism CommonBOVINE
    Organism ScientificBOS TAURUS
    Organism Taxid9913
    SynonymNEUREXIN I-ALPHA

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 2)

Asymmetric/Biological Unit (2, 2)
No.NameCountTypeFull Name
1CA1Ligand/IonCALCIUM ION
2NAG1Ligand/IonN-ACETYL-D-GLUCOSAMINE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:1139 , VAL A:1156 , ILE A:1208 , ASN A:1210 , HOH A:5072 , HOH A:5078BINDING SITE FOR RESIDUE CA A 2001
2AC2SOFTWARESER A:1183 , ASN A:1186 , TYR A:1200BINDING SITE FOR RESIDUE NAG A 4001

(-) SS Bonds  (4, 4)

Asymmetric/Biological Unit
No.Residues
1A:1015 -A:1043
2A:1050 -A:1061
3A:1055 -A:1070
4A:1072 -A:1082

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3ASI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3ASI)

(-) PROSITE Motifs  (2, 3)

Asymmetric/Biological Unit (2, 3)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1LAM_G_DOMAINPS50025 Laminin G domain profile.NRX1A_BOVIN30-217
299-496
503-695
741-914
928-1103
1149-1347
  2-
-
-
-
A:868-1043
A:1089-1257
2EGF_3PS50026 EGF-like domain profile.NRX1A_BOVIN219-256
699-736
1106-1143
  1-
-
A:1046-1083

(-) Exons   (0, 0)

(no "Exon" information available for 3ASI)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it)
Chain A from PDB  Type:PROTEIN  Length:395
 aligned with NRX1A_BOVIN | Q28146 from UniProtKB/Swiss-Prot  Length:1530

    Alignment length:425
                                   936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      1206      1216      1226      1236      1246      1256      1266      1276      1286      1296      1306      1316      1326      1336      1346     
         NRX1A_BOVIN    927 ADPVTFKTKSSYVALATLQAYTSMHLFFQFKTTSLDGLILYNSGDGNDFIVVELVKGYLHYVFDLGNGANLIKGSSNKPLNDNQWHNVMISRDTSNLHTVKIDTKITTQITAGARNLDLKSDLYIGGVAKETYKSLPKLVHAKEGFQGCLASVDLNGRLPDLISDALFCNGQIERGCEGPSTTCQEDSCSNQGVCLQQWDGISCDCSMTSFSGPLCNDPGTTYIFSKGGGQITYKWPPNDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELHIHQGKIGVKFNVGTDDIAIEESNAIINDGKYHVVRFTRSGGNATLQVDSWPVIERYPAGNNDNERLAIARQRIPYRLGRVVDEWLLDKGRQLTIFNSQATIIIGGKEQGQPFQGQLSGLYYNGLKVLNMAAENDANIAIVGNVRLVG 1351
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eee.....eeee........eeeeeeee.....eeeeeee.....eeeeeee..eeeeeee....eeeee............eeeeeee....eeeeee..eeeeee............eee...hhhhhhhh...........eeeeeee.............eee..eee..................eeee....eeee.....ee.....ee..eeeeeeeeeeeeee..........eeeeeeeee....eeeeeeeee......eeeeeee..eeeeeee.....eeee...........eeeeeeee..eeeeee.....eee....------------------------------........eeeeee..........eeeeeeee...hhhhhhhh....eeeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -LAM_G_DOMAIN  PDB: A:868-1043 UniProt: 928-1103                                                                                                                                 --EGF_3  PDB: A:1046-1083               -----LAM_G_DOMAIN  PDB: A:1089-1257 UniProt: 1149-1347                                                                                                                                                      ---- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3asi A  867 ADPVTFKTKSSYVALATLQAYTSMHLFFQFKTTSLDGLILYNSGDGNDFIVVELVKGYLHYVFDLGNGANLIKGSSNKPLNDNQWHNVMISRDTSNLHTVKIDTKITTQITAGARNLDLKSDLYIGGVAKETYKSLPKLVHAKEGFQGCLASVDLNGRLPDLISDALFCNGQIERGCEGPSTTCQEDSCSNQGVCLQQWDGFSCDCSMTSFSGPLCNDPGTTYIFSKGGGQITYKWPPNDRPSTRADRLAIGFSTVQKEAVLVRVDSSSGLGDYLELHIHQGKIGVKFNVGTDDIAIEESNAIINDGKYHVVRFTRSGGNATLQVDSWPVIERYPAG------------------------------RQLTIFNSQATIIIGGKEQGQPFQGQLSGLYYNGLKVLNMAAENDANIAIVGNVRLVG 1261
                                   876       886       896       906       916       926       936       946       956       966       976       986       996      1006      1016      1026      1036      1046      1056      1066      1076      1086      1096      1106      1116      1126      1136      1146      1156      1166      1176      1186      1196      |  -         -         -      1206      1216      1226      1236      1246      1256     
                                                                                                                                                                                                                                                                                                                                                                         1203                           1204                                                         

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 3ASI)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3ASI)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ASI)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (NRX1A_BOVIN | Q28146)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0097109    neuroligin family protein binding    Interacting selectively and non-covalently with a member of the neuroligin protein family, neuronal cell surface proteins that mediate synapse formation.
biological process
    GO:0007155    cell adhesion    The attachment of a cell, either to another cell or to an underlying substrate such as the extracellular matrix, via cell adhesion molecules.
cellular component
    GO:0030054    cell junction    A cellular component that forms a specialized region of connection between two or more cells or between a cell and the extracellular matrix. At a cell junction, anchoring proteins extend through the plasma membrane to link cytoskeletal proteins in one cell to cytoskeletal proteins in neighboring cells or to proteins in the extracellular matrix.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0005886    plasma membrane    The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
    GO:0042734    presynaptic membrane    A specialized area of membrane of the axon terminal that faces the plasma membrane of the neuron or muscle fiber with which the axon terminal establishes a synaptic junction; many synaptic junctions exhibit structural presynaptic characteristics, such as conical, electron-dense internal protrusions, that distinguish it from the remainder of the axon plasma membrane.
    GO:0045202    synapse    The junction between a nerve fiber of one neuron and another neuron, muscle fiber or glial cell. As the nerve fiber approaches the synapse it enlarges into a specialized structure, the presynaptic nerve ending, which contains mitochondria and synaptic vesicles. At the tip of the nerve ending is the presynaptic membrane; facing it, and separated from it by a minute cleft (the synaptic cleft) is a specialized area of membrane on the receiving cell, known as the postsynaptic membrane. In response to the arrival of nerve impulses, the presynaptic nerve ending secretes molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane.

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        NRX1A_BOVIN | Q281462h0b 2r16 3poy 3qcw 3r05

(-) Related Entries Specified in the PDB File

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