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(-) Description

Title :  SOLUTION STRUCTURE OF THE FIFTH PDZ DOMAIN OF INAD-LIKE PROTEIN
 
Authors :  K. Inoue, F. Hayashi, S. Yokoyama, Riken Structural Genomics/Proteomics Initiative (Rsgi)
Date :  08 Dec 05  (Deposition) - 08 Jun 06  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Pdz Domain, Inad-Like Protein, Inadl Protein, Hinadl, Pals1- Associated Tight Junction Protein, Protein Associated To Tight Junctions, Inadl, Patj, Structural Genomics, Nppsfa, National Project On Protein Structural And Functional Analyses, Riken Structural Genomics/Proteomics Initiative, Rsgi, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Inoue, F. Hayashi, S. Yokoyama
Solution Structure Of The Fifth Pdz Domain Of Inad-Like Protein
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - INAD-LIKE PROTEIN
    ChainsA
    EngineeredYES
    Expression System PlasmidP050214-02
    Expression System Vector TypePLASMID
    FragmentPDZ DOMAIN
    GeneINADL, PATJ
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsCELL-FREE PROTEIN SYNTHESIS
    SynonymINADL PROTEIN, HINADL, PALS1-ASSOCIATED TIGHT JUNCTION PROTEIN, PROTEIN ASSOCIATED TO TIGHT JUNCTIONS

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 2D92)

(-) Sites  (0, 0)

(no "Site" information available for 2D92)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2D92)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2D92)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

NMR Structure (1, 1)
  dbSNPPDB
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant
1UniProtVAR_022695C744RINADL_HUMANPolymorphism1134764AC76R

  SNP/SAP Summary Statistics (UniProtKB/Swiss-Prot)

(-) PROSITE Motifs  (1, 1)

NMR Structure (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1PDZPS50106 PDZ domain profile.INADL_HUMAN134-221
248-328
365-453
553-639
686-758
1068-1160
1239-1322
1437-1520
1533-1615
1676-1762
  1-
-
-
-
A:18-90
-
-
-
-
-

(-) Exons   (4, 4)

NMR Structure (4, 4)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.1ENST000003711581ENSE00001341045chr1:62208149-6220822779INADL_HUMAN-00--
1.2ENST000003711582ENSE00002140234chr1:62228530-6222858657INADL_HUMAN1-880--
1.3ENST000003711583ENSE00001653283chr1:62228685-62228851167INADL_HUMAN8-63560--
1.4ENST000003711584ENSE00001596231chr1:62231951-62232145195INADL_HUMAN64-128650--
1.5ENST000003711585ENSE00001747515chr1:62234955-62235094140INADL_HUMAN129-175470--
1.6ENST000003711586ENSE00001756534chr1:62237103-62237298196INADL_HUMAN175-240660--
1.7ENST000003711587ENSE00001714688chr1:62240878-62241006129INADL_HUMAN241-283430--
1.8ENST000003711588ENSE00001680186chr1:62253426-62253644219INADL_HUMAN284-356730--
1.9ENST000003711589ENSE00001684863chr1:62257020-62257119100INADL_HUMAN357-390340--
1.10ENST0000037115810ENSE00001621384chr1:62261139-6226123092INADL_HUMAN390-420310--
1.11ENST0000037115811ENSE00001704241chr1:62262959-62263100142INADL_HUMAN421-468480--
1.12ENST0000037115812ENSE00001701190chr1:62267295-62267441147INADL_HUMAN468-517500--
1.13aENST0000037115813aENSE00001634823chr1:62271120-6227119677INADL_HUMAN517-542260--
1.14ENST0000037115814ENSE00001180884chr1:62274146-6227420257INADL_HUMAN543-561190--
1.15ENST0000037115815ENSE00001313645chr1:62288617-62288751135INADL_HUMAN562-606450--
1.16ENST0000037115816ENSE00001011133chr1:62293094-62293255162INADL_HUMAN607-660541A:1-33
1.17ENST0000037115817ENSE00001011140chr1:62299326-62299457132INADL_HUMAN661-704441A:4-3633
1.18ENST0000037115818ENSE00001011138chr1:62321702-62321911210INADL_HUMAN705-774701A:37-10367
1.19ENST0000037115819ENSE00001011136chr1:62327223-62327339117INADL_HUMAN775-813391A:104-108 (gaps)12
1.20aENST0000037115820aENSE00001011158chr1:62329910-62330305396INADL_HUMAN814-9451320--
1.22aENST0000037115822aENSE00001011157chr1:62340915-62341038124INADL_HUMAN946-987420--
1.23ENST0000037115823ENSE00001011142chr1:62349909-62350080172INADL_HUMAN987-1044580--
1.24ENST0000037115824ENSE00001011134chr1:62365255-6236532672INADL_HUMAN1044-1068250--
1.25ENST0000037115825ENSE00001011132chr1:62366954-62367131178INADL_HUMAN1068-1127600--
1.26ENST0000037115826ENSE00001011151chr1:62374044-62374154111INADL_HUMAN1128-1164370--
1.27ENST0000037115827ENSE00001011139chr1:62380259-6238033678INADL_HUMAN1165-1190260--
1.28bENST0000037115828bENSE00001011147chr1:62393402-62393501100INADL_HUMAN1191-1224340--
1.30aENST0000037115830aENSE00001170290chr1:62455840-62456036197INADL_HUMAN1224-1289660--
1.32ENST0000037115832ENSE00001011145chr1:62483528-6248361992INADL_HUMAN1290-1320310--
1.33ENST0000037115833ENSE00001011135chr1:62503649-6250372173INADL_HUMAN1320-1344250--
1.34ENST0000037115834ENSE00001066757chr1:62516638-6251673093INADL_HUMAN1345-1375310--
1.35aENST0000037115835aENSE00001066756chr1:62545122-62545239118INADL_HUMAN1376-1415400--
1.36ENST0000037115836ENSE00001066761chr1:62550187-62550320134INADL_HUMAN1415-1459450--
1.38ENST0000037115838ENSE00001066759chr1:62574109-6257419284INADL_HUMAN1460-1487280--
1.39aENST0000037115839aENSE00002161466chr1:62579725-62579918194INADL_HUMAN1488-1552650--
1.40ENST0000037115840ENSE00001775347chr1:62582204-62582351148INADL_HUMAN1552-1601500--
1.41aENST0000037115841aENSE00001639463chr1:62582804-6258289087INADL_HUMAN1602-1630290--
1.42bENST0000037115842bENSE00001668046chr1:62586853-62586967115INADL_HUMAN1631-1669390--
1.43ENST0000037115843ENSE00001794870chr1:62588693-6258873038INADL_HUMAN1669-1681130--
1.44aENST0000037115844aENSE00001618976chr1:62593644-62593766123INADL_HUMAN1682-1722410--
1.45ENST0000037115845ENSE00001716409chr1:62594513-62594617105INADL_HUMAN1723-1757350--
1.46ENST0000037115846ENSE00001721876chr1:62613956-62614062107INADL_HUMAN1758-1793360--
1.48bENST0000037115848bENSE00001714413chr1:62626580-626295923013INADL_HUMAN1793-180190--

(-) Sequences/Alignments

NMR Structure
   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:108
 aligned with INADL_HUMAN | Q8NI35 from UniProtKB/Swiss-Prot  Length:1801

    Alignment length:185
                                   623       633       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793     
          INADL_HUMAN   614 GKSRREAVSFLKEVPPPFTLVCCRRLFDDEASVDEPRRTETSLPETEVDHNMDVNTEEDDDGELALWSPEVKIVELVKDCKGLGFSILDYQDPLDPTRSVIVIRSLVADGVAERSGGLLPGDRLVSVNEYCLDNTSLAEAVEILKAVPPGLVHLGICKPLVEDNEEESCYILHSSSNEDKTEFSG 798
               SCOP domains d2d                                                       92a_ A: automated matches                                                                                                       SCOP domains
               CATH domains 2d9                                                       2A00 A:1-108  [code=2.30.42.10, no name defined]                                                                                CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...-------------------------------------------------------.............eeeeeee......eeeeeee.......eeeeeeee...hhhhhhh......eeeee........hhhhhhhhhhhh..eeeeeeee.---------------...-------.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------R------------------------------------------------------ SAPs(SNPs)
                    PROSITE PDZ  PDB: -               ----------------------------------------------PDZ  PDB: A:18-90 UniProt: 686-758                                       ---------------------------------------- PROSITE
               Transcript 1 Exon 1.16  PDB: A:1-3 UniProt: 607-660         Exon 1.17  PDB: A:4-36 UniProt: 661-704     Exon 1.18  PDB: A:37-103 UniProt: 705-774 [INCOMPLETE]                Exon 1.19 [INCOMPLETE]   Transcript 1
                 2d92 A   1 GSS-------------------------------------------------------GSSGELALWSPEVKIVELVKDCKGLGFSILDYQDPLDPTRSVIVIRSLVADGVAERSGGLLPGDRLVSVNEYCLDNTSLAEAVEILKAVPPGLVHLGICS---------------GPS-------SG 108
                              |      -         -         -         -         -        |5        15        25        35        45        55        65        75        85        95       | -         -   | |   -   | 
                              3                                                       4                                                                                                103             104 |     107 
                                                                                                                                                                                                         106         

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 1)

NMR Structure

(-) CATH Domains  (1, 1)

NMR Structure
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2D92)

(-) Gene Ontology  (13, 13)

NMR Structure(hide GO term definitions)
Chain A   (INADL_HUMAN | Q8NI35)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
biological process
    GO:0070830    bicellular tight junction assembly    The aggregation, arrangement and bonding together of a set of components to form a tight junction, an occluding cell-cell junction that is composed of a branching network of sealing strands that completely encircles the apical end of each cell in an epithelial sheet.
    GO:0035556    intracellular signal transduction    The process in which a signal is passed on to downstream components within the cell, which become activated themselves to further propagate the signal and finally trigger a change in the function or state of the cell.
cellular component
    GO:0045177    apical part of cell    The region of a polarized cell that forms a tip or is distal to a base. For example, in a polarized epithelial cell, the apical region has an exposed surface and lies opposite to the basal lamina that separates the epithelium from other tissue.
    GO:0016324    apical plasma membrane    The region of the plasma membrane located at the apical end of the cell.
    GO:0005923    bicellular tight junction    An occluding cell-cell junction that is composed of a branching network of sealing strands that completely encircles the apical end of each cell in an epithelial sheet; the outer leaflets of the two interacting plasma membranes are seen to be tightly apposed where sealing strands are present. Each sealing strand is composed of a long row of transmembrane adhesion proteins embedded in each of the two interacting plasma membranes.
    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:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0070062    extracellular exosome    A vesicle that is released into the extracellular region by fusion of the limiting endosomal membrane of a multivesicular body with the plasma membrane. Extracellular exosomes, also simply called exosomes, have a diameter of about 40-100 nm.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0048471    perinuclear region of cytoplasm    Cytoplasm situated near, or occurring around, the nucleus.
    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:0043234    protein complex    A stable macromolecular complex composed (only) of two or more polypeptide subunits along with any covalently attached molecules (such as lipid anchors or oligosaccharide) or non-protein prosthetic groups (such as nucleotides or metal ions). Prosthetic group in this context refers to a tightly bound cofactor. The component polypeptide subunits may be identical.

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 Related Entries

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

UniProtKB/Swiss-Prot
        INADL_HUMAN | Q8NI351vf6 2daz 2db5 2dlu 2dm8 2dmz 2ehr 4q2n

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