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(-) Description

Authors :  S. Sheriff
Date :  11 Dec 06  (Deposition) - 20 Mar 07  (Release) - 24 Feb 09  (Revision)
Resolution :  1.75
Chains :  Asym./Biol. Unit :  A
Keywords :  Inhibitor, Protein/Ligand Complex, Cell Adhesion (Keyword Search: [Gene Ontology, PubMed, Web (Google))
Reference :  D. S. Dodd, S. Sheriff, C. J. Chang, D. K. Stetsko, L. M. Phillips, Y. Zhang, M. Launay, D. Potin, W. Vaccaro, M. A. Poss, M. Mckinnon, J. C. Barrish, S. J. Suchard, T. G. Murali Dhar
Design Of Lfa-1 Antagonists Based On A 2, 3-Dihydro-1H-Pyrrolizin-5(7Ah)-One Scaffold.
Bioorg. Med. Chem. Lett. V. 17 1908 2007
PubMed-ID: 17291752  |  Reference-DOI: 10.1016/J.BMCL.2007.01.036
(for further references see the PDB file header)

(-) Compounds

    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET28A
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentVWFA DOMAIN, RESIDUES 154-332
    GeneITGAL, CD11A
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsMINIMAL MEDIA

 Structural Features

(-) Chains, Units

Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
1AC1SOFTWARELEU A:132 , TYR A:166 , LEU A:203 , ILE A:235 , TYR A:257 , LEU A:302 , LYS A:305 , ILE A:306 , HOH A:313BINDING SITE FOR RESIDUE 2O7 A 1

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O7N)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
1Lys A:280 -Pro A:281

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.SourceVariant IDVariantUniProt IDStatusIDChainVariant

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
1VWFAPS50234 VWFA domain profile.ITAL_HUMAN156-327  1A:131-302

(-) Exons   (4, 4)

Asymmetric/Biological Unit (4, 4)
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength

(-) 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:180
 aligned with ITAL_HUMAN | P20701 from UniProtKB/Swiss-Prot  Length:1170

    Alignment length:180
                                   162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332
               SCOP domains d2o7na_ A: Integrin CD11a/CD18 (Leukocyte function associated antigen-1, LFA-1)                                                                                                      SCOP domains
               CATH domains 2o7nA00 A:128-307  [code=, no name defined]                                                                                                                               CATH domains
               Pfam domains ---VWA-2o7nA01 A:131-306                                                                                                                                                           - Pfam domains
         Sec.struct. author ..eeeeeeee.....hhhhhhhhhhhhhhhhhhh.....eeeeeee...eeeeehhhhhhhhhhhhhhh..........hhhhhhhhhhhhh.hhhhh.....eeeeeeee.........hhhhh..eeeeeee.hhhhhhhhhhhhhhhh..hhhhheeee...hhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------W---------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---VWFA  PDB: A:131-302 UniProt: 156-327                                                                                                                                       ----- PROSITE
           Transcript 1 (1) Exon 1.6  PDB: A:128-167 [INCOMPLETE]   Exon 1.7  PDB: A:168-216 UniProt: 193-241        --------------------------------------------Exon 1.9  PDB: A:261-307 UniProt: 286-336       Transcript 1 (1)
           Transcript 1 (2) ----------------------------------------------------------------------------------------Exon 1.8  PDB: A:216-260 UniProt: 241-285    ----------------------------------------------- Transcript 1 (2)
                                   137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307

   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)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
Clan: vWA-like (60)
Family: VWA (50)

(-) Gene Ontology  (27, 27)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (ITAL_HUMAN | P20701)
molecular function
    GO:0030369    ICAM-3 receptor activity    Combining with ICAM-3, intercellular adhesion molecule 3, and transmitting the signal from one side of the membrane to the other to initiate a change in cell activity. ICAM-3, or CD50, are constitutively expressed on monocytes, granulocytes and lymphocytes; on physiological stimulation, they become transiently phosphorylated on serine residues.
    GO:0050839    cell adhesion molecule binding    Interacting selectively and non-covalently with a cell adhesion molecule.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    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).
    GO:0032403    protein complex binding    Interacting selectively and non-covalently with any protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    GO:0046982    protein heterodimerization activity    Interacting selectively and non-covalently with a nonidentical protein to form a heterodimer.
biological process
    GO:0002291    T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell    The change in morphology and behavior of a mature or immature T cell resulting from exposure to an antigen for which its T cell receptor is specific bound to an MHC molecule on an antigen presenting cell, leading to the initiation or perpetuation of an immune response.
    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.
    GO:0007160    cell-matrix adhesion    The binding of a cell to the extracellular matrix via adhesion molecules.
    GO:0030198    extracellular matrix organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of an extracellular matrix.
    GO:0007157    heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules    The attachment of an adhesion molecule in one cell to a nonidentical adhesion molecule in an adjacent cell.
    GO:0006954    inflammatory response    The immediate defensive reaction (by vertebrate tissue) to infection or injury caused by chemical or physical agents. The process is characterized by local vasodilation, extravasation of plasma into intercellular spaces and accumulation of white blood cells and macrophages.
    GO:0007229    integrin-mediated signaling pathway    A series of molecular signals initiated by the binding of extracellular ligand to an integrin on the surface of a target cell, and ending with regulation of a downstream cellular process, e.g. transcription.
    GO:0007159    leukocyte cell-cell adhesion    The attachment of a leukocyte to another cell via adhesion molecules.
    GO:0050900    leukocyte migration    The movement of a leukocyte within or between different tissues and organs of the body.
    GO:0006928    movement of cell or subcellular component    The directed, self-propelled movement of a cell or subcellular component without the involvement of an external agent such as a transporter or a pore.
    GO:0043113    receptor clustering    The receptor metabolic process that results in grouping of a set of receptors at a cellular location, often to amplify the sensitivity of a signaling response.
    GO:0050776    regulation of immune response    Any process that modulates the frequency, rate or extent of the immune response, the immunological reaction of an organism to an immunogenic stimulus.
    GO:0007165    signal transduction    The cellular process in which a signal is conveyed to trigger a change in the activity or state of a cell. Signal transduction begins with reception of a signal (e.g. a ligand binding to a receptor or receptor activation by a stimulus such as light), or for signal transduction in the absence of ligand, signal-withdrawal or the activity of a constitutively active receptor. Signal transduction ends with regulation of a downstream cellular process, e.g. regulation of transcription or regulation of a metabolic process. Signal transduction covers signaling from receptors located on the surface of the cell and signaling via molecules located within the cell. For signaling between cells, signal transduction is restricted to events at and within the receiving cell.
    GO:0016337    single organismal cell-cell adhesion    The attachment of one cell to another cell via adhesion molecules, where both cells are part of the same organism.
cellular component
    GO:0009986    cell surface    The external part of the cell wall and/or plasma membrane.
    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: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:0034687    integrin alphaL-beta2 complex    An integrin complex that comprises one alphaL subunit and one beta2 subunit.
    GO:0008305    integrin complex    A protein complex that is composed of one alpha subunit and one beta subunit, both of which are members of the integrin superfamily of cell adhesion receptors; the complex spans the plasma membrane and binds to extracellular matrix ligands, cell-surface ligands, and soluble ligands.
    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.


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 Related Entries

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

        ITAL_HUMAN | P207011cqp 1dgq 1ij4 1lfa 1mjn 1mq8 1mq9 1mqa 1rd4 1t0p 1xdd 1xdg 1xuo 1zon 1zoo 1zop 2ica 2k8o 2m3e 3bn3 3bqm 3bqn 3e2m 3eoa 3eob 3f74 3f78 3hi6 3m6f 3tcx 4ixd 5e6r 5e6s 5e6u

(-) Related Entries Specified in the PDB File