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(-) Description

Title :  CRYSTAL STRUCTURE OF THE ACTIN BINDING DOMAIN OF PLECTIN
 
Authors :  J. M. De Pereda
Date :  02 Aug 02  (Deposition) - 10 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.15
Chains :  Asym./Biol. Unit :  A
Keywords :  Calponin Homology Domain, Actin Binding Domain, Integrin Beta4 Hemidesmosomes, Cytoskeleton, Epidermolysis Bullosa, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  B. Garcia-Alvarez, A. Bobkov, A. Sonnenberg, J. M. De Pereda
Structural And Functional Analysis Of The Actin Binding Domain Of Plectin Suggests Alternative Mechanisms For Binding To F-Actin And Integrin Beta4
Structure V. 11 615 2003
PubMed-ID: 12791251  |  Reference-DOI: 10.1016/S0969-2126(03)00090-X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PLECTIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System PlasmidPET15B
    Expression System StrainBL21(DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    FragmentRESIDUES 59-293
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymHD1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 1MB8)

(-) Sites  (0, 0)

(no "Site" information available for 1MB8)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1MB8)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1MB8)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1MB8)

(-) PROSITE Motifs  (3, 4)

Asymmetric/Biological Unit (3, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHPS50021 Calponin homology domain profile.PLEC_HUMAN179-282
295-397
  2A:69-172
A:185-287
2ACTININ_1PS00019 Actinin-type actin-binding domain signature 1.PLEC_HUMAN181-190  1A:71-80
3ACTININ_2PS00020 Actinin-type actin-binding domain signature 2.PLEC_HUMAN254-278  1A:144-168

(-) Exons   (8, 8)

Asymmetric/Biological Unit (8, 8)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.6ENST000003228106ENSE00001244239chr8:145025044-145024352693PLEC_HUMAN1-1751751A:56-65 (gaps)62
1.12ENST0000032281012ENSE00001742500chr8:145012860-14501279962PLEC_HUMAN175-195211A:65-8521
1.14ENST0000032281014ENSE00001685326chr8:145012408-14501231990PLEC_HUMAN196-225301A:86-11530
1.16ENST0000032281016ENSE00001316545chr8:145011410-14501133378PLEC_HUMAN226-251261A:116-14126
1.17ENST0000032281017ENSE00001741875chr8:145011239-14501114793PLEC_HUMAN252-282311A:142-17231
1.18cENST0000032281018cENSE00001244172chr8:145010182-145010016167PLEC_HUMAN283-338561A:173-22856
1.19bENST0000032281019bENSE00001244165chr8:145009481-145009366116PLEC_HUMAN338-377401A:228-26740
1.20bENST0000032281020bENSE00001244160chr8:145009285-145009179107PLEC_HUMAN377-412361A:267-29327
1.21ENST0000032281021ENSE00001244151chr8:145009097-145008978120PLEC_HUMAN413-452400--
1.22ENST0000032281022ENSE00001244144chr8:145008898-14500880396PLEC_HUMAN453-484320--
1.23ENST0000032281023ENSE00001244136chr8:145008613-145008486128PLEC_HUMAN485-527430--
1.24ENST0000032281024ENSE00001244129chr8:145008259-14500816694PLEC_HUMAN527-558320--
1.25ENST0000032281025ENSE00001244123chr8:145007519-145007365155PLEC_HUMAN559-610520--
1.26ENST0000032281026ENSE00001301489chr8:145007279-145006961319PLEC_HUMAN610-7161070--
1.27ENST0000032281027ENSE00001244070chr8:145006880-14500680378PLEC_HUMAN717-742260--
1.28ENST0000032281028ENSE00002173555chr8:145006729-145006568162PLEC_HUMAN743-796540--
1.29ENST0000032281029ENSE00001244050chr8:145006402-145006298105PLEC_HUMAN797-831350--
1.30ENST0000032281030ENSE00001244041chr8:145006200-14500610596PLEC_HUMAN832-863320--
1.31ENST0000032281031ENSE00001244034chr8:145005827-145005702126PLEC_HUMAN864-905420--
1.32ENST0000032281032ENSE00001244024chr8:145004704-145004552153PLEC_HUMAN906-956510--
1.33ENST0000032281033ENSE00001244019chr8:145004466-145004312155PLEC_HUMAN957-1008520--
1.34ENST0000032281034ENSE00001244010chr8:145004230-145004104127PLEC_HUMAN1008-1050430--
1.35ENST0000032281035ENSE00001244001chr8:145003997-145003814184PLEC_HUMAN1051-1112620--
1.36ENST0000032281036ENSE00001315328chr8:145003739-145003582158PLEC_HUMAN1112-1164530--
1.37ENST0000032281037ENSE00001295392chr8:145003449-145003271179PLEC_HUMAN1165-1224600--
1.38ENST0000032281038ENSE00001319048chr8:145002160-145002022139PLEC_HUMAN1224-1270470--
1.39ENST0000032281039ENSE00001243956chr8:145001934-145001578357PLEC_HUMAN1271-13891190--
1.40ENST0000032281040ENSE00001243948chr8:145001503-14500142084PLEC_HUMAN1390-1417280--
1.41aENST0000032281041aENSE00001243936chr8:145001249-145001145105PLEC_HUMAN1418-1452350--
1.42ENST0000032281042ENSE00001243927chr8:145001050-14500095299PLEC_HUMAN1453-1485330--
1.43ENST0000032281043ENSE00001309447chr8:145000052-1449966723381PLEC_HUMAN1486-261211270--
1.44cENST0000032281044cENSE00001244232chr8:144996563-1449893217243PLEC_HUMAN2613-468420720--

(-) 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:243
 aligned with PLEC_HUMAN | Q15149 from UniProtKB/Swiss-Prot  Length:4684

    Alignment length:295
                                                                                                           195   196                                                                                                                                                                                                               
                                   123       133       143       153       163       173       183       193 |     198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398     
           PLEC_HUMAN   114 PHVQAVQGPLGSPPKRGPLPTEEQRVYRRKELEEVSPETPVVPATTQRTLARPGPEPAPATDERDRVQKKTFTKWVNKHLIK-----AQRHISDLYEDLRDGHNLISLLEVLSGDSLPREKGRMRFHKLQNVQIALDYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFQISDIQVSGQSEDMTAKEKLLLWSQRMVEGYQGLRCDNFTSSWRDGRLFNAIIHRHKPLLIDMNKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSSLYDAMPRVP 403
               SCOP domains d1mb8a1                                                     A:56-180 Actin binding domain of plectin                                                                                  d1mb8a2 A:181-293 Actin binding domain of plectin                                                                 SCOP domains
               CATH domains -----------------------------------------------------------------1mb8A01 A:69-167 Actin-binding Protein, T-fimbrin; domain 1                                             -----------1mb8A02 A:179-277 Actin-binding Protein, T-fimbrin; domain 1                                       ---------------- CATH domains
           Pfam domains (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CH-1mb8A01 A:188-290                                                                                   --- Pfam domains (1)
           Pfam domains (2) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------CH-1mb8A02 A:188-290                                                                                   --- Pfam domains (2)
         Sec.struct. author hhhhhhh----------------------------------------------------hhhhhhhhhhhhhhhhhhhhhh...hhhhh............hhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhh.......hhhhhhh.hhhhhhhhhhhhhhhhhh............hhhhhhhhhhhhhh...........hhhhh.hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.....hhhhhh....hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -----------------------------------------------------------------CH  PDB: A:69-172 UniProt: 179-282                                                                           ------------CH  PDB: A:185-287 UniProt: 295-397                                                                    ------ PROSITE (1)
                PROSITE (2) -------------------------------------------------------------------ACTININ_1 --------------------------------------------------------------------ACTININ_2  PDB: A:144-168----------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
           Transcript 1 (1) -------------------------------------------------------------Exon 1.12            -----Exon 1.14  PDB: A:86-115      Exon 1.16  PDB: A:116-141 Exon 1.17  PDB: A:142-172      Exon 1.18c  PDB: A:173-228 UniProt: 283-338             --------------------------------------Exon 1.20b  PDB: A:267-293  Transcript 1 (1)
           Transcript 1 (2) Exon 1.6  PDB: A:56-65 (gaps) UniProt: 1-175 [INCOMPLETE]     -----------------------------------------------------------------------------------------------------------------------------------------------------------------------Exon 1.19b  PDB: A:228-267              -------------------------- Transcript 1 (2)
                 1mb8 A  56 SHMAVIR----------------------------------------------------IADERDRVQKKTFTKWVNKHLIKHWRAEAQRHISDLYEDLRDGHNLISLLEVLSGDSLPREKGRMRFHKLQNVQIALDYLRHRQVKLVNIRNDDIADGNPKLTLGLIWTIILHFQISDIQVSGQSEDMTAKEKLLLWSQRMVEGYQGLRCDNFTSSWRDGRLFNAIIHRHKPLLIDMNKVYRQTNLENLDQAFSVAERDLGVTRLLDPEDVDVPQPDEKSIITYVSSLYDAMPRVP 293
                                  |  -         -         -         -         -        63        73        83  ||||| 88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288     
                                 62                                                   63                    85A||||                                                                                                                                                                                                                
                                                                                                             85B|||                                                                                                                                                                                                                
                                                                                                              85C||                                                                                                                                                                                                                
                                                                                                               85D|                                                                                                                                                                                                                
                                                                                                                85E                                                                                                                                                                                                                

   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, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (1, 2)

Asymmetric/Biological Unit

(-) Pfam Domains  (1, 2)

Asymmetric/Biological Unit
(-)
Clan: CH (43)
(-)
Family: CH (43)
1aCH-1mb8A01A:188-290
1bCH-1mb8A02A:188-290

(-) Gene Ontology  (20, 20)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (PLEC_HUMAN | Q15149)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0030506    ankyrin binding    Interacting selectively and non-covalently with ankyrin, a 200 kDa cytoskeletal protein that attaches other cytoskeletal proteins to integral membrane proteins.
    GO:0008092    cytoskeletal protein binding    Interacting selectively and non-covalently with any protein component of any cytoskeleton (actin, microtubule, or intermediate filament cytoskeleton).
    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:0008307    structural constituent of muscle    The action of a molecule that contributes to the structural integrity of a muscle fiber.
biological process
    GO:0031581    hemidesmosome assembly    Assembly of hemidesmosomes, integrin-containing protein complexes that bind to laminin in the basal lamina. Hemidesmosomes form the contact between the basal surface of epithelial cells and the underlying basal lamina.
cellular component
    GO:0005903    brush border    The dense covering of microvilli on the apical surface of a epithelial cells in tissues such as the intestine, kidney, and choroid plexus; the microvilli aid absorption by increasing the surface area of the cell.
    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:0043292    contractile fiber    Fibers, composed of actin, myosin, and associated proteins, found in cells of smooth or striated muscle.
    GO:0043034    costamere    Regular periodic sub membranous arrays of vinculin in skeletal and cardiac muscle cells, these arrays link Z-discs to the sarcolemma and are associated with links to extracellular matrix.
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.
    GO:0005856    cytoskeleton    Any of the various filamentous elements that form the internal framework of cells, and typically remain after treatment of the cells with mild detergent to remove membrane constituents and soluble components of the cytoplasm. The term embraces intermediate filaments, microfilaments, microtubules, the microtrabecular lattice, and other structures characterized by a polymeric filamentous nature and long-range order within the cell. The various elements of the cytoskeleton not only serve in the maintenance of cellular shape but also have roles in other cellular functions, including cellular movement, cell division, endocytosis, and movement of organelles.
    GO:0005829    cytosol    The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
    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:0005925    focal adhesion    Small region on the surface of a cell that anchors the cell to the extracellular matrix and that forms a point of termination of actin filaments.
    GO:0030056    hemidesmosome    A cell-substrate junction (attachment structure) found in epithelial cells that links intermediate filaments to extracellular matrices via transmembrane complexes. In vertebrates, hemidesmosomes mediate contact between the basal side of epithelial cells and the basal lamina. In C. elegans, hemidesmosomes connect epithelial cells to distinct extracellular matrices on both the apical and basal cell surfaces.
    GO:0045111    intermediate filament cytoskeleton    Cytoskeletal structure made from intermediate filaments, typically organized in the cytosol as an extended system that stretches from the nuclear envelope to the plasma membrane. Some intermediate filaments run parallel to the cell surface, while others traverse the cytosol; together they form an internal framework that helps support the shape and resilience of the cell.
    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:0042383    sarcolemma    The outer membrane of a muscle cell, consisting of the plasma membrane, a covering basement membrane (about 100 nm thick and sometimes common to more than one fiber), and the associated loose network of collagen fibers.
    GO:0016528    sarcoplasm    The cytoplasm of a muscle cell; includes the sarcoplasmic reticulum.

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 Related Entries

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

UniProtKB/Swiss-Prot
        PLEC_HUMAN | Q151492n03 2odu 2odv 3f7p 3pdy 3pe0 4gdo 4q58 4q59 5j1f 5j1g 5j1h 5j1i

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