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(-)Asym./Biol. Unit
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Asym./Biol. Unit  (Jmol Viewer)

(-) Description

Title :  SECOND CALPONIN HOMOLOGY DOMAIN FROM UTROPHIN
 
Authors :  N. H. Keep, S. J. Winder, J. Kendrick-Jones
Date :  05 Jun 98  (Deposition) - 13 Jan 99  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Calponin Homology, Actin Binding, Structural Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  N. H. Keep, F. L. Norwood, C. A. Moores, S. J. Winder, J. Kendrick-Jones
The 2. 0 A Structure Of The Second Calponin Homology Domain From The Actin-Binding Region Of The Dystrophin Homologue Utrophin.
J. Mol. Biol. V. 285 1257 1999
PubMed-ID: 9887274  |  Reference-DOI: 10.1006/JMBI.1998.2406
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - UTROPHIN
    Cellular LocationLINKS CYTOSKELETON TO PLASMA MEMBRANE
    Cell LineBL21
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Cellular LocationCYTOPLASM
    Expression System GeneUTRN DMDL
    Expression System PlasmidPSJW1 (T7)
    Expression System StrainBL21 (DE3)
    Expression System Taxid469008
    Expression System Vector TypePLASMID
    Fragment2ND CALPONIN HOMOLOGY DOMAIN FROM ACTIN BINDING REGION
    GeneUTRN, DMDL
    OrganPLASMA
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    Other DetailsEXPRESSED IN ESCHERICHIA COLI
    TissueMUSCLE

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 1BHD)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu B:254 -Pro B:255

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHPS50021 Calponin homology domain profile.UTRO_HUMAN31-135
150-252
  1-
A:150-252

(-) Exons   (3, 6)

Asymmetric/Biological Unit (3, 6)
 ENSEMBLUniProtKBPDB
No.Transcript IDExonExon IDGenome LocationLengthIDLocationLengthCountLocationLength
1.3bENST000003675453bENSE00001616860chr6:144612965-14461304379UTRO_HUMAN1-27270--
1.5ENST000003675455ENSE00002157934chr6:144724259-14472432062UTRO_HUMAN27-47210--
1.6ENST000003675456ENSE00001007393chr6:144743014-14474310693UTRO_HUMAN48-78310--
1.7ENST000003675457ENSE00001007387chr6:144744685-14474476278UTRO_HUMAN79-104260--
1.8aENST000003675458aENSE00001007390chr6:144745122-14474521493UTRO_HUMAN105-135310--
1.9aENST000003675459aENSE00002192161chr6:144747423-144747595173UTRO_HUMAN136-193582A:147-193
B:151-193
47
43
1.10ENST0000036754510ENSE00002151480chr6:144749914-144750029116UTRO_HUMAN193-232402A:193-232
B:193-232
40
40
1.11ENST0000036754511ENSE00002160030chr6:144750717-144750877161UTRO_HUMAN232-285542A:232-254
B:232-258
23
27
1.12ENST0000036754512ENSE00002201322chr6:144757071-144757274204UTRO_HUMAN286-353680--
1.13ENST0000036754513ENSE00002142441chr6:144758701-144758882182UTRO_HUMAN354-414610--
1.14ENST0000036754514ENSE00002198996chr6:144759881-144760031151UTRO_HUMAN414-464510--
1.15ENST0000036754515ENSE00002190998chr6:144761488-144761607120UTRO_HUMAN465-504400--
1.16ENST0000036754516ENSE00002141411chr6:144765417-144765518102UTRO_HUMAN505-538340--
1.17ENST0000036754517ENSE00002192936chr6:144768347-144768454108UTRO_HUMAN539-574360--
1.18ENST0000036754518ENSE00002199518chr6:144768738-144768917180UTRO_HUMAN575-634600--
1.19ENST0000036754519ENSE00002152421chr6:144769736-144769905170UTRO_HUMAN635-691570--
1.20ENST0000036754520ENSE00002181234chr6:144772506-144772629124UTRO_HUMAN691-732420--
1.21ENST0000036754521ENSE00002143191chr6:144774918-14477500588UTRO_HUMAN733-762300--
1.22ENST0000036754522ENSE00002188556chr6:144779906-144780147242UTRO_HUMAN762-842810--
1.23ENST0000036754523ENSE00002155454chr6:144780310-144780490181UTRO_HUMAN843-903610--
1.24ENST0000036754524ENSE00002144259chr6:144782333-144782478146UTRO_HUMAN903-951490--
1.25ENST0000036754525ENSE00002172475chr6:144783790-144784002213UTRO_HUMAN952-1022710--
1.26ENST0000036754526ENSE00002152912chr6:144794856-144794969114UTRO_HUMAN1023-1060380--
1.27ENST0000036754527ENSE00002154301chr6:144795740-144795895156UTRO_HUMAN1061-1112520--
1.28bENST0000036754528bENSE00001084805chr6:144800948-144801118171UTRO_HUMAN1113-1169570--
1.29ENST0000036754529ENSE00001084807chr6:144803345-144803524180UTRO_HUMAN1170-1229600--
1.30ENST0000036754530ENSE00001084804chr6:144806521-144806655135UTRO_HUMAN1230-1274450--
1.31ENST0000036754531ENSE00001084840chr6:144808684-144808833150UTRO_HUMAN1275-1324500--
1.32ENST0000036754532ENSE00001084871chr6:144809809-144809970162UTRO_HUMAN1325-1378540--
1.33ENST0000036754533ENSE00001084858chr6:144811207-144811335129UTRO_HUMAN1379-1421430--
1.34ENST0000036754534ENSE00001084810chr6:144812065-144812238174UTRO_HUMAN1422-1479580--
1.35ENST0000036754535ENSE00001084809chr6:144814437-144814592156UTRO_HUMAN1480-1531520--
1.36ENST0000036754536ENSE00001084815chr6:144820393-144820563171UTRO_HUMAN1532-1588570--
1.37ENST0000036754537ENSE00001084824chr6:144832080-144832259180UTRO_HUMAN1589-1648600--
1.38ENST0000036754538ENSE00001309213chr6:144835045-144835173129UTRO_HUMAN1649-1691430--
1.39ENST0000036754539ENSE00001084800chr6:144835786-144835956171UTRO_HUMAN1692-1748570--
1.40ENST0000036754540ENSE00001084865chr6:144837365-144837523159UTRO_HUMAN1749-1801530--
1.41ENST0000036754541ENSE00001084820chr6:144837947-144838084138UTRO_HUMAN1802-1847460--
1.42ENST0000036754542ENSE00001084866chr6:144843116-144843307192UTRO_HUMAN1848-1911640--
1.43ENST0000036754543ENSE00001084863chr6:144844152-144844324173UTRO_HUMAN1912-1969580--
1.44ENST0000036754544ENSE00001084839chr6:144852188-144852338151UTRO_HUMAN1969-2019510--
1.45ENST0000036754545ENSE00001084873chr6:144854221-144854396176UTRO_HUMAN2020-2078590--
1.46ENST0000036754546ENSE00001312504chr6:144858718-144858853136UTRO_HUMAN2078-2123460--
1.47ENST0000036754547ENSE00001312804chr6:144860430-144860579150UTRO_HUMAN2124-2173500--
1.48ENST0000036754548ENSE00001293425chr6:144863931-14486400676UTRO_HUMAN2174-2199260--
1.49ENST0000036754549ENSE00001314288chr6:144869776-144869990215UTRO_HUMAN2199-2270720--
1.50ENST0000036754550ENSE00001294544chr6:144872101-144872218118UTRO_HUMAN2271-2310400--
1.51ENST0000036754551ENSE00001315483chr6:144875824-144876029206UTRO_HUMAN2310-2378690--
1.52ENST0000036754552ENSE00001296065chr6:144878293-144878447155UTRO_HUMAN2379-2430520--
1.53ENST0000036754553ENSE00001317010chr6:144898235-144898424190UTRO_HUMAN2430-2493640--
1.56bENST0000036754556bENSE00001698082chr6:144999542-144999714173UTRO_HUMAN2494-2551580--
1.57ENST0000036754557ENSE00001717692chr6:145021223-145021379157UTRO_HUMAN2551-2603530--
1.58ENST0000036754558ENSE00001084833chr6:145051493-145051622130UTRO_HUMAN2604-2647440--
1.59ENST0000036754559ENSE00001084870chr6:145069382-145069650269UTRO_HUMAN2647-2736900--
1.60ENST0000036754560ENSE00001084803chr6:145072942-145073088147UTRO_HUMAN2737-2785490--
1.61bENST0000036754561bENSE00001084801chr6:145075856-14507593479UTRO_HUMAN2786-2812270--
1.62aENST0000036754562aENSE00001084816chr6:145079065-14507912561UTRO_HUMAN2812-2832210--
1.63ENST0000036754563ENSE00001084862chr6:145093043-14509310462UTRO_HUMAN2832-2853220--
1.64ENST0000036754564ENSE00001906623chr6:145095426-14509550075UTRO_HUMAN2853-2878260--
1.65ENST0000036754565ENSE00001084857chr6:145103058-145103259202UTRO_HUMAN2878-2945680--
1.66aENST0000036754566aENSE00001084847chr6:145110330-14511041586UTRO_HUMAN2945-2974300--
1.67ENST0000036754567ENSE00001084861chr6:145114970-145115127158UTRO_HUMAN2974-3026530--
1.68bENST0000036754568bENSE00001084837chr6:145118960-145119126167UTRO_HUMAN3027-3082560--
1.70ENST0000036754570ENSE00001084799chr6:145124172-145124283112UTRO_HUMAN3082-3119380--
1.71ENST0000036754571ENSE00001084845chr6:145142018-145142154137UTRO_HUMAN3120-3165460--
1.72ENST0000036754572ENSE00001084869chr6:145148484-14514852239UTRO_HUMAN3165-3178140--
1.73ENST0000036754573ENSE00001084798chr6:145148747-14514881266UTRO_HUMAN3178-3200230--
1.74bENST0000036754574bENSE00002196262chr6:145149926-14514999166UTRO_HUMAN3200-3222230--
1.75bENST0000036754575bENSE00002163117chr6:145156916-145157074159UTRO_HUMAN3222-3275540--
1.76aENST0000036754576aENSE00001084831chr6:145157437-145157677241UTRO_HUMAN3275-3355810--
1.78bENST0000036754578bENSE00001084796chr6:145160309-145160420112UTRO_HUMAN3356-3393380--
1.79ENST0000036754579ENSE00002146582chr6:145161876-14516196893UTRO_HUMAN3393-3424320--
1.80bENST0000036754580bENSE00001444982chr6:145167941-14516796323UTRO_HUMAN3424-343180--
1.81bENST0000036754581bENSE00001444981chr6:145172125-1451741702046UTRO_HUMAN3432-343320--

(-) 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:108
 aligned with UTRO_HUMAN | P46939 from UniProtKB/Swiss-Prot  Length:3433

    Alignment length:108
                                   156       166       176       186       196       206       216       226       236       246        
           UTRO_HUMAN   147 LQQTNSEKILLSWVRQTTRPYSQVNVLNFTTSWTDGLAFNAVLHRHKPDLFSWDKVVKMSPIERLEHAFSKAQTYLGIEKLLDPEDVAVQLPDKKSIIMYLTSLFEVL 254
               SCOP domains d1bhda_ A: Utrophin                                                                                          SCOP domains
               CATH domains 1bhdA00 A:147-254 Actin-binding Protein, T-fimbrin; domain 1                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhh............hhh...hhhhhhhhhh.hhh..hhhhhh..hhhhhhhhhhhhhhhh.......hhhhh.....hhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ---CH  PDB: A:150-252 UniProt: 150-252                                                                    -- PROSITE
           Transcript 1 (1) ----------------------------------------------Exon 1.10  PDB: A:193-232               ---------------------- Transcript 1 (1)
           Transcript 1 (2) Exon 1.9a  PDB: A:147-193 UniProt: 136-193     --------------------------------------Exon 1.11 [INCOMPLETE]  Transcript 1 (2)
                 1bhd A 147 LQQTNSEKILLSWVRQTTRPYSQVNVLNFTTSWTDGLAFNAVLHRHKPDLFSWDKVVKMSPIERLEHAFSKAQTYLGIEKLLDPEDVAVRLPDKKSIIMYLTSLFEVL 254
                                   156       166       176       186       196       206       216       226       236       246        

Chain B from PDB  Type:PROTEIN  Length:108
 aligned with UTRO_HUMAN | P46939 from UniProtKB/Swiss-Prot  Length:3433

    Alignment length:108
                                   160       170       180       190       200       210       220       230       240       250        
           UTRO_HUMAN   151 NSEKILLSWVRQTTRPYSQVNVLNFTTSWTDGLAFNAVLHRHKPDLFSWDKVVKMSPIERLEHAFSKAQTYLGIEKLLDPEDVAVQLPDKKSIIMYLTSLFEVLPQQV 258
               SCOP domains d1bhdb_ B: Utrophin                                                                                          SCOP domains
               CATH domains 1bhdB00 B:151-258 Actin-binding Protein, T-fimbrin; domain 1                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ..hhhhhhhhhhhh............hhh...hhhhhhhhhh......hhhhhh..hhhhhhhhhhhhhhhh........hhhh.....hhhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE CH  PDB: - UniProt: 150-252                                                                           ------ PROSITE
           Transcript 1 (1) ------------------------------------------Exon 1.10  PDB: B:193-232               -------------------------- Transcript 1 (1)
           Transcript 1 (2) Exon 1.9a  PDB: B:151-193 UniProt: 136-193 --------------------------------------Exon 1.11  PDB: B:232-258   Transcript 1 (2)
                 1bhd B 151 NSEKILLSWVRQTTRPYSQVNVLNFTTSWTDGLAFNAVLHRHKPDLFSWDKVVKMSPIERLEHAFSKAQTYLGIEKLLDPEDVAVRLPDKKSIIMYLTSLFEVLPQQV 258
                                   160       170       180       190       200       210       220       230       240       250        

   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  (0, 0)

(no "Pfam Domain" information available for 1BHD)

(-) Gene Ontology  (31, 31)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (UTRO_HUMAN | P46939)
molecular function
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0051015    actin filament binding    Interacting selectively and non-covalently with an actin filament, also known as F-actin, a helical filamentous polymer of globular G-actin subunits.
    GO:0005178    integrin binding    Interacting selectively and non-covalently with an integrin.
    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:0019901    protein kinase binding    Interacting selectively and non-covalently with a protein kinase, any enzyme that catalyzes the transfer of a phosphate group, usually from ATP, to a protein substrate.
    GO:0017166    vinculin binding    Interacting selectively and non-covalently with vinculin, a protein found in muscle, fibroblasts, and epithelial cells that binds actin and appears to mediate attachment of actin filaments to integral proteins of the plasma membrane.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0006936    muscle contraction    A process in which force is generated within muscle tissue, resulting in a change in muscle geometry. Force generation involves a chemo-mechanical energy conversion step that is carried out by the actin/myosin complex activity, which generates force through ATP hydrolysis.
    GO:0007517    muscle organ development    The process whose specific outcome is the progression of the muscle over time, from its formation to the mature structure. The muscle is an organ consisting of a tissue made up of various elongated cells that are specialized to contract and thus to produce movement and mechanical work.
    GO:0007528    neuromuscular junction development    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of a neuromuscular junction.
    GO:0001954    positive regulation of cell-matrix adhesion    Any process that activates or increases the rate or extent of cell adhesion to an extracellular matrix.
    GO:2000649    regulation of sodium ion transmembrane transporter activity    Any process that modulates the frequency, rate or extent of sodium ion transmembrane transporter activity.
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:0070938    contractile ring    A cytoskeletal structure composed of filamentous protein that forms beneath the membrane of many cells or organelles, in the plane of cell or organelle division. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two daughter cells or organelles.
    GO:0030864    cortical actin cytoskeleton    The portion of the actin cytoskeleton, comprising filamentous actin and associated proteins, that lies just beneath the plasma membrane.
    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:0016010    dystrophin-associated glycoprotein complex    A multiprotein complex that forms a strong mechanical link between the cytoskeleton and extracellular matrix; typical of, but not confined to, muscle cells. The complex is composed of transmembrane, cytoplasmic, and extracellular proteins, including dystrophin, sarcoglycans, dystroglycan, dystrobrevins, syntrophins, sarcospan, caveolin-3, and NO synthase.
    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:0030175    filopodium    Thin, stiff, actin-based protrusion extended by the leading edge of a motile cell such as a crawling fibroblast or amoeba, or an axonal or dendritic growth cone, or a dendritic shaft.
    GO:0031527    filopodium membrane    The portion of the plasma membrane surrounding a filopodium.
    GO:0030426    growth cone    The migrating motile tip of a growing nerve cell axon or dendrite.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0031594    neuromuscular junction    The junction between the axon of a motor neuron and a muscle fiber. In response to the arrival of action potentials, the presynaptic button releases molecules of neurotransmitters into the synaptic cleft. These diffuse across the cleft and transmit the signal to the postsynaptic membrane of the muscle fiber, leading to a change in post-synaptic potential.
    GO:0005654    nucleoplasm    That part of the nuclear content other than the chromosomes or the nucleolus.
    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:0045211    postsynaptic membrane    A specialized area of membrane facing the presynaptic membrane on the tip of the nerve ending and separated from it by a minute cleft (the synaptic cleft). Neurotransmitters cross the synaptic cleft and transmit the signal to the postsynaptic membrane.
    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.
    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: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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