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(-) Description

Title :  STRUCTURE AND FUNCTION OF THE CALPONIN-HOMOLOGY DOMAIN OF AN IQGAP PROTEIN FROM SCHIZOSACCHAROMYCES POMBE
 
Authors :  C. H. Wang, M. K. Balasubramanian, T. Dokland
Date :  28 Apr 03  (Deposition) - 11 May 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.22
Chains :  Asym./Biol. Unit :  A
Keywords :  Alpha-Helical Bundle, Cytokine (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  C. H. Wang, M. K. Balasubramanian, T. Dokland
Structure, Crystal Packing And Molecular Dynamics Of The Calponin-Homology Domain Of Schizosaccharomyces Pombe Rng2.
Acta Crystallogr. , Sect. D V. 60 1396 2004
PubMed-ID: 15272162  |  Reference-DOI: 10.1107/S0907444904012983
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RAS GTPASE-ACTIVATING-LIKE PROTEIN RNG2
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX-KG
    Expression System StrainBL21-CODONPLUS-RIL
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentCALPONIN-HOMOLOGY DOMAIN
    GeneRNG2 OR SPAC4F8.13C
    Organism CommonFISSION YEAST
    Organism ScientificSCHIZOSACCHAROMYCES POMBE
    Organism Taxid4896
    SynonymRING ASSEMBLY PROTEIN 2

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric/Biological Unit (1, 4)
No.NameCountTypeFull Name
1HG4Ligand/IonMERCURY (II) ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPHE A:120 , HIS A:121 , CYS A:139 , HOH A:236BINDING SITE FOR RESIDUE HG A 191
2AC2SOFTWARETRP A:50 , GLU A:53 , CYS A:54BINDING SITE FOR RESIDUE HG A 192
3AC3SOFTWARETYR A:38 , CYS A:42 , HOH A:244 , HOH A:246BINDING SITE FOR RESIDUE HG A 193
4AC4SOFTWAREPHE A:98 , HIS A:100 , HOH A:260 , HOH A:282BINDING SITE FOR RESIDUE HG A 194

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1P5S)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1P5S)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1P5S)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CHPS50021 Calponin homology domain profile.RNG2_SCHPO41-147  1A:41-147

(-) Exons   (0, 0)

(no "Exon" information available for 1P5S)

(-) 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:159
 aligned with RNG2_SCHPO | O14188 from UniProtKB/Swiss-Prot  Length:1489

    Alignment length:159
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181         
           RNG2_SCHPO    32 RETLQAYDYLCRVDEAKKWIEECLGTDLGPTSTFEQSLRNGVVLALLVQKFQPDKLIKIFYSNELQFRHSDNINKFLDFIHGIGLPEIFHFELTDIYEGKNLPKVIYCIHALSYFLSMQDLAPPLIKSDENLSFTDEDVSIIVRRLRQSNVILPNFKAL 190
               SCOP domains d1p5sa_ A: Ras GTPase-activating-like protein rng2                                                                                                              SCOP domains
               CATH domains 1p5sA00 A:32-190 Actin-binding Protein, T-fimbrin; domain 1                                                                                                     CATH domains
               Pfam domains ------------CH-1p5sA01 A:44-148                                                                                      ------------------------------------------ Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhh.hhhhhhhhhhhh...............hhhhhhhhhhhhhhhh..hhhhh.hhhhhhh..hhhhhhhhhhhhhhhhhhh...............hhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------CH  PDB: A:41-147 UniProt: 41-147                                                                          ------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1p5s A  32 RETLQAYDYLCRVDEAKKWIEECLGTDLGPTSTFEQSLRNGVVLALLVQKFQPDKLIKIFYSNELQFRHSDNINKFLDFIHGIGLPEIFHFELTDIYEGKNLPKVIYCIHALSYFLSMQDLAPPLIKSDENLSFTDEDVSIIVRRLRQSNVILPNFKAL 190
                                    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181         

   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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: CH (43)

(-) Gene Ontology  (26, 26)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (RNG2_SCHPO | O14188)
molecular function
    GO:0005096    GTPase activator activity    Binds to and increases the activity of a GTPase, an enzyme that catalyzes the hydrolysis of GTP.
    GO:0003779    actin binding    Interacting selectively and non-covalently with monomeric or multimeric forms of actin, including actin filaments.
    GO:0005516    calmodulin binding    Interacting selectively and non-covalently with calmodulin, a calcium-binding protein with many roles, both in the calcium-bound and calcium-free states.
    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:1903478    actin filament bundle convergence involved in mitotic contractile ring assembly    Any actin filament bundle convergence that is involved in mitotic actomyosin contractile ring assembly.
    GO:0000917    barrier septum assembly    The assembly and arrangement of a septum that spans the plasma membrane interface between progeny cells following cytokinesis. The progeny cells that form a barrier septum are not able to exchange intracellular material.
    GO:0007049    cell cycle    The progression of biochemical and morphological phases and events that occur in a cell during successive cell replication or nuclear replication events. Canonically, the cell cycle comprises the replication and segregation of genetic material followed by the division of the cell, but in endocycles or syncytial cells nuclear replication or nuclear division may not be followed by cell division.
    GO:0051301    cell division    The process resulting in division and partitioning of components of a cell to form more cells; may or may not be accompanied by the physical separation of a cell into distinct, individually membrane-bounded daughter cells.
    GO:1903475    mitotic actomyosin contractile ring assembly    Any actomyosin contractile ring assembly that is involved in mitotic cytokinesis.
    GO:1903479    mitotic actomyosin contractile ring assembly actin filament organization    Any actin filament organization that is involved in mitotic actomyosin contractile ring assembly.
    GO:1902405    mitotic actomyosin contractile ring localization    Any actomyosin contractile ring localization that is involved in mitotic cell cycle.
    GO:1903477    mitotic contractile ring actin filament bundle assembly    Any actin filament bundle assembly that is involved in mitotic actomyosin contractile ring assembly.
    GO:0000281    mitotic cytokinesis    A cell cycle process that results in the division of the cytoplasm of a cell after mitosis, resulting in the separation of the original cell into two daughter cells.
    GO:0043547    positive regulation of GTPase activity    Any process that activates or increases the activity of a GTPase.
    GO:0071574    protein localization to medial cortex    A process in which a protein is transported to, or maintained in, the medial cortex.
    GO:0043087    regulation of GTPase activity    Any process that modulates the rate of GTP hydrolysis by a GTPase.
    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:0007264    small GTPase mediated signal transduction    Any series of molecular signals in which a small monomeric GTPase relays one or more of the signals.
cellular component
    GO:0005826    actomyosin contractile ring    A cytoskeletal structure composed of actin filaments and myosin that forms beneath the plasma membrane of many cells, including animal cells and yeast cells, in a plane perpendicular to the axis of the spindle, i.e. the cell division plane. Ring contraction is associated with centripetal growth of the membrane that divides the cytoplasm of the two daughter cells. In animal cells, the contractile ring is located inside the plasma membrane at the location of the cleavage furrow. In budding fungal cells, e.g. mitotic S. cerevisiae cells, the contractile ring forms beneath the plasma membrane at the mother-bud neck before mitosis.
    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:0071341    medial cortical node    A component of the cell division site that contains the mid1, cdr2, wee1, klp8, and blt1 proteins, and is involved in contractile ring localization. Medial cortical node complexes appear as cortical dots in the middle of the cell during interphase, and function to recruit other ring components in early mitosis.
    GO:0044732    mitotic spindle pole body    The microtubule organizing center that forms as part of the mitotic cell cycle; functionally homologous to the animal cell centrosome.
    GO:0005635    nuclear envelope    The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space).
    GO:0005634    nucleus    A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.
    GO:0005816    spindle pole body    The microtubule organizing center in fungi; functionally homologous to the animal cell centrosome.

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 Related Entries

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

UniProtKB/Swiss-Prot
        RNG2_SCHPO | O141881p2x

(-) Related Entries Specified in the PDB File

1p2x COMPARISON OF CLASS I ALDOLASE BINDING SITE ARCHITECTURE BASED ON THE CRYSTAL STRUCTURE OF 2-DEOXYRIBOSE-5-PHOSPHATE ALDOLASE DETERMINED AT 0.99 ANGSTROM RESOLUTION