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(-) Description

Title :  CRYSTAL STRUCTURE OF AN ACTIN DEPOLYMERIZING FACTOR
 
Authors :  W. Wong, O. B. Clarke, J. M. Gulbis, J. Baum
Date :  19 Dec 10  (Deposition) - 01 Jun 11  (Release) - 22 Jun 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Actin Regulator, Actin, Actin-Binding Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Wong, C. T. Skau, D. S. Marapana, E. Hanssen, N. L. Taylor, D. T. Riglar, E. S. Zuccala, F. Angrisano, H. Lewis, B. Catimel, O. B. Clarke, N. J. Kershaw, M. A. Perugini, D. R. Kovar, J. M. Gulbis, J. Baum
Minimal Requirements For Actin Filament Disassembly Reveale By Structural Analysis Of Malaria Parasite Actin-Depolymerizing Factor 1
Proc. Natl. Acad. Sci. Usa V. 108 9869 2011
PubMed-ID: 21628589  |  Reference-DOI: 10.1073/PNAS.1018927108

(-) Compounds

Molecule 1 - COFILIN/ACTIN-DEPOLYMERIZING FACTOR HOMOLOG 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PGEX4T
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Organism Scientific: PLASMODIUM FALCIPARUM
    Organism Taxid: 137071
    Strain: HB3
    Synonym: PFADF1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1BME2Ligand/IonBETA-MERCAPTOETHANOL
2TAR2Ligand/IonD(-)-TARTARIC ACID

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:24 , SER A:44 , THR A:45 , ASP A:120BINDING SITE FOR RESIDUE BME A 123
2AC2SOFTWAREILE A:2 , ASN A:10 , LYS A:22 , ILE A:38 , HIS A:39 , LYS A:41 , HOH A:153 , HOH A:184BINDING SITE FOR RESIDUE TAR A 124
3AC3SOFTWARETHR A:46 , LEU A:47 , THR A:48 , VAL A:118 , ALA A:119 , ASP A:120 , LEU A:121 , HOH A:154 , HOH A:189 , HOH A:203BINDING SITE FOR RESIDUE TAR A 125
4AC4SOFTWAREGLY A:4 , ILE A:5 , CYS A:34 , HOH A:188BINDING SITE FOR RESIDUE BME A 126

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3Q2B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3Q2B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3Q2B)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1ADF_HPS51263 ADF-H domain profile.CADF1_PLAFX4-122  1A:4-121

(-) Exons   (0, 0)

(no "Exon" information available for 3Q2B)

(-) 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:120
 aligned with CADF1_PLAFX | P86292 from UniProtKB/Swiss-Prot  Length:122

    Alignment length:120
                                    11        21        31        41        51        61        71        81        91       101       111       121
          CADF1_PLAFX     2 ISGIRVNDNCVTEFNNMKIRKTCGWIIFVIQNCEIIIHSKGASTTLTELVQSIDKNNEIQCAYVVFDAVSKIHFFMYARESSNSRDRMTYASSKQAILKKIEGVNVLTSVIESAQDVADL 121
               SCOP domains d3q2ba_ A: automated matches                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains -------Cofilin_ADF-3q2bA01 A:9-121                                                                                       Pfam domains
         Sec.struct. author ....eehhhhhhhhhhhhhhh..eeeeeeee..eeeeeeeee..hhhhhhhhhhhh....eeeeeee....eeeeeee....hhhhhhhhhhhhhhhhh.....ee......hhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE --ADF_H  PDB: A:4-121 UniProt: 4-122                                                                                     PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------ Transcript
                 3q2b A   2 ISGIRVNDNCVTEFNNMKIRKTCGWIIFVIQNCEIIIHSKGASTTLTELVQSIDKNNEIQCAYVVFDAVSKIHFFMYARESSNSRDRMTYASSKQAILKKIEGVNVLTSVIESAQDVADL 121
                                    11        21        31        41        51        61        71        81        91       101       111       121
   Legend:   → Mismatch (orange background)
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  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
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3Q2B)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: ADF (44)

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (CADF1_PLAFX | P86292)
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:0003785    actin monomer binding    Interacting selectively and non-covalently with monomeric actin, also known as G-actin.
biological process
    GO:0030036    actin cytoskeleton organization    A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of cytoskeletal structures comprising actin filaments and their associated proteins.
    GO:0030042    actin filament depolymerization    Disassembly of actin filaments by the removal of actin monomers from a filament.
    GO:0060327    cytoplasmic actin-based contraction involved in cell motility    The actin filament-based movement by which cytoplasmic actin filaments slide past one another resulting in a contraction that propels the cell from one place to another.
cellular component
    GO:0015629    actin cytoskeleton    The part of the cytoskeleton (the internal framework of a cell) composed of actin and associated proteins. Includes actin cytoskeleton-associated complexes.
    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:0005622    intracellular    The living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm.

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