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(-) Description

Title :  CRYSTAL STRUCTURE OF THE WATER-SOLUBLE STATE OF THE PORE-FORMING CYTOLYSIN STICHOLYSIN II
 
Authors :  J. M. Mancheno, J. Martin-Benito, M. Martinez-Ripoll, J. G. Gavilanes, J. A. Hermoso
Date :  26 Mar 02  (Deposition) - 12 Jun 03  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.71
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Cytolysin, Pore-Forming Toxin, Hemolysis, Cnidocyst (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. M. Mancheno, J. Martin-Benito, M. Martinez-Ripoll, J. G. Gavilanes, J. A. Hermoso
Crystal And Electron Microscopy Structures Of Sticholysin Ii Actinoporin Reveal Insights Into The Mechanism Of Membrane Pore Formation
Structure V. 11 1319 2003
PubMed-ID: 14604522  |  Reference-DOI: 10.1016/J.STR.2003.09.019

(-) Compounds

Molecule 1 - STICHOLYSIN II
    Chains: A, B
    Organism Common: CARRIBEAN SEA ANEMONE
    Organism Scientific: STOICHACTIS HELIANTHUS
    Organism Taxid: 6123
    Synonym: CYTOLYSIN III, CYTOLYSIN ST II, CYTOTOXIN

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 8)

Asymmetric Unit (1, 8)
No.NameCountTypeFull Name
1SO48Ligand/IonSULFATE ION
Biological Unit 1 (1, 3)
No.NameCountTypeFull Name
1SO43Ligand/IonSULFATE ION
Biological Unit 2 (1, 5)
No.NameCountTypeFull Name
1SO45Ligand/IonSULFATE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:52 , THR A:82 , GLY A:83 , PRO A:105 , PHE A:106 , HOH A:2078 , HOH A:2183 , HOH A:2184 , LYS B:26BINDING SITE FOR RESIDUE SO4 A1176
2AC2SOFTWARETYR A:120 , SER A:121 , ARG A:124 , HOH A:2185BINDING SITE FOR RESIDUE SO4 A1177
3AC3SOFTWAREARG A:29 , HOH A:2186 , HOH A:2188 , HOH A:2189 , GLU B:132 , GLU B:148 , ARG B:156BINDING SITE FOR RESIDUE SO4 A1178
4AC4SOFTWAREGLY B:41 , THR B:42 , SER B:93BINDING SITE FOR RESIDUE SO4 B1176
5AC5SOFTWARESER B:52 , GLY B:83 , PHE B:106 , HOH B:2079 , HOH B:2120BINDING SITE FOR RESIDUE SO4 B1177
6AC6SOFTWARELYS A:26 , VAL A:27 , SER A:28 , LYS A:75 , GLY A:78 , TYR B:135 , TYR B:136BINDING SITE FOR RESIDUE SO4 B1178
7AC7SOFTWARETYR B:120 , SER B:121 , ARG B:124 , HOH B:2136BINDING SITE FOR RESIDUE SO4 B1179
8AC8SOFTWARETYR A:135 , TYR A:136 , VAL B:27 , SER B:28 , LYS B:75 , GLY B:78 , HOH B:2184BINDING SITE FOR RESIDUE SO4 B1180

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1GWY)

(-) Exons   (0, 0)

(no "Exon" information available for 1GWY)

(-) Sequences/Alignments

Asymmetric 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:175
 aligned with ACTP2_STIHL | P07845 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     
          ACTP2_STIHL     1 ALAGTIIAGASLTFQVLDKVLEELGKVSRKIAVGIDNESGGTWTALNAYFRSGTTDVILPEFVPNTKALLYSGRKDTGPVATGAVAAFAYYMSSGNTLGVMFSVPFDYNWYSNWWDVKIYSGKRRADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMTSAGEAKMQIKISR 175
               SCOP domains d1gwya_ A: Sticholysin II                                                                                                                                                       SCOP domains
               CATH domains 1gwyA00 A:1-175  [code=2.60.270.20, no name defined]                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.hhhhhhhhhhhhhhh.....eeeeeeeee....eeeeeeeeee.........ee...eeeeeeee.........eeeeeeeee...eeeeeeeee.........eeeeeeee.....hhhhhhhhhh...ee....eeeeeee..eeeeeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gwy A   1 ALAGTIIAGASLTFQVLDKVLEELGKVSRKIAVGIDNESGGTWTALNAYFRSGTTDVILPEFVPNTKALLYSGRKDTGPVATGAVAAFAYYMSSGNTLGVMFSVPFDYNWYSNWWDVKIYSGKRRADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMTSAGEAKMQIKISR 175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     


Chain B from PDB  Type:PROTEIN  Length:175
 aligned with ACTP2_STIHL | P07845 from UniProtKB/Swiss-Prot  Length:175

    Alignment length:175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170     
          ACTP2_STIHL     1 ALAGTIIAGASLTFQVLDKVLEELGKVSRKIAVGIDNESGGTWTALNAYFRSGTTDVILPEFVPNTKALLYSGRKDTGPVATGAVAAFAYYMSSGNTLGVMFSVPFDYNWYSNWWDVKIYSGKRRADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMTSAGEAKMQIKISR 175
               SCOP domains d1gwyb_ B: Sticholysin II                                                                                                                                                       SCOP domains
               CATH domains 1gwyB00 B:1-175  [code=2.60.270.20, no name defined]                                                                                                                            CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....eee.hhhhhhhhhhhhhh......eeeeeeeee....eeeeeeeeee.........ee...eeeeeeee.........eeeeeeeee...eeeeeeeee.........eeeeeeee.....hhhhhhhhhh...ee....eeeeeee..eeeeeee....eeeeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1gwy B   1 ALAGTIIAGASLTFQVLDKVLEELGKVSRKIAVGIDNESGGTWTALNAYFRSGTTDVILPEFVPNTKALLYSGRKDTGPVATGAVAAFAYYMSSGNTLGVMFSVPFDYNWYSNWWDVKIYSGKRRADQGMYEDLYYGNPYRGDNGWHEKNLGYGLRMKGIMTSAGEAKMQIKISR 175
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170
   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 Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 2)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (ACTP2_STIHL | P07845)
molecular function
    GO:0015267    channel activity    Enables the energy-independent facilitated diffusion, mediated by passage of a solute through a transmembrane aqueous pore or channel. Stereospecificity is not exhibited but this transport may be specific for a particular molecular species or class of molecules.
    GO:0042802    identical protein binding    Interacting selectively and non-covalently with an identical protein or proteins.
biological process
    GO:0006812    cation transport    The directed movement of cations, atoms or small molecules with a net positive charge, into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0019835    cytolysis    The rupture of cell membranes and the loss of cytoplasm.
    GO:0044179    hemolysis in other organism    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another.
    GO:0052331    hemolysis in other organism involved in symbiotic interaction    The cytolytic destruction of red blood cells, with the release of intracellular hemoglobin, in one organism by another, where two organisms are in a symbiotic interaction.
    GO:0006811    ion transport    The directed movement of charged atoms or small charged molecules into, out of or within a cell, or between cells, by means of some agent such as a transporter or pore.
    GO:0046931    pore complex assembly    The aggregation, arrangement and bonding together of a set of components to form a pore complex. A pore complex is a small opening in a membrane that allows the passage of liquids and/or gases.
    GO:0055085    transmembrane transport    The process in which a solute is transported across a lipid bilayer, from one side of a membrane to the other
    GO:0006810    transport    The directed movement of substances (such as macromolecules, small molecules, ions) or cellular components (such as complexes and organelles) into, out of or within a cell, or between cells, or within a multicellular organism by means of some agent such as a transporter, pore or motor protein.
cellular component
    GO:0005576    extracellular region    The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
    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:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.
    GO:0042151    nematocyst    An organelle found in cnidoblast (nematoblast) cells. When matured, these stinging organelles store toxins and can deliver them when the cnidocil (a short extension of the cnidocyst) is stimulated by a prey or another stimulus.
    GO:0044218    other organism cell membrane    The cell membrane of a secondary organism with which the first organism is interacting.
    GO:0044279    other organism membrane    A membrane of a secondary organism with which the first organism is interacting.
    GO:0046930    pore complex    Any small opening in a membrane that allows the passage of gases and/or liquids.

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 Related Entries

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

UniProtKB/Swiss-Prot
        ACTP2_STIHL | P07845: 1o71 1o72 2l2b 2l38

(-) Related Entries Specified in the PDB File

1o71 CRYSTAL STRUCTURE OF THE WATER-SOLUBLE STATE OF THE PORE-FORMING CYTOLYSIN STICHOLYSIN II COMPLEXED WITH GLYCEROL
1o72 CRYSTAL STRUCTURE OF THE WATER-SOLUBLE STATE OF THE PORE-FORMING CYTOLYSIN STICHOLYSIN II COMPLEXED WITH PHOSPHORYLCHOLINE