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(-) Description

Title :  THE STRUCTURE OF TRANSPORTER ASSOCIATED DOMAIN CORC_HLYC FROM A XYLELLA FASTIDIOSA TEMECULA1 HEMOLYSIN.
 
Authors :  M. E. Cuff, L. Volkart, J. Abdullah, T. A. Binkowski, A. Joachimiak, Mid Center For Structural Genomics (Mcsg)
Date :  15 Dec 06  (Deposition) - 16 Jan 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Pfam03471, Xylella Fastidiosa Temecula1, Hemolysin, Structural Genomics, Psi-2, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg, Toxin (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. E. Cuff, L. Volkart, J. Abdullah, T. A. Binkowski, A. Joachimiak
The Structure Of Transporter Associated Domain Corc_hlyc From A Xylella Fastidiosa Temecula1 Hemolysin.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - HEMOLYSIN
    Atcc: 700964
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21
    Expression System Plasmid: PMCSG7
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: TLYC
    Organism Scientific: XYLELLA FASTIDIOSA
    Organism Taxid: 183190
    Other Details: AUTHORS STATE THAT ALTHOUGH THIS PROTEIN IS A FRAGMENT OF A PUTATIVE HEMOLYSIN (A TOXIN), THE FUNCTION OF THIS DOMAIN IS UNKNOWN
    Strain: TEMECULA1

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric Unit (4, 7)
No.NameCountTypeFull Name
1CA2Ligand/IonCALCIUM ION
2EDO2Ligand/Ion1,2-ETHANEDIOL
3MLY1Mod. Amino AcidN-DIMETHYL-LYSINE
4MSE2Mod. Amino AcidSELENOMETHIONINE
Biological Unit 1 (3, 10)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2EDO4Ligand/Ion1,2-ETHANEDIOL
3MLY2Mod. Amino AcidN-DIMETHYL-LYSINE
4MSE4Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:76 , ASP A:78 , ASP A:83 , CA A:102BINDING SITE FOR RESIDUE CA A 101
2AC2SOFTWAREASP A:76 , LEU A:77 , ASP A:78 , ASP A:83 , CA A:101 , HOH A:203 , HOH A:207 , HOH A:216BINDING SITE FOR RESIDUE CA A 102
3AC3SOFTWAREARG A:12 , GLN A:88BINDING SITE FOR RESIDUE EDO A 201
4AC4SOFTWAREASP A:20 , GLY A:21 , THR A:22 , ARG A:81 , ILE A:82 , ASP A:83 , HOH A:209 , HOH A:266BINDING SITE FOR RESIDUE EDO A 202

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2OAI)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2OAI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2OAI)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2OAI)

(-) 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:80
 aligned with Q87DZ3_XYLFT | Q87DZ3 from UniProtKB/TrEMBL  Length:448

    Alignment length:87
                                   362       372       382       392       402       412       422       432       
         Q87DZ3_XYLFT   353 EDALMVTREDGSFLIDGTLPIEELREVLGAELPDGEENNYHTLAGMCISYFGRIPHVGEYFDWAGWRIEIVDLDGARIDKLLLQRLN 439
               SCOP domains d2oaia1 A:5-91 Hemolysin TlyC                                                           SCOP domains
               CATH domains 2oaiA00 A:5-91  [code=3.30.465       .10, no name defined]                              CATH domains
               Pfam domains -----CorC_HlyC-2oaiA01 A:10-91                                                          Pfam domains
         Sec.struct. author ....eee.....eeee...hhhhhhhhhh.-------....hhhhhhhhhhh.......eeee..eeeeeeeee..eeeeeeeee.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------- Transcript
                 2oai A   5 EDALmVTREDGSFLIDGTLPIEELREVLGA-------NNYHTLAGmCISYFGRIPHVGEYFDWAGWRIEIVDLDGARIDkLLLQRLN  91
                                |   14        24        34       |44     |  54        64        74        84       
                                |                       34      42      50-MSE                            84-MLY   
                                9-MSE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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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 Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric Unit
(-)
Clan: no clan defined [family: CorC_HlyC] (12)

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q87DZ3_XYLFT | Q87DZ3)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0050660    flavin adenine dinucleotide binding    Interacting selectively and non-covalently with FAD, flavin-adenine dinucleotide, the coenzyme or the prosthetic group of various flavoprotein oxidoreductase enzymes, in either the oxidized form, FAD, or the reduced form, FADH2.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0016614    oxidoreductase activity, acting on CH-OH group of donors    Catalysis of an oxidation-reduction (redox) reaction in which a CH-OH group act as a hydrogen or electron donor and reduces a hydrogen or electron acceptor.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    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.

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        Q87DZ3_XYLFT | Q87DZ3: 2r8d

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