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(-) Description

Title :  CRYSTAL STRUCTURE OF AMA1 FROM BABESIA DIVERGENS
 
Authors :  M. L. Tonkin, J. Crawford, M. L. Lebrun, M. J. Boulanger
Date :  04 Apr 12  (Deposition) - 05 Dec 12  (Release) - 16 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym./Biol. Unit :  A
Keywords :  Membrane Protein, Apicomplexa, Moving Junction, Invasion (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. L. Tonkin, J. Crawford, M. L. Lebrun, M. J. Boulanger
Babesia Divergens And Neospora Caninum Apical Membrane Antigen 1 (Ama1) Structures Reveal Selectivity And Plasticity In Apicomplexan Parasite Host Cell Invasion.
Protein Sci. V. 22 114 2013
PubMed-ID: 23169033  |  Reference-DOI: 10.1002/PRO.2193

(-) Compounds

Molecule 1 - APICAL MEMBRANE ANTIGEN 1
    Chains: A
    Engineered: YES
    Expression System: TRICHOPLUSIA NI
    Expression System Common: CABBAGE LOOPER
    Expression System Taxid: 7111
    Expression System Vector Type: BACULOVIRUS
    Fragment: DOMAINS I/II/III, RESIDUES 93-517
    Organism Scientific: BABESIA DIVERGENS
    Organism Taxid: 32595

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 11)

Asymmetric/Biological Unit (4, 11)
No.NameCountTypeFull Name
1ACT3Ligand/IonACETATE ION
2CA1Ligand/IonCALCIUM ION
3GOL6Ligand/IonGLYCEROL
4MPD1Ligand/Ion(4S)-2-METHYL-2,4-PENTANEDIOL

(-) Sites  (11, 11)

Asymmetric Unit (11, 11)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREGLY A:207 , ASP A:209 , ARG A:334 , HOH A:2051 , HOH A:2052 , HOH A:2056BINDING SITE FOR RESIDUE CA A1511
02AC2SOFTWAREASP A:212 , VAL A:213 , TYR A:239 , TRP A:300BINDING SITE FOR RESIDUE ACT A1512
03AC3SOFTWAREASP A:426 , LYS A:491 , TYR A:499 , HOH A:2135BINDING SITE FOR RESIDUE ACT A1513
04AC4SOFTWAREMET A:141 , ALA A:287 , ASP A:442BINDING SITE FOR RESIDUE ACT A1514
05AC5SOFTWAREHIS A:131 , THR A:251 , HOH A:2161BINDING SITE FOR RESIDUE GOL A1515
06AC6SOFTWAREARG A:479 , GLU A:480 , LEU A:482 , CYS A:484BINDING SITE FOR RESIDUE GOL A1516
07AC7SOFTWARETRP A:206 , ASP A:335 , GLU A:337 , GLU A:338BINDING SITE FOR RESIDUE GOL A1517
08AC8SOFTWARELYS A:110 , SER A:199 , ASP A:202 , ARG A:205BINDING SITE FOR RESIDUE GOL A1518
09AC9SOFTWARECYS A:496 , THR A:498 , HOH A:2158BINDING SITE FOR RESIDUE GOL A1519
10BC1SOFTWAREILE A:145 , ASN A:146 , LEU A:147 , ALA A:151 , ASP A:152 , PHE A:153BINDING SITE FOR RESIDUE GOL A1520
11BC2SOFTWAREGLU A:218 , GLY A:221 , ASN A:222 , PHE A:332BINDING SITE FOR RESIDUE MPD A1521

(-) SS Bonds  (6, 6)

Asymmetric/Biological Unit
No.Residues
1A:138 -A:304
2A:216 -A:246
3A:322 -A:422
4A:339 -A:413
5A:448 -A:496
6A:484 -A:502

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Ser A:196 -Pro A:197

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4APM)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4APM)

(-) Exons   (0, 0)

(no "Exon" information available for 4APM)

(-) 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:339
 aligned with C0IR59_BABDI | C0IR59 from UniProtKB/TrEMBL  Length:606

    Alignment length:418
                                   102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352       362       372       382       392       402       412       422       432       442       452       462       472       482       492       502        
         C0IR59_BABDI    93 STPKDIWGRYMAKFDLAKSHGSGIYVDLGGTERVGATQHRMPTGKCPVMGKVINLGNNADFLNRISAENPQDRGLAFPDTAVAVTRNSNARNRAAAEKTEIILSPVSAADLVRWGYDGNDVANCAEYAGNIIPASDTATKYRYPCVYDAKEEMCHILFTPMQYNRGSRYCDNDGSQDEGTSSLLCMEPMKSGIDAHLYYGSSRVDKKWEENCPMYPVKDAIFGRGANGSCVAIESAFEEFTRDAEECSALMFENAAADLEIDEEADNFDELKTLSDGLRNIKASKIAQALFSPIAKAGTSAKNSKGVGMNWANYDSNTGLCRVIEETPNCLIIDAGSFAMTAVGSPLEQDAVPFPCDIVTNGYIEPRPRSRHRNTTPIFEVTTALSREALKCSKYVHEKYSESCGTYYYCSEEKPSSW 510
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhhhhhhhh..hhhhhh.........eeeee..eeeee......ee.eeeee.............hhhhh.......---------------------....eehhhhhhh....hhhhhhhhhhhh..............eeee....eeee.........--------------......eeeee......eeee......hhhhhh....eeeeeeeeee..eeee....eeee..hhhhhhhhhhh.......---------------------------------------...........eeeee....eeeee.....eeeeeeeeeeee.....hhhhh..........ee.........-----....eee..........eeeeeee...eeeeeee....... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4apm A  93 STPKDIWGRYMAKFDLAKSHGSGIYVDLGGTERVGATQHRMPTGKCPVMGKVINLGNNADFLNRISAENPQDRGLAFPDT---------------------ILSPVSAADLVRWGYDGNDVANCAEYAGNIIPASDTATKYRYPFVYDAKEEMCHILFTPMQYNR--------------TSSLLCMEPMKSGIDAHLYYGSSRVDKKWEENCPMYPVKDAIFGRGANGSCVAIESAFEEFTRDAEECSALMFENAAADLE---------------------------------------SAKNSKGVGMNWANYDSNTGLCRVIEETPNCLIIDAGSFAMTAVGSPLEQDAVPFPCDIVTNGYIEPRPRSRH-----IFEVTTALSREALKCSKYVHEKYSESCGTYYYCSEEKPSSW 510
                                   102       112       122       132       142       152       162       172         -         - |     202       212       222       232       242       252    |    -       272       282       292       302       312       322       332       342       352         -         -         -       392       402       412       422       432       442       452       462 |     472       482       492       502        
                                                                                                         172                   194                                                            257            272                                                                             352                                     392                                                                     464   470
   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  (0, 0)

(no "SCOP Domain" information available for 4APM)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4APM)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4APM)

(-) Gene Ontology  (4, 4)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (C0IR59_BABDI | C0IR59)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0009405    pathogenesis    The set of specific processes that generate the ability of an organism to induce an abnormal, generally detrimental state in another organism.
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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4apl CRYSTAL STRUCTURE OF AMA1 FROM NEOSPORA CANINUM