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(-) Description

Title :  CRYSTAL STRUCTURE OF TOXOPLASMA GONDII CDPK3, TGME49_105860
 
Authors :  A. K. Wernimont, J. D. Artz, P. Finnerty, G. Wasney, A. Allali-Hassani, A. Bochkarev, C. H. Arrowsmith, A. M. Edwards, C. Bountra, J. Weigelt, M. Amani, Structural Genomics Consortium (Sgc)
Date :  24 Jun 09  (Deposition) - 21 Jul 09  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A
Keywords :  Calcium Dependent Kinase, Calmodulin, Troponin Parasite, Structural Genomics, Structural Genomics Consortium, Sgc, Atp-Binding, Kinase, Nucleotide-Binding, Serine/Threonine-Protein Kinase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. K. Wernimont, J. D. Artz, P. Finerty, Y. H. Lin, M. Amani, A. Allali-Hassani, G. Senisterra, M. Vedadi, W. Tempel, F. Mackenzie I. Chau, S. Lourido, L. D. Sibley, R. Hui
Structures Of Apicomplexan Calcium-Dependent Protein Kinase Reveal Mechanism Of Activation By Calcium.
Nat. Struct. Mol. Biol. V. 17 596 2010
PubMed-ID: 20436473  |  Reference-DOI: 10.1038/NSMB.1795

(-) Compounds

Molecule 1 - CALCIUM-DEPENDENT PROTEIN KINASE 3
    Chains: A
    EC Number: 2.7.11.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15_MHL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 72-537
    Gene: TGME49_105860
    Organism Scientific: TOXOPLASMA GONDII
    Organism Taxid: 508771
    Strain: ME49

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 10)

Asymmetric/Biological Unit (3, 10)
No.NameCountTypeFull Name
1GOL8Ligand/IonGLYCEROL
2J601Ligand/Ion5-[(E)-(5-CHLORO-2-OXO-1,2-DIHYDRO-3H-INDOL-3-YLIDENE)METHYL]-N-[2-(DIETHYLAMINO)ETHYL]-2,4-DIMETHYL-1H-PYRROLE-3-CARBOXAMIDE
3MG1Ligand/IonMAGNESIUM ION

(-) Sites  (10, 10)

Asymmetric Unit (10, 10)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:394 , ASN A:396 , ASP A:398 , GLN A:400 , TYR A:447 , HOH A:545 , HOH A:546BINDING SITE FOR RESIDUE MG A 601
02AC2SOFTWAREGLU A:124 , ASN A:194 , ILE A:195 , VAL A:196 , LEU A:223 , SER A:224 , ALA A:225 , HOH A:580BINDING SITE FOR RESIDUE GOL A 602
03AC3SOFTWAREHOH A:6 , LYS A:105 , MET A:137 , LEU A:151 , MET A:153 , ASP A:220 , PHE A:221BINDING SITE FOR RESIDUE GOL A 1
04AC4SOFTWAREHOH A:11 , THR A:114 , SER A:116 , ASN A:117 , HOH A:644BINDING SITE FOR RESIDUE GOL A 538
05AC5SOFTWAREGLY A:119 , LEU A:122 , ASP A:123BINDING SITE FOR RESIDUE GOL A 539
06AC6SOFTWARELYS A:81 , LEU A:82 , ALA A:103 , MET A:137 , MET A:153 , GLU A:154 , VAL A:155 , TYR A:156 , LEU A:206 , ASP A:220 , ARG A:468 , GOL A:541 , GOL A:542BINDING SITE FOR RESIDUE J60 A 540
07AC7SOFTWAREHOH A:61 , ARG A:157 , GLY A:159 , LYS A:210 , J60 A:540 , HOH A:560BINDING SITE FOR RESIDUE GOL A 541
08AC8SOFTWAREHOH A:63 , SER A:84 , GLU A:160 , GLU A:203 , LEU A:206 , VAL A:219 , J60 A:540 , HOH A:674BINDING SITE FOR RESIDUE GOL A 542
09AC9SOFTWAREASP A:253 , GLU A:254 , LYS A:255 , HOH A:570BINDING SITE FOR RESIDUE GOL A 543
10BC1SOFTWARETYR A:87 , GLY A:88 , GLU A:89 , ILE A:106 , LYS A:108 , SER A:111BINDING SITE FOR RESIDUE GOL A 544

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Pro A:296 -Pro A:297

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3HZT)

(-) Exons   (0, 0)

(no "Exon" information available for 3HZT)

(-) 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:421
 aligned with Q3HNM6_TOXGO | Q3HNM6 from UniProtKB/TrEMBL  Length:537

    Alignment length:461
                                    82        92       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       512       522       532 
         Q3HNM6_TOXGO    73 SDRYQRVKKLGSGAYGEVLLCKDKLTGAERAIKIIKKSSVTTTSNSGALLDEVAVLKQLDHPNIMKLYEFFEDKRNYYLVMEVYRGGELFDEIILRQKFSEVDAAVIMKQVLSGTTYLHKHNIVHRDLKPENLLLESKSRDALIKIVDFGLSAHFEVGGKMKERLGTAYYIAPEVLRKKYDEKCDVWSCGVILYILLCGYPPFGGQTDQEILKRVEKGKFSFDPPDWTQVSDEAKQLVKLMLTYEPSKRISAEEALNHPWIVKFCSQKHTDVGKHALTGALGNMKKFQSSQKLAQAAMLFMGSKLTTLEETKELTQIFRQLDNNGDGQLDRKELIEGYRKLMQWKGDTVSDLDSSQIEAEVDHILQSVDFDRNGYIEYSEFVTVCMDKQLLLSRERLLAAFQQFDSDGSGKITNEELGRLFGVTEVDDETWHQVLQECDKNNDGEVDFEEFVEMMQKICDV 533
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeeeee..eeeeeeee.....eeeeeeee.hhhee..hhhhhhhhhhhhhhh.......eeeeee...eeeeee......hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee........eee........ee.--------.hhhhhhhhhhh....hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh............hhhhhhhhhhhh........hhhhhhhhhhhhhhhh.----.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhh---------hhhhhhhhhhhhhhhhh-...eeehhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhh...------------------.eeehhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3hzt A  73 SDRYQRVKKLGSGAYGEVLLCKDKLTGAERAIKIIKKSSVTTTSNSGALLDEVAVLKQLDHPNIMKLYEFFEDKRNYYLVMEVYRGGELFDEIILRQKFSEVDAAVIMKQVLSGTTYLHKHNIVHRDLKPENLLLESKSRDALIKIVDFGLSAHFEV--------GTAYYIAPEVLRKKYDEKCDVWSCGVILYILLCGYPPFGGQTDQEILKRVEKGKFSFDPPDWTQVSDEAKQLVKLMLTYEPSKRISAEEALNHPWIVKFCSQ----VGKHALTGALGNMKKFQSSQKLAQAAMLFMGSKLTTLEETKELTQIFRQLDNNGDGQLDRKELIEGYRKLMQW---------SSQIEAEVDHILQSVDF-RNGYIEYSEFVTVCMDKQLLLSRERLLAAFQQFDSDGSGKITNEELGRLFGVTE------------------GEVDFEEFVEMMQKICDV 533
                                    82        92       102       112       122       132       142       152       162       172       182       192       202       212       222      |  -     | 242       252       262       272       282       292       302       312       322       332      |  - |     352       362       372       382       392       402       412   |     -   |   432       442 |     452       462       472       482       492    |    -         -   |   522       532 
                                                                                                                                                                                      229      238                                                                                                  339  344                                                                     416       426             442 |                                                  497                516                 
                                                                                                                                                                                                                                                                                                                                                                                                             444
   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  (0, 0)

(no "SCOP Domain" information available for 3HZT)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3HZT)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q3HNM6_TOXGO | Q3HNM6)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0005509    calcium ion binding    Interacting selectively and non-covalently with calcium ions (Ca2+).
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0004672    protein kinase activity    Catalysis of the phosphorylation of an amino acid residue in a protein, usually according to the reaction: a protein + ATP = a phosphoprotein + ADP.
    GO:0004674    protein serine/threonine kinase activity    Catalysis of the reactions: ATP + protein serine = ADP + protein serine phosphate, and ATP + protein threonine = ADP + protein threonine phosphate.
biological process
    GO:0016310    phosphorylation    The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.

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 Related Entries

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

UniProtKB/TrEMBL
        Q3HNM6_TOXGO | Q3HNM6: 3dxn 3khe

(-) Related Entries Specified in the PDB File

3hx4 CALCIUM-ACTIVATED HOMOLOG