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(-) Description

Title :  CALCIUM-DEPENDENT PROTEIN KINASE 1 FROM TOXOPLASMA GONDII (TGCDPK1) IN COMPLEX WITH BUMPED KINASE INHIBITOR, RM-1-130
 
Authors :  E. T. Larson, E. A. Merritt
Date :  25 Jul 11  (Deposition) - 14 Mar 12  (Release) - 09 Jan 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Serine/Threonine Protein Kinase, Transferase, Calcium-Binding, Atp- Binding, Calmodulin, Ef Hand, Bumped Kinase Inhibitor, Transferase- Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. T. Larson, K. K. Ojo, R. C. Murphy, S. M. Johnson, Z. Zhang, J. E. Kim, D. J. Leibly, A. M. Fox, M. C. Reid, E. J. Dale, B. G. Perera, J. Kim, S. N. Hewitt, W. G. Hol, C. L. Verlinde, E. Fan, W. C. Van Voorhis, D. J. Maly, E. A. Merritt
Multiple Determinants For Selective Inhibition Of Apicomplexan Calcium-Dependent Protein Kinase Cdpk1.
J. Med. Chem. V. 55 2803 2012
PubMed-ID: 22369268  |  Reference-DOI: 10.1021/JM201725V
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - CALMODULIN-DOMAIN PROTEIN KINASE 1
    Chains: A
    EC Number: 2.7.11.17
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: AVA0421
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: AAG53993, CDPK1, TGGT1_059880, TGVEG_042030
    Organism Scientific: TOXOPLASMA GONDII
    Organism Taxid: 5811
    Synonym: CALMODULIN-DOMAIN PROTEIN KINASE, PUTATIVE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 5)

Asymmetric/Biological Unit (3, 5)
No.NameCountTypeFull Name
1BK61Ligand/Ion3-(6-METHOXYNAPHTHALEN-2-YL)-1-(PIPERIDIN-4-YLMETHYL)-1H-PYRAZOLO[3,4-D]PYRIMIDIN-4-AMINE
2DMS1Ligand/IonDIMETHYL SULFOXIDE
3EDO3Ligand/Ion1,2-ETHANEDIOL

(-) Sites  (5, 5)

Asymmetric Unit (5, 5)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:65 , ALA A:78 , LYS A:80 , MET A:112 , LEU A:114 , LEU A:126 , GLU A:129 , TYR A:131 , GLU A:135 , GLU A:178 , LEU A:181 , ASP A:195 , EDO A:712 , HOH A:825BINDING SITE FOR RESIDUE BK6 A 701
2AC2SOFTWARETYR A:267 , ARG A:286 , GLY A:420 , TYR A:421BINDING SITE FOR RESIDUE DMS A 711
3AC3SOFTWAREMET A:112 , PHE A:196 , BK6 A:701 , HOH A:809BINDING SITE FOR RESIDUE EDO A 712
4AC4SOFTWAREGLY A:225 , THR A:226 , TYR A:227 , GLU A:444 , ARG A:448BINDING SITE FOR RESIDUE EDO A 713
5AC5SOFTWARESER A:160 , THR A:163 , TYR A:164 , LYS A:167BINDING SITE FOR RESIDUE EDO A 714

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3T3U)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3T3U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3T3U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3T3U)

(-) Exons   (0, 0)

(no "Exon" information available for 3T3U)

(-) 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:452
 aligned with Q9BJF5_TOXGO | Q9BJF5 from UniProtKB/TrEMBL  Length:507

    Alignment length:463
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384       394       404       414       424       434       444       454       464       474       484       494       504   
         Q9BJF5_TOXGO    45 AIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGN 507
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .hhhhheeeeeeeee....eeeeeee.....eeeeeeee........hhhhhhhhhhhhhhh.......eeeeee...eeeeee......hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee........eee...hhhhhh....hhhhhhhhhhh.hhhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhh-----------hhhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhh......eehhhhhhhhhhh..hhhhhhhhhhhhh.....eehhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3t3u A  45 AIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRM-----------AVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGN 507
                                    54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344       354       364       374       384     |   -       404       414       424       434       444       454       464       474       484       494       504   
                                                                                                                                                                                                                                                                                                                                                                                   390         402
   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 3T3U)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3T3U)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3T3U)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q9BJF5_TOXGO | Q9BJF5)
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
        Q9BJF5_TOXGO | Q9BJF5: 3hx4 3i79 3i7b 3i7c 3ku2 3ma6 3n51 3nyv 3sx9 3sxf 3t3v 3upx 3upz 3v51 3v5p 3v5t 4ieb 4ifg 4ih8 4ihp 4jbv 4m84 4ona 4tzr 4wg3 4wg4 4wg5 4yga 4yjn 5dvr 5jms 5jn2 5t6a 5t6i 5t6k

(-) Related Entries Specified in the PDB File

3i79 APO FORM OF SAME ENZYME
3i7b SAME ENZYME IN COMPLEX WITH NM-PP1
3i7c SAME ENZYME IN COMPLEX WITH NA-PP2
3mwu HOMOLOG FROM C. PARVUM IN COMPLEX WITH RM-1-95 AND CALCIUM
3n51 SAME ENZYME IN COMPLEX WITH RM-1-95
3ncg HOMOLOG FROM C. PARVUM IN COMPLEX WITH NM-PP1 AND CALCIUM
3nyv SAME ENZYME IN COMPLEX WITH WHI-P180
3sx9 SAME ENZYME IN COMPLEX WITH RM-1-132
3sxf SAME ENZYME IN COMPLEX WITH RM-1-89
3t3v SAME ENZYME IN COMPLEX WITH RM-1-87