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(-) Description

Title :  CALCIUM-DEPENDENT PROTEIN KINASE 1 FROM TOXOPLASMA GONDII (TGCDPK1) IN COMPLEX WITH BUMPED KINASE INHIBITOR NM-PP1
 
Authors :  E. T. Larson, E. A. Merritt, Medical Structural Genomics Of Pathog Protozoa (Msgpp)
Date :  08 Jul 09  (Deposition) - 09 Feb 10  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.99
Chains :  Asym./Biol. Unit :  A
Keywords :  Protein Kinase, Calmodulin, Ef Hand, Bumped Kinase Inhibitor, Atp- Binding, Kinase, Nucleotide-Binding, Serine/Threonine-Protein Kinase, Structural Genomics, Medical Structural Genomics Of Pathogenic Protozoa, Msgpp, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. K. Ojo, E. T. Larson, K. R. Keyloun, L. J. Castaneda, A. E. Derocher, K. K. Inampudi, J. E. Kim, T. L. Arakaki, R. C. Murphy, L. Zhang, A. J. Napuli, D. J. Maly, C. L. Verlinde, F. S. Buckner, M. Parsons, W. G. Hol, E. A. Merritt, W. C. Van Voorhis
Toxoplasma Gondii Calcium-Dependent Protein Kinase 1 Is A Target For Selective Kinase Inhibitors.
Nat. Struct. Mol. Biol. V. 17 602 2010
PubMed-ID: 20436472  |  Reference-DOI: 10.1038/NSMB.1818
(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
    Fragment: RESIDUES 30-507
    Gene: CDPK1, TGCDPK1
    Organism Scientific: TOXOPLASMA GONDII
    Organism Taxid: 5811

 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
1BK11Ligand/Ion1-(1-METHYLETHYL)-3-(NAPHTHALEN-1-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:126 , GLU A:129 , VAL A:130 , TYR A:131 , LEU A:181 , ASP A:195 , EDO A:702 , HOH A:811BINDING SITE FOR RESIDUE BK1 A 701
2AC2SOFTWAREMET A:112 , ASP A:195 , PHE A:196 , BK1 A:701 , HOH A:809BINDING SITE FOR RESIDUE EDO A 702
3AC3SOFTWARELYS A:211 , GLY A:213 , THR A:214 , ALA A:215 , VAL A:469BINDING SITE FOR RESIDUE EDO A 703
4AC4SOFTWAREGLY A:225 , THR A:226 , TYR A:227 , GLU A:444 , ARG A:448 , HOH A:864BINDING SITE FOR RESIDUE EDO A 704
5AC5SOFTWARETYR A:267 , PHE A:269 , ARG A:286 , TYR A:421BINDING SITE FOR RESIDUE DMS A 705

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3I7B)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3I7B)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3I7B)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3I7B)

(-) Exons   (0, 0)

(no "Exon" information available for 3I7B)

(-) 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:459
 aligned with Q9BJF5_TOXGO | Q9BJF5 from UniProtKB/TrEMBL  Length:507

    Alignment length:462
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395       405       415       425       435       445       455       465       475       485       495       505  
         Q9BJF5_TOXGO    46 IFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGN 507
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author hhhhheeeeeeeeee..eeeeeeee.....eeeeeeee........hhhhhhhhhhhhhhh.......eeeeee...eeeeee......hhhhhhh.....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee........eee...hhhhhh....hhhhhh......hhhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eehhhhhhhhhhhhhhhh......---.hhhhhhhhhhhhhh......eehhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhh..hhhhhhhhhhhhh.....eeehhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 3i7b A  46 IFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASM---SAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGN 507
                                    55        65        75        85        95       105       115       125       135       145       155       165       175       185       195       205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       365       375       385       395 |   | 405       415       425       435       445       455       465       475       485       495       505  
                                                                                                                                                                                                                                                                                                                                                                                         397 401
   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 3I7B)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3I7B)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3I7B)

(-) 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 3i7c 3ku2 3ma6 3n51 3nyv 3sx9 3sxf 3t3u 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 PROTEIN
3i7c SAME PROTEIN IN COMPLEX WITH BUMPED KINASE INHIBITOR NA-PP2
3mwu HOMOLOGUE FROM C. PARVUM IN CALCIUM-ACTIVATED FORM IN COMPLEX WITH BUMPED KINASE INHIBITOR RM-1-95
3n51 SAME PROTEIN IN COMPLEX WITH BUMPED KINASE INHIBITOR RM-1-95
3ncg HOMOLOGUE FROM C. PARVUM IN CALCIUM-ACTIVATED FORM IN COMPLEX WITH BUMPED KINASE INHIBITOR NM-PP1