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(-) Description

Title :  CALCIUM-DEPENDENT PROTEIN KINASE 1 FROM TOXOPLASMA GONDII (TGCDPK1) IN COMPLEX WITH NON-SPECIFIC INHIBITOR WHI-P180
 
Authors :  E. T. Larson, E. A. Merritt, Medical Structural Genomics Of Pathog Protozoa (Msgpp)
Date :  15 Jul 10  (Deposition) - 28 Jul 10  (Release) - 28 Jul 10  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.88
Chains :  Asym./Biol. Unit :  A
Keywords :  Serine/Threonine Protein Kinase, Transferase, Calcium-Binding, Atp- Binding, Calmodulin, Ef Hand, Bumped Kinase Inhibitor, Structural Genomics, Medical Structural Genomics Of Pathogenic Protozoa, Msgpp, Transferase-Transferase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. T. Larson, K. K. Ojo, J. E. Kim, C. L. M. J. Verlinde, F. S. Buckner, W. G. J. Hol, E. A. Merritt, W. C. Van Voorhis
Binding Modes Of Non-Specific Inhibitors Of Calcium-Dependent Protein Kinase 1 (Cdpk1) From T. Gondii And C. Parvum
To Be Published
PubMed: search
(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: TGCDPK1, RESIDUES 30-507
    Gene: AAG53993, CDPK1
    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  (2, 13)

Asymmetric/Biological Unit (2, 13)
No.NameCountTypeFull Name
1DTQ1Ligand/Ion4-[3-HYDROXYANILINO]-6,7-DIMETHOXYQUINAZOLINE
2MSE12Mod. Amino AcidSELENOMETHIONINE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLY A:58 , LYS A:59 , ALA A:78 , LYS A:80 , MSE A:112 , LEU A:126 , GLU A:129 , TYR A:131 , LEU A:181 , ASP A:195 , LEU A:198 , HOH A:855 , HOH A:861BINDING SITE FOR RESIDUE DTQ A 701

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3NYV)

(-) 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:457
 aligned with Q9BJF5_TOXGO | Q9BJF5 from UniProtKB/TrEMBL  Length:507

    Alignment length:466
                                    51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341       351       361       371       381       391       401       411       421       431       441       451       461       471       481       491       501      
         Q9BJF5_TOXGO    42 HSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNIMKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYMHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKMKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKMLTYVPSMRISARDALDHEWIQTYTKEQISVDVPSLDNAILNIRQFQGTQKLAQAALLYMGSKLTSQDETKELTAIFHKMDKNGDGQLDRAELIEGYKELMRMKGQDASMLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAMDRKTLLSRERLERAFRMFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQMLLKLCGN 507
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) ---------Pkinase-3nyvA04 A:51-308                                                                                                                                                                                                                                          -------------------------------------------------------------------------------------------------------------------------------------EF_hand_4-3nyvA01 A:442-472    ----------------------------------- Pfam domains (1)
           Pfam domains (2) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EF_hand_5-3nyvA02 A:442-501                                 ------ Pfam domains (2)
           Pfam domains (3) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------EF_hand_5-3nyvA03 A:442-501                                 ------ Pfam domains (3)
         Sec.struct. author ....hhhhheeeeeeeeee..eeeeeeee.....eeeeeeee........hhhhhhhhhhhhh.........eeeeee...eeeeee......hhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh.......hhh.eee........eee...hhhhhh....hhhhhhhhhhh.hhhhhhh...hhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhh.-----....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhh----hhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhhhhhhhhhhhhhhhhhhh.....eeehhhhhhhhhhh..hhhhhhhhhhhhh.....eeehhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3nyv A  42 HSTAIFSDRYKGQRVLGKGSFGEVILCKDKITGQECAVKVISKRQVKQKTDKESLLREVQLLKQLDHPNImKLYEFFEDKGYFYLVGEVYTGGELFDEIISRKRFSEVDAARIIRQVLSGITYmHKNKIVHRDLKPENLLLESKSKDANIRIIDFGLSTHFEASKKmKDKIGTAYYIAPEVLHGTYDEKCDVWSTGVILYILLSGCPPFNGANEYDILKKVEKGKYTFELPQWKKVSESAKDLIRKmLTYVPSmRISARDALDHEWIQTYTK-----DVPSLDNAILNIRQFQGTQKLAQAALLYmGSKLTSQDETKELTAIFHKmDKNGDGQLDRAELIEGYKELmR----DASmLDASAVEHEVDQVLDAVDFDKNGYIEYSEFVTVAmDRKTLLSRERLERAFRmFDSDNSGKISSTELATIFGVSDVDSETWKSVLSEVDKNNDGEVDFDEFQQmLLKLCGN 507
                                    51        61        71        81        91       101       111|      121       131       141       151       161   |   171       181       191       201      |211       221       231       241       251       261       271       281      |291   |   301       311 |     321       331       341     | 351       361     | 371       381      || -  |  | 401       411       421       431|      441       451       461       471       481       491       501      
                                                                                                112-MSE                                              165-MSE                                    208-MSE                                                                         288-MSE  |               313   319                         347-MSE             367-MSE              388-MSE94  |                                432-MSE          449-MSE                                            500-MSE   
                                                                                                                                                                                                                                                                                       295-MSE                                                                                       389     397-MSE
   Legend:   → Mismatch (orange background)
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  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 3NYV)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (3, 4)

Asymmetric/Biological Unit
(-)
Clan: EF_hand (270)
(-)
Clan: PKinase (934)

(-) 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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  2.7.11.17
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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 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 SAME PROTEIN, APO
3i7b SAME PROTEIN IN COMPLEX WITH NM-PP1
3i7c SAME PROTEIN IN COMPLEX WITH NA-PP2
3mwu CALCIUM-ACTIVATED HOMOLOGUE FROM C. PARVUM IN COMPLEX WITH RM-1-95
3n51 SAME PROTEIN IN COMPLEX WITH RM-1-95
3ncg CALCIUM-ACTIVATED HOMOLOGUE FROM C. PARVUM IN COMPLEX WITH NM-PP1