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(-) Description

Title :  CRYSTAL STRUCTURE OF TOXOPLASMA GONDII SPECIFIC RHOPTRY ANTIGEN KINASE DOMAIN
 
Authors :  A. K. Wernimont, V. V. Lunin, C. Yang, J. Lew, I. Kozieradzki, Y. H. Lin, X. Sun, C. Khuu, Y. Zhao, M. Schapira, C. H. Arrowsmith, A. M. Edwards, J. Weigelt, A. Bochkarev, R. Hui, D. Sibley, W. Qiu, Structural Genomics Consortium (Sgc)
Date :  16 Jan 08  (Deposition) - 29 Jan 08  (Release) - 01 Sep 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Toxoplasma, 33. M00005, Rhoptry, Malaria, Kinase, Transferase, Structural Genomics, Structural Genomics Consortium, Sgc (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  W. Qiu, A. Wernimont, K. Tang, S. Taylor, V. Lunin, M. Schapira, S. Fentress, R. Hui, L. D. Sibley
Novel Structural And Regulatory Features Of Rhoptry Secretory Kinases In Toxoplasma Gondii.
Embo J. V. 28 969 2009
PubMed-ID: 19197235  |  Reference-DOI: 10.1038/EMBOJ.2009.24
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - RHOPTRY KINASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: RESIDUES 210-568
    Gene: 33.M00005
    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, 4)

Asymmetric/Biological Unit (2, 4)
No.NameCountTypeFull Name
1EDO3Ligand/Ion1,2-ETHANEDIOL
2MG1Ligand/IonMAGNESIUM ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:442 , HOH A:745 , HOH A:793 , HOH A:802 , HOH A:803 , HOH A:859BINDING SITE FOR RESIDUE MG A 601
2AC2SOFTWAREGLU A:293 , HIS A:295 , TYR A:370 , PRO A:371 , MET A:373 , HOH A:750 , HOH A:817BINDING SITE FOR RESIDUE EDO A 602
3AC3SOFTWARELYS A:328 , VAL A:332 , SER A:393 , HIS A:397 , HOH A:743 , HOH A:855BINDING SITE FOR RESIDUE EDO A 603
4AC4SOFTWARETYR A:278 , PHE A:299 , ALA A:307 , GLN A:310 , MET A:311 , HOH A:834BINDING SITE FOR RESIDUE EDO A 604

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:499 -A:520

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Asp A:276 -Pro A:277

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3BYV)

(-) 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:345
 aligned with O15693_TOXGO | O15693 from UniProtKB/TrEMBL  Length:575

    Alignment length:361
                                   217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447       457       467       477       487       497       507       517       527       537       547       557       567 
         O15693_TOXGO   208 TDPGDVVIEELFNRIPQANVRTTSDYMQSAADSLVSTSLWNIGQPFRVESELGERPRTLVRGTLLGQEDPYAYVEATDQETGESFEVHVPLSKEKPSSNTIKQMKQEVLRLRLLRGIKNQKQAKVHLRFIFPFDLVKDPQKKKMIQGVSDEGAGWIVNGFFLYPRMQTNLQTLGEVLLSHSSTHKSLVHHARLQLTLQVIRLLAGLHHYGLVHTFFRAVDIVLDQRGGVFLTGFEHLVRDGDRVVSTVCRGFEPPELEARRATISYHRDRRTLMTFSFDAWALGLVIYWIWCADLPNTKDAPLGGSDWIFRRCKNIPQPVRALLAGFLRYPQENRLLPLQAMETPEYEQLRTELSAVLPLY 568
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains 3byvA01                 3 byvA02 A:232-37 2 Phosphorylase Kinase; domain 1                                                                                           3byvA01 A:208-231,A:373-568 Transferase(Phosphotransferase) domain 1                                                                                                                                 CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...hhhhhhhhhhhhhhhh......-hhhhhhhhhhhhh..-..eeeeee......eeeeeeeeeeee..eeeeeee.-....eeeeeeeee..-...hhhhhhhhhhhhhhhh....hhhhhhhhhh.....eeee......ee..------.eee.eeeeee...eehhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.ee....hhh.eee.....eee.hhhhhee...eee........hhhhhhhhh.hhhhhh.eee.hhhhhhhhhhhhhhhhhhh....------..hhhhhh.....hhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3byv A 208 QGPGDVVIEELFNRIPQANVRTTSE-MQSAADSLVSTSLWN-GQPFRVESELGERPRTLVRGTVLGQEDPYAYLEATD-ETGESFEVHVPYFTE-PPSNAIKQMKEEVLRLRLLRGIKNQKQAKVHLRFIFPFDLVKDPQKKKMIRV------MWVLSRFFLYPRMQSNLQTFGEVLLSHSSTHKSLVHHARLQLTLQVIRLLASLHHYGLVHTYLRPVDIVLDQRGGVFLTGFEHLVRDGARVVSSVSRGFEPPELEARRATISYHRDRRTLMTFSFDAWALGLVIYWIWCADLPI------GGSEWIFRSCKNIPQPVRALLEGFLRYPKEDRLLPLQAMETPEYEQLRTELSAALPLY 568
                                   217       227    | |237       247| |    257       267       277       287       297   | | 307       317       327       337       347      |  -   |   367       377       387       397       407       417       427       437       447       457       467       477       487       497      |  -   |   517       527       537       547       557       567 
                                                  232 |           248 |                                285 |           301 |                                                354    361                                                                                                                                            504    511                                                         
                                                    234             250                                  287             303
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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 3BYV)

(-) CATH Domains  (2, 2)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (O15693_TOXGO | O15693)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    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.
biological process
    GO:0006468    protein phosphorylation    The process of introducing a phosphate group on to a protein.

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    Asp A:276 - Pro A:277   [ RasMol ]  
 

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