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(-) Description

Title :  CRYSTAL STRUCTURE OF PLASMODIUM VIVAX GUANYLATE KINASE
 
Authors :  E. A. Merritt, I. Le Trong, Structural Genomics Of Pathogenic Pro Consortium (Sgpp)
Date :  20 Jul 07  (Deposition) - 07 Aug 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.80
Chains :  Asym./Biol. Unit :  A
Keywords :  Phosphotransferase, Purine Metabolism, Structural Genomics, Structural Genomics Of Pathogenic Protozoa Consortium, Sgpp, Psi, Protein Structure Initiative, Kinase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  I. Le Trong, E. A. Merritt
Plasmodium Vivax Guanylate Kinase.
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - GUANYLATE KINASE
    Chains: A
    EC Number: 2.7.4.8
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: BG1861
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: PV099895, PVX_099895
    Organism Common: MALARIA PARASITE P. VIVAX
    Organism Scientific: PLASMODIUM VIVAX
    Organism Taxid: 5855
    Synonym: GMP KINASE, GUANOSINE MONOPHOSPHATE KINASE

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 6)

Asymmetric/Biological Unit (3, 6)
No.NameCountTypeFull Name
15GP1Ligand/IonGUANOSINE-5'-MONOPHOSPHATE
2MSE4Mod. Amino AcidSELENOMETHIONINE
3POP1Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:37 , ARG A:41 , TYR A:53 , GLU A:72 , TYR A:76 , TYR A:81 , GLY A:82 , THR A:83 , GLU A:101 , MSE A:102 , ASN A:103 , GLY A:106 , ARG A:150 , POP A:198 , HOH A:201 , HOH A:205 , HOH A:211 , HOH A:219BINDING SITE FOR RESIDUE 5GP A 197
2AC2SOFTWAREPRO A:12 , SER A:13 , GLY A:14 , VAL A:15 , GLY A:16 , LYS A:17 , GLY A:18 , LYS A:46 , ARG A:139 , 5GP A:197 , HOH A:211 , HOH A:240BINDING SITE FOR RESIDUE POP A 198

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2QOR)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2QOR)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2QOR)

(-) PROSITE Motifs  (0, 0)

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(-) Exons   (0, 0)

(no "Exon" information available for 2QOR)

(-) 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:196
 aligned with A5K709_PLAVS | A5K709 from UniProtKB/TrEMBL  Length:196

    Alignment length:196
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190      
         A5K709_PLAVS     1 MARIPPLVVCGPSGVGKGTLIKKVLSEFPSRFRFSISCTTRNKREKETNGVDYYFVDKDDFERKLKEGQFLEFDKYANNFYGTLKSEYDLAVGEGKICLFEMNINGVKQLKESKHIQDGIYIFVKPPSIDILLGRLKNRNTEKPEEINKRMQELTREMDEADKVGFNYFIVNDDLARTYAELREYLLGSYPQLRGG 196
               SCOP domains d2qora_ A: automated matches                                                                                                                                                                         SCOP domains
               CATH domains -2qorA01 A:2-35,A:96-191           2qorA02 A:36-95 Guanylate Kinase phosphate binding domain   2qorA01 A:2-35,A:96-191 P-loop containing nucleotide triphosphate hydrolases                    ----- CATH domains
               Pfam domains --Guanylate_kin-2qorA01 A:3-189                                                                                                                                                              ------- Pfam domains
         Sec.struct. author ......eeee.....hhhhhhhhhhhhh...eee..eee.............eee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh..eeeee.hhhhhhhhhhh......eeeeee..hhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhh..eeee..hhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2qor A   1 mARIPPLVVCGPSGVGKGTLIKKVLSEFPSRFRFSISCTTRNKREKETNGVDYYFVDKDDFERKLKEGQFLEFDKYANNFYGTLKSEYDLAVGEGKICLFEmNINGVKQLKESKHIQDGIYIFVKPPSIDILLGRLKNRNTEKPEEINKRmQELTREmDEADKVGFNYFIVNDDLARTYAELREYLLGSYPQLRGG 196
                            |       10        20        30        40        50        60        70        80        90       100 |     110       120       130       140       150|      160       170       180       190      
                            |                                                                                                  102-MSE                                          151-MSE  |                                      
                            1-MSE                                                                                                                                                      158-MSE
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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  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (2, 2)

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

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: P-loop_NTPase (1112)

(-) Gene Ontology  (6, 6)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (A5K709_PLAVS | A5K709)
molecular function
    GO:0004385    guanylate kinase activity    Catalysis of the reaction: ATP + GMP = ADP + GDP.
    GO:0016301    kinase activity    Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
biological process
    GO:0046710    GDP metabolic process    The chemical reactions and pathways involving GDP, guanosine 5'-diphosphate.
    GO:0046037    GMP metabolic process    The chemical reactions and pathways involving GMP, guanosine monophosphate.
    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:0006163    purine nucleotide metabolic process    The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.

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 Related Entries

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

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(-) Related Entries Specified in the PDB File

1ex6 CRYSTAL STRUCTURE OF UNLIGANDED FORM OF GUANYLATE KINASE FROM YEAST
1ex7 CRYSTAL STRUCTURE OF YEAST GUANYLATE KINASE IN COMPLEX WITH GMP
1gky CRYSTAL STRUCTURE OF SYNTHETIC GUANYLATE KINASE IN COMPLEX WITH ITS SUBSTRATE GMP
1lvg CRYSTAL STRUCTURE OF MOUSE GUANYLATE KINASE IN COMPLEX WITH GMP AND ADP
1s4q CRYSTAL STRUCTURE OF GUANYLATE KINASE FROM MYCOBACTERIUM TUBERCULOSIS
1s96 CRYSTAL STRUCTURE OF GUANYLATE KINASE FROM E.COLI
1z6g CRYSTAL STRUCTURE OF GUANYLATE KINASE FROM PLASMODIUM FALCIPARUM
1z8f CRYSTAL STRUCTURE OF GUANYLATE KINASE DOUBLE MUTANT A58C, T157C FROM MYCOBACTERIUM TUBERCULOSIS
1znw CRYSTAL STRUCTURE OF UNLIGANDED FORM OF MYCOBACTERIUM TUBERCULOSIS GUANYLATE KINASE
1znx CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS GUANYLATE KINASE IN COMPLEX WITH GMP
1zny CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS GUANYLATE KINASE IN COMPLEX WITH GDP
1znz CRYSTAL STRUCTURE OF THE REDUCED FORM OF MYCOBACTERIUM TUBERCULOSIS GUANYLATE KINASE IN COMPLEX WITH GDP
2an9 CRYSTAL STRUCTURE OF OLIGOMERIC E.COLI GUANYLATE KINASE IN COMPLEX WITH GDP
2anb CRYSTAL STRUCTURE OF OLIGOMERIC E.COLI GUANYLATE KINASE IN COMPLEX WITH GMP
2anc CRYSTAL STRUCTURE OF UNLIGANDED FORM OF OLIGOMERIC E.COLI GUANYLATE KINASE
2f3r CRYSTAL STRUCTURE OF E.COLI GUANYLATE KINASE IN COMPLEX WITH AP5G
2f3t CRYSTAL STRUCTURE OF E.COLI GUANYLATE KINASE IN COMPLEX WITH GANCICLOVIR MONOPHOSPHATE AND AP5G
2j41 CRYSTAL STRUCTURE OF STAPHYLOCOCCUS AUREUS GUANYLATE KINASE