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(-) Description

Title :  INITIAL CRYSTALLOGRAPHIC STRUCTURAL ANALYSIS OF A PUTATIVE HAD/COF-LIKE HYDROLASE FROM PLASMODIUM VIVAX
 
Authors :  M. A. Robien, J. Bosch, W. G. J. Hol, Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp)
Date :  19 Sep 05  (Deposition) - 27 Sep 05  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.70
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Sgpp, Structural Genomics, Psi, Protein Structure Initiative, Structural Genomics Of Pathogenic Protozoa Consortium, Unknown Function (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Robien, J. Bosch, W. G. J. Hol, Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp)
Initial Crystallographic Structural Analysis Of A Putative Had/Cof-Like Hydrolase From Plasmodium Vivax
To Be Published
PubMed: search
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PVIVAX HYPOTHETICAL PROTEIN
    Chains: A, B, C, D
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET14B
    Expression System Strain: BL21STAR(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: T7 SYSTEM
    Organism Common: MALARIA PARASITE P. VIVAX
    Organism Scientific: PLASMODIUM VIVAX
    Organism Taxid: 5855
    Synonym: PUTATIVE COF-LIKE HYDROLASE, HAD-SUPERFAMILY, SUBFAMILY IIB

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 8)

Asymmetric Unit (2, 8)
No.NameCountTypeFull Name
1CA4Ligand/IonCALCIUM ION
2CL4Ligand/IonCHLORIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1CA-1Ligand/IonCALCIUM ION
2CL-1Ligand/IonCHLORIDE ION

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:33 , ASP A:35 , ASP A:248 , CL A:303BINDING SITE FOR RESIDUE CA A 302
2AC2SOFTWAREASP B:33 , ASP B:35 , ASP B:248 , ASP B:252 , CL B:303BINDING SITE FOR RESIDUE CA B 302
3AC3SOFTWAREASP C:33 , ASP C:35 , ASP C:248 , CL C:303BINDING SITE FOR RESIDUE CA C 302
4AC4SOFTWAREASP D:33 , ASP D:35 , ASP D:248 , CL D:303BINDING SITE FOR RESIDUE CA D 302
5AC5SOFTWAREASP A:33 , THR A:68 , GLY A:69 , CA A:302BINDING SITE FOR RESIDUE CL A 303
6AC6SOFTWAREASP B:33 , ASP B:35 , THR B:68 , CA B:302BINDING SITE FOR RESIDUE CL B 303
7AC7SOFTWAREASP C:33 , THR C:68 , CA C:302BINDING SITE FOR RESIDUE CL C 303
8AC8SOFTWAREASP D:33 , THR D:68 , CA D:302BINDING SITE FOR RESIDUE CL D 303

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2B30)

(-) Cis Peptide Bonds  (4, 4)

Asymmetric Unit
No.Residues
1Met A:92 -Pro A:93
2Met B:92 -Pro B:93
3Met C:92 -Pro C:93
4Met D:92 -Pro D:93

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2B30)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2B30)

(-) Exons   (0, 0)

(no "Exon" information available for 2B30)

(-) Sequences/Alignments

Asymmetric 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:284
 aligned with A5K063_PLAVS | A5K063 from UniProtKB/TrEMBL  Length:293

    Alignment length:284
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
         A5K063_PLAVS     9 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 292
               SCOP domains -d2b30a1 A:18-300 PFL1270w orthologue                                                                                                                                                                                                                                                        SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhh......eeeee.............hhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhhhhh.....eeehhh.eee.....eeee...hhhhhhhhhhhhhhh.hhh.eeeee..eeeee......hhhhhhhh....eeehhhhhh......eeee.....hhhhhhhhhhhhh...eeeee.....eeeee...hhhhhhhhhhhhh..hhh.eeeee.hhhhhhhhhh..eeee....hhhhhhhh.ee.......hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b30 A  17 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 300
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296    


Chain B from PDB  Type:PROTEIN  Length:284
 aligned with A5K063_PLAVS | A5K063 from UniProtKB/TrEMBL  Length:293

    Alignment length:284
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
         A5K063_PLAVS     9 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 292
               SCOP domains d2b30b_ B: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh.....eeee..............hhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhh.....eee....eee.....eeee...hhhhhhhhhhhhhhh.hhh.eeeee..eeeee......hhhhhhhh....eeehhhhhh......eeee.....hhhhhhhhhhhhh...eeeee.....eeeee...hhhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh.eeee....hhhhhhhh.ee.......hhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b30 B  17 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 300
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296    


Chain C from PDB  Type:PROTEIN  Length:284
 aligned with A5K063_PLAVS | A5K063 from UniProtKB/TrEMBL  Length:293

    Alignment length:284
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
         A5K063_PLAVS     9 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 292
               SCOP domains d2b30c_ C: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh.....eeee..............hhhhhhhhhhhhhhh.eeeee...hhhhhhhhhhhhhhhhhh.....eee....eee.....eeee...hhhhhhhhhhhhhhh.hhh.eeeee..eeeee......hhhhhhhh....eeehhhhhh......eeee.....hhhhhhhhhhhhh...eeeee.....eeeee...hhhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh..eee....hhhhhhhh.ee...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b30 C  17 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 300
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296    


Chain D from PDB  Type:PROTEIN  Length:284
 aligned with A5K063_PLAVS | A5K063 from UniProtKB/TrEMBL  Length:293

    Alignment length:284
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288    
         A5K063_PLAVS     9 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 292
               SCOP domains d2b30d_ D: automated matches                                                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh.....eeeee.............hhhhhhhhhhhhhh..eeeee...hhhhhhhhhhhhhhhhhh.....eeehhh.eee.....eeee...hhhhhhhhhhhhhhh.hhh.eeeee..eeeee......hhhhhhhh....eeehhhhhh......eeee.....hhhhhhhhhhhhhh..eeeee.....eeeee...hhhhhhhhhhhhhh.hhh.eeeee.hhhhhhhhhhh.eeee....hhhhhhhh.ee...hhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2b30 D  17 KVEEALKGADIKLLLIDFDGTLFVDKDIKVPSENIDAIKEAIEKGYMVSICTGRSKVGILSAFGEENLKKMNFYGMPGVYINGTIVYDQIGYTLLDETIETDVYAELISYLVEKNLVNQTIFHRGESNYVTEDNKYADFLQKMYSENRSIIIRHNEMLKYRTMNKLMIVLDPSESKTVIGNLKQKFKNKLTIFTTYNGHAEVTKLGHDKYTGINYLLKHYNISNDQVLVVGDAENDIAMLSNFKYSFAVANATDSAKSHAKCVLPVSHREGAVAYLLKKVFDLK 300
                                    26        36        46        56        66        76        86        96       106       116       126       136       146       156       166       176       186       196       206       216       226       236       246       256       266       276       286       296
   Legend:   → Mismatch (orange background)
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    → 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  (2, 4)

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

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2B30)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2B30)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D   (A5K063_PLAVS | A5K063)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  2b30
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