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(-) Description

Title :  CRYPTOSPORIDIUM PARVUM PUTATIVE POLYPRENYL PYROPHOSPHATE SYNTHASE (CGD4_2550) IN COMPLEX WITH ZOLEDRONATE
 
Authors :  M. Chruszcz, J. Artz, H. Zheng, A. Dong, J. Dunford, J. Lew, Y. Zhao, I. Kozieradski, K. L. Kavanaugh, U. Opperman, M. Sundstrom, J. Weigel A. Edwards, C. Arrowsmith, A. Bochkarev, R. Hui, W. Minor, Structural Consortium (Sgc)
Date :  31 May 07  (Deposition) - 12 Jun 07  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.37
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Farnesyl Diphosphate Synthase, Structural Genomics, Structural Genomics Consortium, Sgc, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  J. D. Artz, J. E. Dunford, M. J. Arrowood, A. Dong, M. Chruszcz, K. L. Kavanagh, W. Minor, R. G. Russell, F. H. Ebetino, U. Oppermann, R. Hui
Targeting A Uniquely Nonspecific Prenyl Synthase With Bisphosphonates To Combat Cryptosporidiosis
Chem. Biol. V. 15 1296 2008
PubMed-ID: 19101474  |  Reference-DOI: 10.1016/J.CHEMBIOL.2008.10.017
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - FARNESYL PYROPHOSPHATE SYNTHASE
    ChainsA, B
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidP28A-LIC
    Expression System StrainBL21-(DE3)-CONDOMPLUS-RIL
    Expression System Taxid562
    Expression System Vector TypePLASMID
    GeneCGD4_2550
    Organism ScientificCRYPTOSPORIDIUM PARVUM
    Organism Taxid353152
    StrainIOWA II
    SynonymFRAGMENT

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 8)
No.NameCountTypeFull Name
1MG6Ligand/IonMAGNESIUM ION
2ZOL2Ligand/IonZOLEDRONIC ACID

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREZOL A:1 , MG A:4 , ASP A:1115 , ASP A:1119 , HOH A:8002BINDING SITE FOR RESIDUE MG A 3
2AC2SOFTWAREZOL A:1 , MG A:3 , ASP A:1115 , ASP A:1119 , HOH A:8001BINDING SITE FOR RESIDUE MG A 4
3AC3SOFTWAREZOL A:1 , ASN A:1254 , HOH A:8006 , HOH A:8007 , HOH A:8008BINDING SITE FOR RESIDUE MG A 5
4AC4SOFTWAREZOL B:2 , ASP B:2115 , ASP B:2119 , HOH B:8003 , HOH B:8004BINDING SITE FOR RESIDUE MG B 6
5AC5SOFTWAREZOL B:2 , ASP B:2115 , ASP B:2119 , ASP B:2187 , LYS B:2273 , HOH B:8005BINDING SITE FOR RESIDUE MG B 7
6AC6SOFTWAREZOL B:2 , ASN B:2254 , HOH B:8009 , HOH B:8010 , HOH B:8011BINDING SITE FOR RESIDUE MG B 8
7AC7SOFTWAREMG A:3 , MG A:4 , MG A:5 , LEU A:1112 , ASP A:1115 , ASP A:1119 , ARG A:1124 , GLN A:1184 , LYS A:1210 , THR A:1211 , GLN A:1251 , ASN A:1254 , HOH A:8007 , HOH A:8008BINDING SITE FOR RESIDUE ZOL A 1
8AC8SOFTWAREMG B:6 , MG B:7 , MG B:8 , ASP B:2115 , ASP B:2119 , ARG B:2124 , GLN B:2184 , LYS B:2210 , THR B:2211 , GLN B:2251 , ASN B:2254 , LYS B:2273 , HOH B:8004 , HOH B:8005 , HOH B:8009 , HOH B:8011BINDING SITE FOR RESIDUE ZOL B 2

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2Q58)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Lys B:2045 -Leu B:2046
2Tyr B:2297 -Gly B:2298

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2Q58)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2Q58)

(-) Exons   (0, 0)

(no "Exon" information available for 2Q58)

(-) 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:335
 aligned with Q5CR09_CRYPI | Q5CR09 from UniProtKB/TrEMBL  Length:384

    Alignment length:335
                                    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       298       308       318       328       338       348       358       368     
        Q5CR09_CRYPI     39 YDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITN  373
               SCOP domains d2q58a_ A: automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhhhhhhhhhhhh.............hhhhhhhhhhhhhh....hhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhh.....hhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2q58 A 1023 YDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITN 1357
                                  1032      1042      1052      1062      1072      1082      1092      1102      1112      1122      1132      1142      1152      1162      1172      1182      1192      1202      1212      1222      1232      1242      1252      1262      1272      1282      1292      1302      1312      1322      1332      1342      1352     

Chain B from PDB  Type:PROTEIN  Length:329
 aligned with Q5CR09_CRYPI | Q5CR09 from UniProtKB/TrEMBL  Length:384

    Alignment length:339
                                    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       298       308       318       328       338       348       358       368         
        Q5CR09_CRYPI     39 YDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITNSRSN  377
               SCOP domains d2q58b_ B: automated mat        ches                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ........hhhhhhhhhhhhh...--------hhhhhhhhhhhhhh....hhhhhhhhhhh..--....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2q58 B 2023 YDYTDFINYYDKFKVIVYNVLKKL--------PVIEYYLNCIDYNVKKGKHIRGKILVLISSL--AYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITNSRSN 2361
                                  2032      2042   |     -  |   2062      2072      2082  |  |2092      2102      2112      2122      2132      2142      2152      2162      2172      2182      2192      2202      2212      2222      2232      2242      2252      2262      2272      2282      2292      2302      2312      2322      2332      2342      2352         
                                                2046     2055                          2085  |                                                                                                                                                                                                                                                                                 
                                                                                          2088                                                                                                                                                                                                                                                                                 

   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  (1, 2)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2Q58)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2Q58)

(-) Gene Ontology  (2, 2)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A,B   (Q5CR09_CRYPI | Q5CR09)
molecular function
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
    GO:0008299    isoprenoid biosynthetic process    The chemical reactions and pathways resulting in the formation of any isoprenoid compound, isoprene (2-methylbuta-1,3-diene) or compounds containing or derived from linked isoprene (3-methyl-2-butenylene) residues.

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    Lys B:2045 - Leu B:2046   [ RasMol ]  
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        Q5CR09_CRYPI | Q5CR092o1o

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