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(-) Description

Title :  CRYPTOSPORIDIUM PARVUM PUTATIVE POLYPRENYL PYROPHOSPHATE SYNTHASE (CGD4_2550) IN COMPLEX WITH RISEDRONATE.
 
Authors :  M. Chruszcz, J. D. Artz, A. Dong, J. Dunford, J. Lew, Y. Zhao, I. Kozieradski, K. L. Kavanaugh, U. Oppermann, M. Sundstrom, J. Weigelt, A. M. Edwards, C. H. Arrowsmith, A. Bochkarev, R. Hui, W. Minor, Sgc, Structural Genomics Consortium (Sgc)
Date :  29 Nov 06  (Deposition) - 12 Dec 06  (Release) - 10 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.42
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Putative Polyprenyl Pyrophosphate Synthase, Structural Genomics, Structural Genomics Consortium, Sgc, Unknown Function (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 - PUTATIVE FARNESYL PYROPHOSPHATE SYNTHASE
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: P28A-LIC
    Expression System Strain: BL21-(DE3)-CODONPLUS-RIL
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: RESIDUES 38-384
    Gene: CGD4_2550
    Organism Scientific: CRYPTOSPORIDIUM PARVUM
    Organism Taxid: 5807

 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
2RIS2Ligand/Ion1-HYDROXY-2-(3-PYRIDINYL)ETHYLIDENE BIS-PHOSPHONICACID

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN B:254 , RIS B:400BINDING SITE FOR RESIDUE MG B 501
2AC2SOFTWAREASP B:115 , ASP B:119 , RIS B:400 , HOH B:518 , HOH B:519BINDING SITE FOR RESIDUE MG B 502
3AC3SOFTWAREASP B:115 , ASP B:119 , ASP B:187 , LYS B:273 , RIS B:400 , HOH B:520BINDING SITE FOR RESIDUE MG B 503
4AC4SOFTWAREASN A:254 , RIS A:400 , HOH A:511 , HOH A:513 , HOH A:514BINDING SITE FOR RESIDUE MG A 501
5AC5SOFTWAREASP A:115 , ASP A:119 , GLN A:184 , ASP A:187 , RIS A:400 , MG A:503BINDING SITE FOR RESIDUE MG A 502
6AC6SOFTWAREASP A:115 , ASP A:119 , RIS A:400 , MG A:502 , HOH A:510 , HOH A:512BINDING SITE FOR RESIDUE MG A 503
7AC7SOFTWAREASP B:115 , ASP B:119 , ARG B:124 , LYS B:210 , THR B:211 , GLN B:251 , ASN B:254 , LYS B:273 , MG B:501 , MG B:502 , MG B:503 , HOH B:514 , HOH B:518 , HOH B:519 , HOH B:520BINDING SITE FOR RESIDUE RIS B 400
8AC8SOFTWAREASP A:115 , ASP A:119 , ARG A:124 , GLN A:184 , LYS A:210 , THR A:211 , GLN A:251 , ASN A:254 , MG A:501 , MG A:502 , MG A:503 , HOH A:510 , HOH A:512 , HOH A:513BINDING SITE FOR RESIDUE RIS A 400

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2O1O)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Ile A:229 -Gln A:230
2Asp B:24 -Tyr B:25
3Lys B:45 -Leu B:46
4Gln B:230 -Val B:231
5Tyr B:297 -Gly B:298

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2O1O)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2O1O)

(-) Exons   (0, 0)

(no "Exon" information available for 2O1O)

(-) 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 d2o1oa_ A: automated matches                                                                                                                                                                                                                                                                                                                    SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhh....hhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.............hhhhhh.......hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o1o A  23 YDYTDFINYYDKFKVIVYNVLKKLPLNDEIRKPVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITN 357
                                    32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352     


Chain B from PDB  Type:PROTEIN  Length:331
 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 d2o1ob_ B: automated mat        ches                                                                                                                                                                                                                                                                                                                SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhhhh...--------hhhhhhhhhhhhhh....hhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..eehhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.......hhhhhhhhhhhhhhhhhhhhhhhhhhh............hhhhhhhhhhh..hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhh.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2o1o B  23 YDYTDFINYYDKFKVIVYNVLKKL--------PVIEYYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYLLGWVVEAIQALILIADDIMDSGKFRRGAPCWYIVHGQSNAINDIFFLKMLSLSLIFELSSVFGNDIVMKIQKIYNESIFFTVLGQHLDLSYFDLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNLIEAILYKLGEFYQVHNDVSDYLFNDSNADDICRFKLTWPLQKSFEIADEEMKLKISENYGKNSSLVKDCYNLLKINEHYLEYQRNALDYLIKLVKDITDDSLQKVFIHLIHQISELITNSRSN 361
                                    32        42   |     -  |     62        72        82        92       102       112       122       132       142       152       162       172       182       192       202       212       222       232       242       252       262       272       282       292       302       312       322       332       342       352         
                                                  46       55
   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
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2O1O)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2O1O)

(-) 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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        Q5CR09_CRYPI | Q5CR09: 2q58

(-) Related Entries Specified in the PDB File

2her