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(-) Description

Title :  TRYPANOSOMA CRUZI FARNESYL DIPHOSPHATE SYNTHASE HOMODIMER IN COMPLEX WITH ISOPENTENYL PYROPHOSPHATE AND 3-FLUORO-1-(2-HYDROXY-2,2-BIS-PHOSPHONO-ETHYL)-PYRIDINIUM
 
Authors :  L. M. Amzel, C. H. Huang, S. B. Gabelli, E. Oldfield
Date :  17 Jul 09  (Deposition) - 09 Feb 10  (Release) - 17 Apr 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.40
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Farnesyl Diphosphate Synthase, Fpps, Bisphosphonate, Zoledronate, Risedronate, Minodronate, Chagas Disease, Isoprene Biosynthesis, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. H. Huang, S. B. Gabelli, E. Oldfield, L. M. Amzel
Binding Of Nitrogen-Containing Bisphosphonates (N-Bps) To The Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer.
Proteins V. 78 888 2010
PubMed-ID: 19876942  |  Reference-DOI: 10.1002/PROT.22614

(-) Compounds

Molecule 1 - FARNESYL PYROPHOSPHATE SYNTHASE
    Chains: A
    EC Number: 2.5.1.10
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: FPPS
    Organism Scientific: TRYPANOSOMA CRUZI
    Organism Taxid: 5693

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 7)

Asymmetric Unit (4, 7)
No.NameCountTypeFull Name
1IPE1Ligand/Ion3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE
2MG3Ligand/IonMAGNESIUM ION
3NI91Ligand/Ion3-FLUORO-1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)PYRIDINIUM
4SO42Ligand/IonSULFATE ION
Biological Unit 1 (3, 8)
No.NameCountTypeFull Name
1IPE2Ligand/Ion3-METHYLBUT-3-ENYL TRIHYDROGEN DIPHOSPHATE
2MG-1Ligand/IonMAGNESIUM ION
3NI92Ligand/Ion3-FLUORO-1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)PYRIDINIUM
4SO44Ligand/IonSULFATE ION

(-) Sites  (7, 7)

Asymmetric Unit (7, 7)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:94 , ASP A:98 , ASP A:102 , ARG A:107 , GLN A:167 , LYS A:207 , THR A:208 , GLN A:247 , ASP A:250 , LYS A:264 , HOH A:364 , MG A:401 , MG A:402 , MG A:403 , HOH A:433 , HOH A:554 , HOH A:555 , HOH A:564 , HOH A:567 , HOH A:579 , IPE A:900BINDING SITE FOR RESIDUE NI9 A 363
2AC2SOFTWAREASP A:98 , ASP A:102 , NI9 A:363 , MG A:403 , HOH A:554 , HOH A:564BINDING SITE FOR RESIDUE MG A 401
3AC3SOFTWAREASP A:250 , NI9 A:363 , HOH A:364 , HOH A:555BINDING SITE FOR RESIDUE MG A 402
4AC4SOFTWAREASP A:98 , ASP A:102 , NI9 A:363 , HOH A:365 , MG A:401 , HOH A:567 , HOH A:617BINDING SITE FOR RESIDUE MG A 403
5AC5SOFTWAREHIS A:141BINDING SITE FOR RESIDUE SO4 A 405
6AC6SOFTWAREGLY A:47 , LYS A:48 , TYR A:49 , PHE A:50 , ARG A:51 , GLN A:91 , ARG A:108 , HOH A:421 , HOH A:423BINDING SITE FOR RESIDUE SO4 A 371
7AC7SOFTWARELYS A:48 , ARG A:51 , GLN A:91 , ARG A:108 , TYR A:211 , THR A:212 , PHE A:246 , GLN A:247 , ASP A:250 , NI9 A:363 , HOH A:406 , HOH A:423 , HOH A:447 , HOH A:464BINDING SITE FOR RESIDUE IPE A 900

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3ICN)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3ICN)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3ICN)

(-) 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:362
 aligned with Q95WL3_TRYCR | Q95WL3 from UniProtKB/TrEMBL  Length:362

    Alignment length:362
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360  
         Q95WL3_TRYCR     1 MASMERFLSVYDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKSPTFAESVAVVWEKTHKRKK 362
               SCOP domains d3icna_ A: automated matches                                                                                                                                                                                                                                                                                                                                               SCOP domains
               CATH domains 3icnA00 A:1-362 Farnesyl Diphosphate Synthase                                                                                                                                                                                                                                                                                                                              CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..ee..ee.hhhh..hhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhh.......................hhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhh..hhhhhhhhh..hhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3icn A   1 MASMERFLSVYDEVQAFLLDQLQSKYEIDPNRARYLRIMMDTTCLGGKYFRGMTVVNVAEGFLAVTQHDEATKERILHDACVGGWMIEFLQAHYLVEDDIMDGSVMRRGKPCWYRFPGVTTQCAINDGIILKSWTQIMAWHYFADRPFLKDLLCLFQKVDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLVMGLFVSEAAASVEMNLVERVAHLIGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWLAVTFLGKANAAQVAEFKANYGDKDPAKVAVVKRLYSEANLQADFAAYEAEVVREVESLIEQLKVKSPTFAESVAVVWEKTHKRKK 362
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360
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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  (1, 1)

Asymmetric Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A   (Q95WL3_TRYCR | Q95WL3)
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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 Related Entries

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

UniProtKB/Swiss-Prot
        Q95WL3_TRYCR | Q95WL3: 3id0
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        Q95WL3_TRYCR | Q95WL3: 3iba 3ick 3icm 3icz 4dwb 4dwg 4dxj 4dzw 4e1e

(-) Related Entries Specified in the PDB File

1yhk 1yhl 1yhm 3iba 3ick 3icm 3icz 3id0