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(-) Description

Title :  THE ROLE OF LYSINE 200 IN THE HUMAN FARNESYL PYROPHOSPHATE SYNTHASE CATALYTIC MECHANISM AND THE MODE OF INHIBITION BY THE NITROGEN-CONTAINING BISPHOSPHONATES
 
Authors :  M. K. Tsoumpra, J. R. C. Muniz, B. L. Barnett, E. Pilka, A. A. Kwaasi, K. L. A. Evdokimov, R. L. Walter, F. H. Ebetino, U. Oppermann, R. G. G. Russel J. E. Dunford
Date :  21 Oct 13  (Deposition) - 22 Oct 14  (Release) - 22 Oct 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.11
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Alpha-Helical Prenyltransferase Fold, Isoprene Biosynthesis, Lipid Synthesis, Steroid Biosynthesis, Dimethylallyl Pyrophosphate, Isopentenyl Pyrophosphate, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. K. Tsoumpra, J. R. C. Muniz, B. L. Barnett, E. Pilka, A. A. Kwaasi, K. L. Kavanagh, A. Evdokimov, R. L. Walter, F. H. Ebetino, U. Oppermann R. G. G. Russell, J. E. Dunford
The Role Of Lysine 200 In The Human Farnesyl Pyrophosphate Synthase Catalytic Mechanism And The Mode Of Inhibition By The Nitrogen-Containing Bisphosphonates
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - FARNESYL PYROPHOSPHATE SYNTHASE
    Chains: A
    EC Number: 2.5.1.10, 2.5.1.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 11
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 67-419
    Gene: FDPS, FPS, KIAA1293
    Mutation: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: FPP SYNTHASE, FPS, (2E,6E)-FARNESYL DIPHOSPHATE SYNTHASE, DIMETHYLALLYLTRANSTRANSFERASE, FARNESYL DIPHOSPHATE SYNTHASE, GERANYLTRANSTRANSFERASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 6)
No.NameCountTypeFull Name
1EDO2Ligand/Ion1,2-ETHANEDIOL
2MG3Ligand/IonMAGNESIUM ION
3RIS1Ligand/Ion1-HYDROXY-2-(3-PYRIDINYL)ETHYLIDENE BIS-PHOSPHONIC ACID
Biological Unit 1 (2, 6)
No.NameCountTypeFull Name
1EDO4Ligand/Ion1,2-ETHANEDIOL
2MG-1Ligand/IonMAGNESIUM ION
3RIS2Ligand/Ion1-HYDROXY-2-(3-PYRIDINYL)ETHYLIDENE BIS-PHOSPHONIC ACID

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASP A:103 , ASP A:107 , MG A:403 , RIS A:404 , HOH A:553 , HOH A:554 , HOH A:581BINDING SITE FOR RESIDUE MG A 401
2AC2SOFTWAREASP A:243 , RIS A:404 , HOH A:550 , HOH A:551 , HOH A:552 , HOH A:582BINDING SITE FOR RESIDUE MG A 402
3AC3SOFTWAREASP A:103 , ASP A:107 , MG A:401 , RIS A:404 , HOH A:556 , HOH A:557 , HOH A:558BINDING SITE FOR RESIDUE MG A 403
4AC4SOFTWARELEU A:100 , ASP A:103 , ASP A:107 , ARG A:112 , GLN A:171 , GLY A:200 , THR A:201 , GLN A:240 , ASP A:243 , LYS A:257 , MG A:401 , MG A:402 , MG A:403 , HOH A:540 , HOH A:549 , HOH A:550 , HOH A:551 , HOH A:552 , HOH A:554 , HOH A:557 , HOH A:558 , HOH A:562 , HOH A:563 , HOH A:579 , HOH A:581 , HOH A:582BINDING SITE FOR RESIDUE RIS A 404
5AC5SOFTWAREGLU A:136 , ALA A:137 , TYR A:140 , LEU A:161 , SER A:164 , HOH A:523 , HOH A:564BINDING SITE FOR RESIDUE EDO A 405
6AC6SOFTWAREARG A:141 , GLN A:162 , HOH A:523 , HOH A:608BINDING SITE FOR RESIDUE EDO A 406

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4N9U)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Ala A:334 -Pro A:335

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4N9U)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4N9U)

(-) Exons   (0, 0)

(no "Exon" information available for 4N9U)

(-) 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:338
                                                                                                                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...ee..ee.hhhh..hhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...........hhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4n9u A   8 DVYAQEKQDFVQHFSQIVRVLTEHPEIGDAIARLKEVLEYNTIGGKYNRGLTVVVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGVGLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQSSYQTEIGQTLDLLTAPQGNVDLVRFTEKRYKSIVKYGTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQIQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKENYGQKEAEKVARVKALYEELDLPAVFLQYEEDSYSHIMALIEQYAAPLPPAVFLGLARKIY 349
                                    17        27  ||    41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311       321       331       341        
                                                 30|                                                                                                                                                                                                                                                                                                                          
                                                  35
   Legend:   → Mismatch (orange background)
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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  (0, 0)

(no "SCOP Domain" information available for 4N9U)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4N9U)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4N9U)

(-) Gene Ontology  (17, 17)

Asymmetric Unit(hide GO term definitions)

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    Ala A:334 - Pro A:335   [ RasMol ]  
 
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 Related Entries

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

UniProtKB/Swiss-Prot
        FPPS_HUMAN | P14324: 1yq7 1yv5 1zw5 2f7m 2f89 2f8c 2f8z 2f92 2f94 2f9k 2opm 2opn 2qis 2rah 2vf6 3b7l 3cp6 3n1v 3n1w 3n3l 3n45 3n46 3n49 3n5h 3n5j 3n6k 3rye 3s4j 4dem 4ga3 4h5c 4h5d 4h5e 4jvj 4kfa 4kpd 4kpj 4kq5 4kqs 4kqu 4l2x 4lfv 4lpg 4lph 4n1z 4nfi 4nfj 4nfk 4ng6 4nke 4nkf 4nua 4ogu 4p0v 4p0w 4p0x 4pvx 4pvy 4q23 4qpf 4qxs 4rxa 4xqr 4xqs 4xqt 5cg5 5cg6 5dgm 5dgn 5dgs 5diq 5djp 5djr 5djv 5ja0 5juz 5jv0 5jv1 5jv2 5ksx

(-) Related Entries Specified in the PDB File

1yq7 FARNESYL PYROPHOSPHATE SYNTHASE NATIVE COMPLEX
4kfa FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4kpd FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4kpj FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4kq5 FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4kqs FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4kqu FARNESYL PYROPHOSPHATE SYNTHASE MUTANT
4ng6
4nke
4nkf
4nua