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(-) Description

Title :  CRYPTOCOCCUS NEOFORMANS PROTEIN FARNESYLTRANSFERASE IN COMPLEX WITH FARNESYL-DDPTASACNIQ PRODUCT
 
Authors :  M. A. Hast, L. S. Beese
Date :  04 Jan 11  (Deposition) - 03 Aug 11  (Release) - 19 Oct 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.51
Chains :  Asym./Biol. Unit :  A,B,P
Keywords :  Protein Prenyltransferase, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. A. Hast, C. B. Nichols, S. M. Armstrong, S. M. Kelly, H. W. Hellinga, J. A. Alspaugh, L. S. Beese
Structures Of Cryptococcus Neoformans Protein Farnesyltransferase Reveal Strategies For Developing Inhibitors That Target Fungal Pathogens.
J. Biol. Chem. V. 286 35149 2011
PubMed-ID: 21816822  |  Reference-DOI: 10.1074/JBC.M111.250506

(-) Compounds

Molecule 1 - FARNESYLTRANSFERASE ALPHA SUBUNIT
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CRYPTOCOCCUS NEOFORMANS
    Organism Taxid: 235443
    Strain: H99
 
Molecule 2 - FARNESYLTRANSFERASE BETA SUBUNIT
    Chains: B
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: CRYPTOCOCCUS NEOFORMANS
    Organism Taxid: 235443
    Strain: H99
 
Molecule 3 - ISOPRENYLATED PRODUCT
    Chains: P
    Engineered: YES
    Other Details: SYNTHETIC SUBSTRATE
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABP

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 6)

Asymmetric/Biological Unit (4, 6)
No.NameCountTypeFull Name
13CX3Ligand/Ion(2S)-3-(CYCLOHEXYLAMINO)-2-HYDROXYPROPANE-1-SULFONICACID
2FAR1Ligand/IonFARNESYL
3SO41Ligand/IonSULFATE ION
4ZN1Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARETYR A:109 , TYR B:200 , HIS B:266 , GLY B:268 , CYS B:272 , ASP B:323 , CYS B:325 , TYR B:326 , TRP B:329 , TYR B:409 , ZN B:521 , SO4 B:522 , CYS P:2006 , ILE P:2008BINDING SITE FOR RESIDUE FAR B 2010
2AC2SOFTWAREASP B:323 , CYS B:325 , HIS B:410 , FAR B:2010 , CYS P:2006BINDING SITE FOR RESIDUE ZN B 521
3AC3SOFTWAREARG B:317 , LYS B:320 , TYR B:326 , FAR B:2010 , HOH B:2121 , HOH B:2130BINDING SITE FOR RESIDUE SO4 B 522
4AC4SOFTWARETYR B:58 , ASP B:100 , ALA B:105 , GLY B:489 , LYS B:490 , ASP B:491 , ARG B:493 , ASN B:495 , HOH B:1774BINDING SITE FOR RESIDUE 3CX B 523
5AC5SOFTWAREARG B:62 , LYS B:63 , GLN B:64 , GLU B:65 , PHE B:74 , LEU B:99BINDING SITE FOR RESIDUE 3CX B 524
6AC6SOFTWAREALA A:50 , SER B:123 , PRO B:124 , LYS B:125 , ALA B:133 , ASN B:134 , SER B:135BINDING SITE FOR RESIDUE 3CX B 525

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3Q79)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Leu A:285 -Pro A:286
2Phe B:288 -Pro B:289

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3Q79)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3Q79)

(-) Exons   (0, 0)

(no "Exon" information available for 3Q79)

(-) 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:314
 aligned with Q55S71_CRYNB | Q55S71 from UniProtKB/TrEMBL  Length:336

    Alignment length:330
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334
        Q55S71_CRYNB      5 TYIPMSQRQSWADIKPIIQDDGPNPVVPIMYSEEYKDAMDYFRAIAAKEEKSERALELTEVIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHESLLPDPKNYHTWAYLHWLYSHFSILGRISEAQWESELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSHNLQDELIYILKSIHFIPHNVSAWNYLRGFLKHFSLPLTPILPAILPYTASKPNTDMETVGTFHFPVPSDPLPEDTPLPVPLALEYLADSFIEQNRLDDAAEVFEKLSSKYDKMRAGYWEFRRRECV  334
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ...hhhhhhhhh...................hhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhh...hhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhh...hhhhhhhhhhhhh--------------.....--........hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                3q79 A    5 TYIPMSQRRSWADVKPIMQDDGPNPVVPIMYSEEYKDAMDYFRAIAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTA--------------FPMPS--LPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRRECA  334
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254  |      -       274 |  |  284       294       304       314       324       334
                                                                                                                                                                                                                                                                                      257            272 276  |                                                       
                                                                                                                                                                                                                                                                                                            279                                                       


Chain B from PDB  Type:PROTEIN  Length:480
 aligned with Q55QV6_CRYNB | Q55QV6 from UniProtKB/TrEMBL  Length:521

    Alignment length:517
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313       323       333       343       353       363       373       383       393       403       413       423       433       443       453       463       473       483       493       503       513       
        Q55QV6_CRYNB      4 EFTPSVYSLVSTPLPSNSRPSATLDEQAETEDLISQLFDLTADPNALVSQHGKIYSGLRKQEHTQFLASTFFQLPGKFVSLDASRPWLIFWTVHSLDLLGVALDQGTKDRVVSTLLHFLSPKGGFAGGPANSQIPHLLPTYASVCSLAITGNDGPTGGWKDLADARQSLYEFFMRCKRPDGGFVVCEGGEVDVRGTYCLLVVATLLDIITPELLHNVDKFVSACQTYEGGFACASFPFPSVVPSTSALPTSEPSCRVSMAEAHGGYTSCSLNSHFLLTSVPLPSFPSSIDASAALRWTVLQQGEAIEGGGFRGRTNKLVDGCYSWWVGGGAPVAEELVRREKSKKVKKSRVELIEEEEKEGDWEDVPPIPPTFNRVALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQHKMSHSPSAVSSNRLKFDASKGLPAIEPVAPGGGWKNEDERRNARREIWANALGWIEEEGGEIIVGGRDNRVNTTTPVFNILGLRLKPFINYFYCQE  520
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....hhhhh...........hhhhhhhhhhhhhhhhhhhhh......--.........hhhhhhhhhhh-....hhhhhhhh.hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhh..................hhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhhh..hhhhhhhhhhhhhh...........eeee.------------...eeee....hhhhhhhhhhhhhhhh...........hhhhhhhhhhhh..hhhhh.............hhhhhh..hhhhhhhhhhhhhhhhh----------------------.....hhhhhhhhhhhh...................hhhhhhhhhhhhhhhhh.eeehhhhhhhhhhhh............hhhhh..hhhhhhhhhhhhhhhhh.eee.........hhhhh..........hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                3q79 B    4 EFTPSVYSLVSKPLPSNSRPSATLDEQAETEDLISQLFDLTADPNAL--EHGKRYSGLRKQEHTQFLAS-FFQLPGKFVSLDASRPWLVFWTVHSLDLLGVALDQGTKDRVVSTLLHFLSPKGGFGGGPANSQIPHLLPTYASVCSLAIAGNDSSTGGWKDLAAARQSIYEFFMRCKRPDGGFVVCEGGEVDVRGTYCLLVVATLLDIITPELLHNVDKFVSACQTYEGGFACASFPFP------------EPSCRVSMAEAHGGYTSCSLNSHFLLTSVPLPSFPLSIDANAALRWTVLQQGEPIEGGGFRGRTNKLVDGCYSWWVGGGAPVAEELVRREKSRKV----------------------IPPIFNRVALQEFTLVAAQQDPGSTGGLRDKPGKRPDQYHTCNNLSGLSIAQHKMSHSPSTVSSNRLKFDASKGLPAVKPVAPGGGWKNEDERQNARREIWANALGWIEEEGGEIIVGGKDNRINTTTPVFNILGLRLKPFINYFYCQE  519
                                    13        23        33        43      | 53        63        |-|       83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233        |-         - |     263       273       283       293       303       313       323       333       343     |   -         -       372       382       392       402       412       422       432       442       452       462       472       482       492       502       512       
                                                                         50 53                 72 |                                                                                                                                                                     242          255                                                                                           349                    371                                                                                                                                                    
                                                                                                 74                                                                                                                                                                                                                                                                                                                                                                                                                                                              


Chain P from PDB  Type:PROTEIN  Length:9
                                          
               SCOP domains --------- SCOP domains
               CATH domains --------- CATH domains
               Pfam domains --------- Pfam domains
         Sec.struct. author ......... Sec.struct. author
                 SAPs(SNPs) --------- SAPs(SNPs)
                    PROSITE --------- PROSITE
                 Transcript --------- Transcript
                3q79 P 2001 PTASACNIQ 2009
   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  (0, 0)

(no "SCOP Domain" information available for 3Q79)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3Q79)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3Q79)

(-) Gene Ontology  (7, 7)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q55S71_CRYNB | Q55S71)
molecular function
    GO:0008318    protein prenyltransferase activity    Catalysis of the covalent addition of an isoprenoid group such as a farnesyl or geranylgeranyl group via thioether linkages to a cysteine residue in a protein.
biological process
    GO:0018342    protein prenylation    The covalent attachment of a prenyl group to a protein; geranyl, farnesyl, or geranylgeranyl groups may be added.

Chain B   (Q55QV6_CRYNB | Q55QV6)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
biological process
    GO:0018343    protein farnesylation    The covalent attachment of a farnesyl group to a protein.
    GO:0042127    regulation of cell proliferation    Any process that modulates the frequency, rate or extent of cell proliferation.
cellular component
    GO:0005965    protein farnesyltransferase complex    A protein complex that possesses protein farnesyltransferase activity.

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  3q79
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  Q55S71_CRYNB | Q55S71
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 Related Entries

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

UniProtKB/TrEMBL
        Q55QV6_CRYNB | Q55QV6: 3q73 3q75 3q78 3q7a 3q7f 3sfx 3sfy
        Q55S71_CRYNB | Q55S71: 3q73 3q75 3q78 3q7a 3q7f 3sfx 3sfy

(-) Related Entries Specified in the PDB File

3q73 3q75 3q78 3q7a 3q7f 3sfx 3sfy