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(-) Description

Title :  PENTALENENE SYNTHASE
 
Authors :  C. A. Lesburg, D. W. Christianson
Date :  23 Mar 97  (Deposition) - 25 Mar 98  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Antibiotic Biosynthesis, Sesquiterpene Cyclase, Lyase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. A. Lesburg, G. Zhai, D. E. Cane, D. W. Christianson
Crystal Structure Of Pentalenene Synthase: Mechanistic Insights On Terpenoid Cyclization Reactions In Biology.
Science V. 277 1820 1997
PubMed-ID: 9295272  |  Reference-DOI: 10.1126/SCIENCE.277.5333.1820
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - PENTALENENE SYNTHASE
    Chains: A, B
    EC Number: 4.6.1.5
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Organism Scientific: STREPTOMYCES SP.
    Organism Taxid: 74577
    Strain: UC5319

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit : AB
Biological Unit 1 (1x): A 
Biological Unit 2 (1x):  B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1PBM1Ligand/IonTRIMETHYL LEAD ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1PBM1Ligand/IonTRIMETHYL LEAD ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1PBM-1Ligand/IonTRIMETHYL LEAD ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:89 , GLU B:264BINDING SITE FOR RESIDUE PBM A 500
2AR1UNKNOWNLEU A:78 , PHE A:79 , ASP A:80 , ASP A:81 , LEU A:82 , PHE A:83 , ASP A:84ASPARTATE-RICH REGION, MONOMER A.
3AR2UNKNOWNLEU B:78 , PHE B:79 , ASP B:80 , ASP B:81 , LEU B:82 , PHE B:83 , ASP B:84ASPARTATE-RICH REGION, MONOMER B.

(-) SS Bonds  (3, 3)

Asymmetric Unit
No.Residues
1A:128 -A:136
2A:272 -B:272
3B:128 -B:136

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1PS1)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1PS1)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1PS1)

(-) Exons   (0, 0)

(no "Exon" information available for 1PS1)

(-) 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:304
 aligned with PENA_STREX | Q55012 from UniProtKB/Swiss-Prot  Length:337

    Alignment length:311
                                    12        22        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 
           PENA_STREX     3 QDVDFHIPLPGRQSPDHARAEAEQLAWPRSLGLIRSDAAAERHLRGGYADLASRFYPHATGADLDLGVDLMSWFFLFDDLFDGPRGENPEDTKQLTDQVAAALDGPLPDTAPPIAHGFADIWRRTCEGMTPAWCARSARHWRNYFDGYVDEAESRFWNAPCDSAAQYLAMRRHTIGVQPTVDLAERAGRFEVPHRVFDSAVMSAMLQIAVDVNLLLNDIASLEKEEARGEQNNMVMILRREHGWSKSRSVSHMQNEVRARLEQYLLLESCLPKVGEIYQLDTAEREALERYRTDAVRTVIRGSYDWHRSSG 313
               SCOP domains d1ps1a_ A: Pentalenene synthase                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1ps1A00 A:3-313 Farnesyl Diphosphate Synthase                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................hhhhhh.hhhhhhh......hhhhhhhhhh.hhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh..hhhh.hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.-------.hhhhhhhhhhh..hhhhhhhhhhhh.....hhhh..hhhhhhhhhhhhhhhhhhhhh.hhhhhh......hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ps1 A   3 QDVDFHIPLPGRQSPDHARAEAEQLAWPRSLGLIRSDAAAERHLRGGYADLASRFYPHATGADLDLGVDLMSWFFLFDDLFDGPRGENPEDTKQLTDQVAAALDGPLPDTAPPIAHGFADIWRRTCEGMTPAWCARSARHWRNYFDGYVDEAESR-------SAAQYLAMRRHTIGVQPTVDLAERAGRFEVPHRVFDSAVMSAMLQIAVDVNLLLNDIASLEKEEARGEQNNMVMILRREHGWSKSRSVSHMQNEVRARLEQYLLLESCLPKVGEIYQLDTAEREALERYRTDAVRTVIRGSYDWHRSSG 313
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152    |    -  |    172       182       192       202       212       222       232       242       252       262       272       282       292       302       312 
                                                                                                                                                                                    157     165                                                                                                                                                    


Chain B from PDB  Type:PROTEIN  Length:304
 aligned with PENA_STREX | Q55012 from UniProtKB/Swiss-Prot  Length:337

    Alignment length:311
                                    12        22        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 
           PENA_STREX     3 QDVDFHIPLPGRQSPDHARAEAEQLAWPRSLGLIRSDAAAERHLRGGYADLASRFYPHATGADLDLGVDLMSWFFLFDDLFDGPRGENPEDTKQLTDQVAAALDGPLPDTAPPIAHGFADIWRRTCEGMTPAWCARSARHWRNYFDGYVDEAESRFWNAPCDSAAQYLAMRRHTIGVQPTVDLAERAGRFEVPHRVFDSAVMSAMLQIAVDVNLLLNDIASLEKEEARGEQNNMVMILRREHGWSKSRSVSHMQNEVRARLEQYLLLESCLPKVGEIYQLDTAEREALERYRTDAVRTVIRGSYDWHRSSG 313
               SCOP domains d1ps1b_ B: Pentalenene synthase                                                                                                                                                                                                                                                                                         SCOP domains
               CATH domains 1ps1B00 B:3-313 Farnesyl Diphosphate Synthase                                                                                                                                                                                                                                                                           CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhh......hhhhhhhhhh.hhhhhhhh......hhhhhhhhhhhhhhhhhhhh..hhhh.hhhhhhhhhhhhhhh.........hhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhhhh.-------.hhhhhhhhhhh..hhhhhhhhhhhh.....hhhh..hhhhhhhhhhhhhhhhhhhhh.hhhhhh......hhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhh.hhhhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1ps1 B   3 QDVDFHIPLPGRQSPDHARAEAEQLAWPRSLGLIRSDAAAERHLRGGYADLASRFYPHATGADLDLGVDLMSWFFLFDDLFDGPRGENPEDTKQLTDQVAAALDGPLPDTAPPIAHGFADIWRRTCEGMTPAWCARSARHWRNYFDGYVDEAESR-------SAAQYLAMRRHTIGVQPTVDLAERAGRFEVPHRVFDSAVMSAMLQIAVDVNLLLNDIASLEKEEARGEQNNMVMILRREHGWSKSRSVSHMQNEVRARLEQYLLLESCLPKVGEIYQLDTAEREALERYRTDAVRTVIRGSYDWHRSSG 313
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152    |    -  |    172       182       192       202       212       222       232       242       252       262       272       282       292       302       312 
                                                                                                                                                                                    157     165
   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 Unit
(-)
Class: All alpha proteins (14657)

(-) CATH Domains  (1, 2)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1PS1)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (PENA_STREX | Q55012)
molecular function
    GO:0016829    lyase activity    Catalysis of the cleavage of C-C, C-O, C-N and other bonds by other means than by hydrolysis or oxidation, or conversely adding a group to a double bond. They differ from other enzymes in that two substrates are involved in one reaction direction, but only one in the other direction. When acting on the single substrate, a molecule is eliminated and this generates either a new double bond or a new ring.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0050467    pentalenene synthase activity    Catalysis of the reaction: 2-trans,6-trans-farnesyl diphosphate = diphosphate + pentalenene.
biological process
    GO:0017000    antibiotic biosynthetic process    The chemical reactions and pathways resulting in the formation of an antibiotic, a substance produced by or derived from certain fungi, bacteria, and other organisms, that can destroy or inhibit the growth of other microorganisms.

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  1ps1
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 Related Entries

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UniProtKB/Swiss-Prot
        PENA_STREX | Q55012: 1hm4 1hm7

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