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(-) Description

Title :  CRYSTAL STRUCTURE OF ASPERGILLUS TERREUS ARISTOLOCHENE SYNTHASE COMPLEXED WITH (3R,6R,9AR)-6,9A-DIMETHYL-3-(PROP-1-EN-2-YL) DECAHYDROQUINOLIZIN-5-IUM
 
Authors :  M. Chen, N. Al-Lami, M. Janvier, E. L. D'Antonio, J. A. Faraldos, D. E. Ca R. K. Allemann, D. W. Christianson
Date :  23 May 13  (Deposition) - 14 Aug 13  (Release) - 28 Aug 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Class I Terpenoid Cyclase, Alpha-Helical Fold, Farnesyl Diphosphate, Magnesium, Lyase-Lyase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Chen, N. Al-Lami, M. Janvier, E. L. D'Antonio, J. A. Faraldos, D. E. Cane, R. K. Allemann, D. W. Christianson
Mechanistic Insights From The Binding Of Substrate And Carbocation Intermediate Analogues To Aristolochene Synthase.
Biochemistry V. 52 5441 2013
PubMed-ID: 23905850  |  Reference-DOI: 10.1021/BI400691V

(-) Compounds

Molecule 1 - ARISTOLOCHENE SYNTHASE
    Chains: A, B, C, D
    EC Number: 4.2.3.9
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET11A
    Expression System Strain: BL21(DE3)PLYSS
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 14-320
    Gene: ARI1
    Organism Scientific: ASPERGILLUS TERREUS
    Organism Taxid: 33178
    Synonym: AS, SESQUITERPENE CYCLASE

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 22)

Asymmetric Unit (4, 22)
No.NameCountTypeFull Name
1GOL2Ligand/IonGLYCEROL
2JF44Ligand/Ion(3R,5S,6R,9AR)-6,9A-DIMETHYL-3-(PROP-1-EN-2-YL)OCTAHYDRO-2H-QUINOLIZINIUM
3MG12Ligand/IonMAGNESIUM ION
4POP4Ligand/IonPYROPHOSPHATE 2-
Biological Unit 1 (3, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2JF42Ligand/Ion(3R,5S,6R,9AR)-6,9A-DIMETHYL-3-(PROP-1-EN-2-YL)OCTAHYDRO-2H-QUINOLIZINIUM
3MG-1Ligand/IonMAGNESIUM ION
4POP2Ligand/IonPYROPHOSPHATE 2-
Biological Unit 2 (3, 5)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL
2JF42Ligand/Ion(3R,5S,6R,9AR)-6,9A-DIMETHYL-3-(PROP-1-EN-2-YL)OCTAHYDRO-2H-QUINOLIZINIUM
3MG-1Ligand/IonMAGNESIUM ION
4POP2Ligand/IonPYROPHOSPHATE 2-

(-) Sites  (22, 22)

Asymmetric Unit (22, 22)
No.NameEvidenceResiduesDescription
01AC1SOFTWAREASP A:84 , ARG A:169 , ASN A:213 , SER A:217 , LYS A:220 , GLU A:221 , ARG A:308 , TYR A:309 , MG A:402 , MG A:403 , MG A:404 , JF4 A:405 , HOH A:775 , HOH A:776 , HOH A:778 , HOH A:784 , HOH A:785 , HOH A:786BINDING SITE FOR RESIDUE POP A 401
02AC2SOFTWAREASP A:84 , POP A:401 , MG A:403 , HOH A:777 , HOH A:779 , HOH A:780 , HOH A:784BINDING SITE FOR RESIDUE MG A 402
03AC3SOFTWAREASP A:84 , POP A:401 , MG A:402 , HOH A:784 , HOH A:785 , HOH A:786BINDING SITE FOR RESIDUE MG A 403
04AC4SOFTWAREASN A:213 , SER A:217 , GLU A:221 , POP A:401 , HOH A:775BINDING SITE FOR RESIDUE MG A 404
05AC5SOFTWARETYR A:61 , LEU A:77 , LEU A:80 , PHE A:81 , PHE A:147 , VAL A:173 , LEU A:177 , POP A:401 , HOH A:778BINDING SITE FOR RESIDUE JF4 A 405
06AC6SOFTWAREASP B:84 , ARG B:169 , ASN B:213 , SER B:217 , LYS B:220 , GLU B:221 , ARG B:308 , TYR B:309 , MG B:402 , MG B:403 , MG B:404 , JF4 B:406 , HOH B:810 , HOH B:812 , HOH B:816 , HOH B:817 , HOH B:818 , HOH B:821 , HOH B:822BINDING SITE FOR RESIDUE POP B 401
07AC7SOFTWAREASP B:84 , POP B:401 , MG B:403 , HOH B:807 , HOH B:812 , HOH B:815 , HOH B:816BINDING SITE FOR RESIDUE MG B 402
08AC8SOFTWAREASP B:84 , POP B:401 , MG B:402 , HOH B:812 , HOH B:821 , HOH B:822BINDING SITE FOR RESIDUE MG B 403
09AC9SOFTWAREASN B:213 , SER B:217 , GLU B:221 , POP B:401 , HOH B:810BINDING SITE FOR RESIDUE MG B 404
10BC1SOFTWAREARG B:107 , GLU B:142 , ARG B:149 , HOH B:586 , ARG C:197 , HOH C:533 , HOH C:678 , HOH C:679BINDING SITE FOR RESIDUE GOL B 405
11BC2SOFTWARETYR B:61 , LEU B:77 , LEU B:80 , PHE B:81 , ASP B:84 , PHE B:147 , VAL B:173 , GLY B:174 , POP B:401 , HOH B:818BINDING SITE FOR RESIDUE JF4 B 406
12BC3SOFTWAREASP C:84 , ARG C:169 , ASN C:213 , SER C:217 , LYS C:220 , GLU C:221 , ARG C:308 , TYR C:309 , MG C:402 , MG C:403 , MG C:404 , JF4 C:406 , HOH C:693 , HOH C:694 , HOH C:695 , HOH C:696 , HOH C:699 , HOH C:705BINDING SITE FOR RESIDUE POP C 401
13BC4SOFTWAREASP C:84 , POP C:401 , MG C:403 , HOH C:694 , HOH C:695 , HOH C:696BINDING SITE FOR RESIDUE MG C 402
14BC5SOFTWAREASP C:84 , POP C:401 , MG C:402 , HOH C:692 , HOH C:696 , HOH C:701 , HOH C:704BINDING SITE FOR RESIDUE MG C 403
15BC6SOFTWAREASN C:213 , SER C:217 , GLU C:221 , POP C:401 , HOH C:699BINDING SITE FOR RESIDUE MG C 404
16BC7SOFTWAREARG B:197 , GLU B:278 , HOH B:686 , HOH B:752 , ARG C:149 , HOH C:526BINDING SITE FOR RESIDUE GOL C 405
17BC8SOFTWARETYR C:61 , LEU C:77 , LEU C:80 , PHE C:81 , ASP C:84 , VAL C:173 , POP C:401 , HOH C:705BINDING SITE FOR RESIDUE JF4 C 406
18BC9SOFTWAREASP D:84 , ARG D:169 , ASN D:213 , SER D:217 , LYS D:220 , GLU D:221 , ARG D:308 , TYR D:309 , MG D:402 , MG D:403 , MG D:404 , JF4 D:405 , HOH D:637 , HOH D:639 , HOH D:642 , HOH D:645 , HOH D:649 , HOH D:652BINDING SITE FOR RESIDUE POP D 401
19CC1SOFTWAREASP D:84 , POP D:401 , MG D:403 , HOH D:641 , HOH D:646 , HOH D:649 , HOH D:650BINDING SITE FOR RESIDUE MG D 402
20CC2SOFTWAREASP D:84 , POP D:401 , MG D:402 , HOH D:637 , HOH D:639 , HOH D:649BINDING SITE FOR RESIDUE MG D 403
21CC3SOFTWAREASN D:213 , SER D:217 , GLU D:221 , POP D:401 , HOH D:652BINDING SITE FOR RESIDUE MG D 404
22CC4SOFTWARETYR D:61 , LEU D:77 , LEU D:80 , PHE D:81 , PHE D:147 , VAL D:173 , LEU D:177 , LEU D:178 , POP D:401 , HOH D:645BINDING SITE FOR RESIDUE JF4 D 405

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4KVW)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4KVW)

(-) 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
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4kvwa_ A: automated matches                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvw A   8 LEPPPSTFQPLCHPLVEEVSKEVDGYFLQHWNFPNEKARKKFVAAGFSRVTCLYFPKALDDRIHFACRLLTVLFLIDDLLEYMSFEEGSAYNEKLIPISRGDVLPDRSIPVEYIIYDLWESMRAHDREMADEILEPVFLFMRAQTDRTRARPMGLGGYLEYRERDVGKELLAALMRFSMGLKLSPSELQRVREIDANCSKHLSVVNDIYSYEKELYTSKTAHSEGGILCTSVQILAQEADVTAEAAKRVLFVMCREWELRHQLLVARLSAEGLETPGLAAYVEGLEYQMSGNELWSQTTLRYSV 311
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307    


Chain B from PDB  Type:PROTEIN  Length:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4kvwb_ B: automated matches                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhh.hhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvw B   8 LEPPPSTFQPLCHPLVEEVSKEVDGYFLQHWNFPNEKARKKFVAAGFSRVTCLYFPKALDDRIHFACRLLTVLFLIDDLLEYMSFEEGSAYNEKLIPISRGDVLPDRSIPVEYIIYDLWESMRAHDREMADEILEPVFLFMRAQTDRTRARPMGLGGYLEYRERDVGKELLAALMRFSMGLKLSPSELQRVREIDANCSKHLSVVNDIYSYEKELYTSKTAHSEGGILCTSVQILAQEADVTAEAAKRVLFVMCREWELRHQLLVARLSAEGLETPGLAAYVEGLEYQMSGNELWSQTTLRYSV 311
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307    


Chain C from PDB  Type:PROTEIN  Length:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4kvwc_ C: automated matches                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvw C   8 LEPPPSTFQPLCHPLVEEVSKEVDGYFLQHWNFPNEKARKKFVAAGFSRVTCLYFPKALDDRIHFACRLLTVLFLIDDLLEYMSFEEGSAYNEKLIPISRGDVLPDRSIPVEYIIYDLWESMRAHDREMADEILEPVFLFMRAQTDRTRARPMGLGGYLEYRERDVGKELLAALMRFSMGLKLSPSELQRVREIDANCSKHLSVVNDIYSYEKELYTSKTAHSEGGILCTSVQILAQEADVTAEAAKRVLFVMCREWELRHQLLVARLSAEGLETPGLAAYVEGLEYQMSGNELWSQTTLRYSV 311
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307    


Chain D from PDB  Type:PROTEIN  Length:304
                                                                                                                                                                                                                                                                                                                                                
               SCOP domains d4kvwd_ D: automated matches                                                                                                                                                                                                                                                                                     SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..............hhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4kvw D   8 LEPPPSTFQPLCHPLVEEVSKEVDGYFLQHWNFPNEKARKKFVAAGFSRVTCLYFPKALDDRIHFACRLLTVLFLIDDLLEYMSFEEGSAYNEKLIPISRGDVLPDRSIPVEYIIYDLWESMRAHDREMADEILEPVFLFMRAQTDRTRARPMGLGGYLEYRERDVGKELLAALMRFSMGLKLSPSELQRVREIDANCSKHLSVVNDIYSYEKELYTSKTAHSEGGILCTSVQILAQEADVTAEAAKRVLFVMCREWELRHQLLVARLSAEGLETPGLAAYVEGLEYQMSGNELWSQTTLRYSV 311
                                    17        27        37        47        57        67        77        87        97       107       117       127       137       147       157       167       177       187       197       207       217       227       237       247       257       267       277       287       297       307
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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  (1, 4)

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

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (3, 3)

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 Related Entries

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

UniProtKB/Swiss-Prot
        ARIS_ASPTE | Q9UR08: 2e4o 2oa6 3bnx 3bny 3cke 4kux 4kvd 4kvi 4kvy 4kwd 5imi 5imn 5imp 5in8 5ivg

(-) Related Entries Specified in the PDB File

3bny CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH 2F-FPP
4kux CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH FSPP
4kvd CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH (4AS,7S)-1,4A-DIMETHYL-7-(PROP-1-EN-2-YL)DECAHYDROQUINOLIN- 1-IUM
4kvi CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH (4AS,7S)-4A-METHYL-7-(PROP-1-EN-2-YL)-2,3,4,4A,5,6,7,8- OCTAHYDROQUINOLIN-1-IUM
4kvy CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH (1S,8S,9AR)-1,9A-DIMETHYL-8-(PROP-1-EN-2-YL) DECAHYDROQUINOLIZIN-5-IUM
4kwd CRYSTAL STRUCTURE OF ARISTOLOCHENE SYNTHASE COMPLEXED WITH (1R,8R,9AS)-1,9A-DIMETHYL-8-(PROP-1-EN-2-YL) DECAHYDROQUINOLIZIN-5-IUM