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(-) Description

Title :  CRYSTAL STRUCTURE OF ENT-COPALYL DIPHOSPHATE SYNTHASE FROM ARABIDOPSIS THALIANA IN COMPLEX WITH (S)-15-AZA-14,15-DIHYDROGERANYLGERANYL THIOLODIPHOSPHATE AT 1.55 A RESOLUTION
 
Authors :  M. Koksal, D. W. Christianson
Date :  04 Jul 13  (Deposition) - 02 Oct 13  (Release) - 30 Oct 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.55
Chains :  Asym./Biol. Unit :  A
Keywords :  Class I And Ii Terpene Cyclase Fold, Class Ii Diterpene Cyclase, Dxdd Motif, Gibberellin Biosynthesis, Biosynthesis Of Ent-Copalyl Diphosphate, Isomerase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Koksal, K. Potter, R. J. Peters, D. W. Christianson
1. 55 Angstrom -Resolution Structure Of Ent-Copalyl Diphosphate Synthase And Exploration Of General Acid Function By Site-Directed Mutagenesis.
Biochim. Biophys. Acta V. 1840 184 2013
PubMed-ID: 24036329  |  Reference-DOI: 10.1016/J.BBAGEN.2013.09.004

(-) Compounds

Molecule 1 - ENT-COPALYL DIPHOSPHATE SYNTHASE, CHLOROPLASTIC
    Chains: A
    EC Number: 5.5.1.13
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET22BCV
    Expression System Strain: OVEREXPRESS C41 (DE3)
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 85-802
    Gene: ABC33, AT4G02780, CPS, CPS1, GA1, T5J8.9, TPSGA1
    Organism Common: MOUSE-EAR CRESS,THALE-CRESS
    Organism Scientific: ARABIDOPSIS THALIANA
    Organism Taxid: 3702
    Synonym: ATCPS, ENT-CDP SYNTHASE, ENT-KAURENE SYNTHASE A, KSA, PROTEIN GA REQUIRING 1

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
1AG81Ligand/IonS-[(2E,6E,10E)-14-(DIMETHYLAMINO)-3,7,11-TRIMETHYLTETRADECA-2,6,10-TRIEN-1-YL] TRIHYDROGENTHIODIPHOSPHATE
2CSO1Mod. Amino AcidS-HYDROXYCYSTEINE
3GOL1Ligand/IonGLYCEROL
4PO41Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREILE A:208 , GLY A:209 , LYS A:245 , THR A:260 , HIS A:263 , PHE A:329 , TRP A:333 , PHE A:412 , ASN A:417 , LYS A:463 , TRP A:464 , HOH A:1498 , HOH A:1531 , HOH A:1544BINDING SITE FOR RESIDUE AG8 A 901
2AC2SOFTWAREHIS A:182 , LYS A:186 , SER A:579 , HIS A:580 , SER A:663 , HIS A:664 , HOH A:1279 , HOH A:1562 , HOH A:1666BINDING SITE FOR RESIDUE PO4 A 902
3AC3SOFTWAREARG A:192 , PRO A:229 , HIS A:789 , GLN A:791 , THR A:792 , HOH A:1030 , HOH A:1082 , HOH A:1200 , HOH A:1419BINDING SITE FOR RESIDUE GOL A 903

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Phe A:324 -Pro A:325

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4LIX)

(-) 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:678
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhhhhhh........hhhhhhhhhh.........hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh..........hhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhh...hhhhhhhhh........hhhhhhhhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhh..............hhhhhhhhhhhhhhh....hhhhhhh.ee..ee.........hhhhhhhhhhhhh.....hhhhhhhhhhhhhhhhhhhhh.......ee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhheee...ee......hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhhhhhhhhhh.hhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhhh..hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4lix A  90 NSNAFKEAVKSVKTILRNLTDGEITISAYDTAWVALIDAGDKTPAFPSAVKWIAENQLSDGSWGDAYLFSYHDRLINTLACVVALRSWNLFPHQCNKGITFFRENIGKLEDENDEHMPIGFEVAFPSLLEIARGINIDVPYDSPVLKDIYAKKELKLTRIPKEIMHKIPTTLLHSLEGMRDLDWEKLLKLQSQDGSFLFSPSSTAFAFMQTRDSNCLEYLRNAVKRFNGGVPNVFPVDLFEHIWIVDRLQRLGISRYFEEEIKECLDYVHRYWTDNGICWARCSHVQDIDDTAMAFRLLRQHGYQVSADVFKNFEKEGEFFcFVGQSNQAVTGMFNLYRASQLAFPREEILKNAKEFSYNYLLEKREREELIDKWIIMKDLPGEIGFALEIPWYASLPRVETRFYIDQYGGENDVWIGKTLYRMPYVNNNGYLELAKQDYNNCQAQHQLEWDIFQKWYEENRLSEWGVRRSELLECYYLAAATIFESERSHERMVWAKSSVLVKAISSSFGESSDSRRSFSDQFHEYSVQASRLAGVLIGTLNQMSFDLFMSHGRDVNNLLYLSWGDWMEKWKLYGEGELMVKMIILMKNNDLTNFFTHTHFVRLAEIINRICLPKEKTIKSMEKEMGKMVELALSESDTFRDVSITFLDVAKAFYYFALCGDHLQTHISKVLFQKVG 803
                                    99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339       349       359       369       379       389       399       409 |     419       429       439       449       459       469       479       489       499       509       519       529       539       549       559       569       579       589       599       609      |641       651       661       671       681    || 694       704       714       724    || 745       755       765       775       785       795        
                                                                                                                                                                                                                                                                                                                                                           411-CSO                                                                                                                                                                                                      616|                                            686|                                    729|                                                              
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         639                                             690                                     741
   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 4LIX)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (10, 10)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Phe A:324 - Pro A:325   [ RasMol ]  
 

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  5.5.1.13
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 Related Entries

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

UniProtKB/Swiss-Prot
        KSA_ARATH | Q38802: 3pya 3pyb

(-) Related Entries Specified in the PDB File

3pya SAME STRUCTURE AT 2.25 A RESOLUTION.
3pyb STRUCTURE OF THE SAME PROTEIN IN COMPLEX WITH 13-AZA-13,14- DIHYDROCOPALYL DIPHOSPHATE