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(-) Description

Title :  X-RAY CRYSTAL STRUCTURE OF 5'-FLUORODEOXYADENOSINE SYNTHASE FROM STREPTOMYCES CATTLEYA COMPLEXED WITH AN INHIBITOR, AN ANALOGUE OF S-ADENOSYL METHIONINE
 
Authors :  A. R. Mcewan, H. Deng, R. P. Mcglinchey, D. R. Robinson, D. O'Hagan, J. H.
Date :  22 Oct 05  (Deposition) - 27 Mar 07  (Release) - 28 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.30
Chains :  Asym. Unit :  A,B,C
Biol. Unit 1:  A,B,C  (2x)
Keywords :  Transferase, Fluorinase, 5'-Fluorodeoxyadenosine Synthase, Fla, Inhibitor, Aza, Streptomyces Cattleya, Sam Analogue (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  A. R. Mcewan, H. Deng, R. P. Mcglinchey, D. R. Robinson, D. O'Hagan, J. H. Naismith
Substrates And Inhibitors Of The Fluorinase From Streptomyces Cattleya
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - 5'-FLUORO-5'-DEOXYADENOSINE SYNTHASE
    Chains: A, B, C
    EC Number: 2.5.1.63
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PHISTEV-FLA
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Variant: DE3
    Expression System Vector: PHISTEV
    Organism Scientific: STREPTOMYCES CATTLEYA
    Organism Taxid: 29303
    Other Details: AZA INHIBITOR COMPLEXED IN ACTIVE SITE OF 5FDAS

 Structural Features

(-) Chains, Units

  123
Asymmetric Unit : ABC
Biological Unit 1 (2x): ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 9)

Asymmetric Unit (2, 9)
No.NameCountTypeFull Name
1CL6Ligand/IonCHLORIDE ION
2SA83Ligand/IonS-5'-AZAMETHIONINE-5'-DEOXYADENOSINE
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2SA86Ligand/IonS-5'-AZAMETHIONINE-5'-DEOXYADENOSINE

(-) Sites  (8, 8)

Asymmetric Unit (8, 8)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:287 , LYS A:289BINDING SITE FOR RESIDUE CL A1300
2AC2SOFTWARESER B:33 , HOH C:2057BINDING SITE FOR RESIDUE CL A1301
3AC3SOFTWAREHIS B:287 , LYS B:289BINDING SITE FOR RESIDUE CL B1299
4AC4SOFTWARETHR C:82BINDING SITE FOR RESIDUE CL C1301
5AC5SOFTWAREHIS C:287BINDING SITE FOR RESIDUE CL C1302
6AC6SOFTWAREASP A:16 , ASP A:21 , SER A:23 , TRP A:50 , TYR A:77 , PRO A:78 , THR A:80 , THR A:155 , PHE A:156 , SER A:158 , HOH A:2003 , HOH A:2137 , ASP B:210 , PHE B:213 , ASN B:215 , TRP B:217 , PHE B:254 , SER B:269 , ARG B:270 , ARG B:277 , ALA B:279BINDING SITE FOR RESIDUE SA8 A1299
7AC7SOFTWAREASP B:16 , LEU B:17 , ASP B:21 , SER B:23 , TRP B:50 , TYR B:77 , PRO B:78 , THR B:80 , THR B:155 , PHE B:156 , SER B:158 , HOH B:2002 , HOH B:2087 , ASP C:210 , PHE C:213 , ASN C:215 , TRP C:217 , PHE C:254 , SER C:269 , ARG C:270 , ARG C:277 , ALA C:279BINDING SITE FOR RESIDUE SA8 C1299
8AC8SOFTWAREASP A:210 , PHE A:213 , ASN A:215 , TRP A:217 , PHE A:254 , SER A:269 , ARG A:270 , ARG A:277 , ALA A:279 , ASP C:16 , LEU C:17 , ASP C:21 , SER C:23 , TRP C:50 , THR C:76 , TYR C:77 , PRO C:78 , THR C:80 , THR C:155 , SER C:158 , HOH C:2076 , HOH C:2136BINDING SITE FOR RESIDUE SA8 C1300

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2C4T)

(-) Cis Peptide Bonds  (3, 3)

Asymmetric Unit
No.Residues
1His A:211 -Pro A:212
2His B:211 -Pro B:212
3His C:211 -Pro C:212

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2C4T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2C4T)

(-) Exons   (0, 0)

(no "Exon" information available for 2C4T)

(-) 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:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    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 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d2c4ta2 A:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d2c4ta1 A:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeeeee......hhhhhhhh...hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhh..hhhhh....hhhhh........eee..eeeeeeeeee....eeeeeeehhhhhhh......eeeeee...eeeeeeee.hhhhhh....eeeee....eeeeee....hhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2c4t A   8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
                                    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 


Chain B from PDB  Type:PROTEIN  Length:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    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 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d2c4tb2 B:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d2c4tb1 B:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeee........hhhhhhhh...hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhh..hhhhh....hhhhh........eee..eeeeeeeeee....eeeeeeehhhhhh.......eeeeee...eeeeee...hhhhhh....eeeee....eeeeee....hhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2c4t B   8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
                                    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 


Chain C from PDB  Type:PROTEIN  Length:291
 aligned with FLA_STRCT | Q70GK9 from UniProtKB/Swiss-Prot  Length:299

    Alignment length:291
                                    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 
            FLA_STRCT     8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
               SCOP domains d2c4tc2 C:8-192 5'-fluoro-5'-deoxyadenosine synthase                                                                                                                                     d2c4tc1 C:193-298 5'-fluoro-5'-deoxyadenosine synthase                                                     SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeee......hhhhhhhhhhhhhh...eeeeee......hhhhhhhh...hhhhh....eeeee...........eeeee..........................eeee.....hhhhhhhhheeeeee..............hhhhhhhhhhhhhhhh..hhhhh....hhhhh........eee..eeeeeeeeee....eeeeeeehhhhhh.......eeeeee...eeeeeeee..hhhhh....eeeee....eeeeee....hhhhhh.....eeeee. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2c4t C   8 RPIIAFMSDLGTTDDSVAQCKGLMYSICPDVTVVDVCHSMTPWDVEEGARYIVDLPRFFPEGTVFATTTYPATGTTTRSVAVRIKQAAKGGARGQWAGSGAGFERAEGSYIYIAPNNGLLTTVLEEHGYLEAYEVTSPKVIPEQPEPTFYSREMVAIPSAHLAAGFPLSEVGRPLEDHEIVRFNRPAVEQDGEALVGVVSAIDHPFGNVWTNIHRTDLEKAGIGYGARLRLTLDGVLPFEAPLTPTFADAGEIGNIAIYLNSRGYLSIARNAASLAYPYHLKEGMSARVEA 298
                                    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
   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  (2, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2C4T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2C4T)

(-) Gene Ontology  (2, 2)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C   (FLA_STRCT | Q70GK9)
molecular function
    GO:0033846    adenosyl-fluoride synthase activity    Catalysis of the reaction: S-adenosyl-L-methionine + fluoride = 5'-deoxy-5'-fluoroadenosine + L-methionine.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.

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 Related Entries

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

UniProtKB/Swiss-Prot
        FLA_STRCT | Q70GK9: 1rqp 1rqr 2c2w 2c4u 2c5b 2c5h 2cbx 2cc2 2v7t 2v7u 2v7v 2v7w 2v7x 4cqj 5fiu

(-) Related Entries Specified in the PDB File

1rqp CRYSTAL STRUCTURE AND MECHANISM OF A BACTERIAL FLUORINATINGENZYME
1rqr CRYSTAL STRUCTURE AND MECHANISM OF A BACTERIAL FLUORINATINGENZYME, PRODUCT COMPLEX
2c2w THE FLUORINASE FROM STREPTOMYCES CATTLEYA IS ALSO A CHLORINASE. STRUCTURE OF 5'-CHLORO- 5'-DEOXYADENOSINE CRSTALLISED IN THE FLUORINASE.
2c4u CRYSTAL STRUCTURE OF THE APO FORM OF THE 5'-FLUORO-5'- DEOXYADENOSINE SYNTHASE ENZYME FROM STREPTOMYCES CATTLEYA