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(-) Description

Title :  DEACETOXYCEPHALOSPORIN C SYNTHASE FROM S. CLAVULIGERUS
 
Authors :  K. Valegard, A. C. Terwisscha Van Scheltinga, M. D. Lloyd, T. Hara, S. Ramaswamy, A. Perrakis, A. Thompson, H. J. Lee, J. E. Baldwin, C. J. S J. Hajdu, I. Andersson
Date :  05 Jun 98  (Deposition) - 08 Jun 99  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.30
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (3x)
Keywords :  Ferrous Oxygenase, Cephalosporin, 2-Oxoglutarate, Oxidoreductase, Antibiotics, Merohedral Twinning, Antibiotic Biosynthesis (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Valegard, A. C. Van Scheltinga, M. D. Lloyd, T. Hara, S. Ramaswamy, A. Perrakis, A. Thompson, H. J. Lee, J. E. Baldwin, C. J. Schofield, J. Hajdu, I. Andersson
Structure Of A Cephalosporin Synthase.
Nature V. 394 805 1998
PubMed-ID: 9723623  |  Reference-DOI: 10.1038/29575

(-) Compounds

Molecule 1 - DEACETOXYCEPHALOSPORIN C SYNTHASE
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET 11A
    Expression System Strain: PET
    Expression System Taxid: 562
    Expression System Vector Type: PET
    Organism Scientific: STREPTOMYCES CLAVULIGERUS
    Organism Taxid: 1901
    Synonym: RING EXPANDING ENZYME, RING EXPANDASE

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (3x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 2)

Asymmetric Unit (1, 2)
No.NameCountTypeFull Name
1SO42Ligand/IonSULFATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1SO46Ligand/IonSULFATE ION

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:304 , ILE A:305 , SER A:309 , HOH A:598 , HOH A:616 , HOH A:642BINDING SITE FOR RESIDUE SO4 A 401
2AC2SOFTWAREGLY A:289 , GLU A:290 , THR A:291BINDING SITE FOR RESIDUE SO4 A 402

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1DCS)

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

Asymmetric Unit (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FE2OG_OXYPS51471 Fe(2+) 2-oxoglutarate dioxygenase domain profile.CEFE_STRC2154-267  1A:154-267
2IPNS_2PS00186 Isopenicillin N synthase signature 2.CEFE_STRC2223-236  1A:223-236
Biological Unit 1 (2, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1FE2OG_OXYPS51471 Fe(2+) 2-oxoglutarate dioxygenase domain profile.CEFE_STRC2154-267  3A:154-267
2IPNS_2PS00186 Isopenicillin N synthase signature 2.CEFE_STRC2223-236  3A:223-236

(-) Exons   (0, 0)

(no "Exon" information available for 1DCS)

(-) 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:279
 aligned with CEFE_STRC2 | P18548 from UniProtKB/Swiss-Prot  Length:311

    Alignment length:311
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300       310 
           CEFE_STRC2     1 MDTTVPTFSLAELQQGLHQDEFRRCLRDKGLFYLTDCGLTDTELKSAKDLVIDFFEHGSEAEKRAVTSPVPTMRRGFTGLESESTAQITNTGSYSDYSMCYSMGTADNLFPSGDFERIWTQYFDRQYTASRAVAREVLRATGTEPDGGVEAFLDCEPLLRFRYFPQVPEHRSAEEQPLRMAPHYDLSMVTLIQQTPCANGFVSLQAEVGGAFTDLPYRPDAVLVFCGAIATLVTGGQVKAPRHHVAAPRRDQIAGSSRTSSVFFLRPNADFTFSVPLARECGFDVSLDGETATFQDWIGGNYVNIRRTSKA 311
               SCOP domains d1dcsa_ A: Deacetoxycephalosporin C synthase                                                                                                                                                                                                                                                                            SCOP domains
               CATH domains 1dcsA00 A:1-311 B-lactam Antibiotic, Isopenicillin N Synthase; Chain                                                                                                                                                                                                                                                    CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ......eeehhhhh....hhhhhhhhhh..eeeee.....hhhhhhhhhhhhhhhhh..hhhhhhh.........eee..-----------------.eeeee.........hhhhhhhhhhhhhhhhhhhhhhhhhhhh........hhhhh....eeeeeee..-----------...........eeeeeee........eeeee..eeee.......eeeee.hhhhhh.........eee...----.....eeeeeeee......eeehhhhhhh.........eeehhhhh............. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---------------------------------------------------------------------------------------------------------------------------------------------------------FE2OG_OXY  PDB: A:154-267 UniProt: 154-267                                                                        -------------------------------------------- PROSITE (1)
                PROSITE (2) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------IPNS_2        --------------------------------------------------------------------------- PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1dcs A   1 MDTTVPTFSLAELQQGLHQDEFRRCLRDKGLFYLTDCGLTDTELKSAKDLVIDFFEHGSEAEKRAVTSPVPTMRRGFTGL-----------------SMCYSMGTADNLFPSGDFERIWTQYFDRQYTASRAVAREVLRATGTEPDGGVEAFLDCEPLLRFRYFPQ-----------LRMAPHYDLSMVTLIQQTPCANGFVSLQAEVGGAFTDLPYRPDAVLVFCGAIATLVTGGQVKAPRHHVAAP----IAGSSRTSSVFFLRPNADFTFSVPLARECGFDVSLDGETATFQDWIGGNYVNIRRTSKA 311
                                    10        20        30        40        50        60        70        80         -       100       110       120       130       140       150       160     |   -       180       190       200       210       220       230       240       | -  |    260       270       280       290       300       310 
                                                                                                          80                98                                                                 166         178                                                                   248  253
   Legend:   → Mismatch (orange background)
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    → 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, 1)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (1, 1)

Asymmetric Unit
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (7, 7)

Asymmetric Unit(hide GO term definitions)
Chain A   (CEFE_STRC2 | P18548)
molecular function
    GO:0031418    L-ascorbic acid binding    Interacting selectively and non-covalently with L-ascorbic acid, (2R)-2-[(1S)-1,2-dihydroxyethyl]-4-hydroxy-5-oxo-2,5-dihydrofuran-3-olate; L-ascorbic acid is vitamin C and has co-factor and anti-oxidant activities in many species.
    GO:0050599    deacetoxycephalosporin-C synthase activity    Catalysis of the reaction: 2-oxoglutarate + O(2) + penicillin N = CO(2) + deacetoxycephalosporin C + H(2)O + succinate.
    GO:0005506    iron ion binding    Interacting selectively and non-covalently with iron (Fe) ions.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
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.
    GO:0009058    biosynthetic process    The chemical reactions and pathways resulting in the formation of substances; typically the energy-requiring part of metabolism in which simpler substances are transformed into more complex ones.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.

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 Related Entries

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UniProtKB/Swiss-Prot
        CEFE_STRC2 | P18548: 1e5h 1e5i 1hjf 1hjg 1rxf 1rxg 1unb 1uo9 1uob 1uof 1uog 1w28 1w2a 1w2n 1w2o 2jb8

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