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(-) Description

Title :  STRUCTURE OF FUSED DOCKING DOMAINS FROM THE ERYTHROMYCIN POLYKETIDE SYNTHASE (DEBS), A MODEL FOR THE INTERACTION BETWEEN DEBS 2 AND DEBS 3: THE A DOMAIN
 
Authors :  R. W. Broadhurst, D. Nietlispach, M. P. Wheatcroft, P. F. Leadlay, K. J. Weissman
Date :  14 Jul 03  (Deposition) - 24 Feb 04  (Release) - 24 Feb 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (8x)
Keywords :  Four Helix Bundle, Homodimer, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  R. W. Broadhurst, D. Nietlispach, M. P. Wheatcroft, P. F. Leadlay, K. J. Weissman
The Structure Of Docking Domains In Modular Polyketide Synthases.
Chem. Biol. V. 10 723 2003
PubMed-ID: 12954331  |  Reference-DOI: 10.1016/S1074-5521(03)00156-X
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ERYTHRONOLIDE SYNTHASE
    ChainsA, B
    EC Number2.3.1.94
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX4T-3
    Expression System StrainBL21-CODONPLUS
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentC-TERMINAL FRAGMENT
    GeneERYA
    MutationYES
    Organism ScientificSACCHAROPOLYSPORA ERYTHRAEA
    Organism Taxid1836
    SynonymORF 2, 6-DEOXYERYTHRONOLIDE B SYNTHASE II, DEBS 2

 Structural Features

(-) Chains, Units

  
NMR Structure (8x)

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 1PZQ)

(-) Sites  (0, 0)

(no "Site" information available for 1PZQ)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 1PZQ)

(-) Sequences/Alignments

NMR Structure
   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:60
 aligned with ERYA2_SACER | Q03132 from UniProtKB/Swiss-Prot  Length:3567

    Alignment length:89
                                  3468      3478      3488      3498      3508      3518      3528      3538         
         ERYA2_SACER   3459 GTATGVRLPSTLVFDHPTPLAVAEHLRDRLFAASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED 3547
               SCOP domains d1                             pzqa_ A: Erythronolide synthase                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..-----------------------------.......hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                1pzq A    1 GS-----------------------------AASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED   60
                             |       -         -         - |      11        21        31        41        51         
                             2                             3                                                         

Chain B from PDB  Type:PROTEIN  Length:60
 aligned with ERYA2_SACER | Q03132 from UniProtKB/Swiss-Prot  Length:3567

    Alignment length:89
                                  3468      3478      3488      3498      3508      3518      3528      3538         
         ERYA2_SACER   3459 GTATGVRLPSTLVFDHPTPLAVAEHLRDRLFAASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED 3547
               SCOP domains d1                             pzqb_ B: Erythronolide synthase                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------Erythro-docking-1pzqB01 B:3-60                             Pfam domains (1)
           Pfam domains (2) -------------------------------Erythro-docking-1pzqB02 B:3-60                             Pfam domains (2)
         Sec.struct. author ..-----------------------------.......hhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhhhhh.......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------- Transcript
                1pzq B    1 GS-----------------------------AASPAVDIGDRLDELEKALEALSAEDGHDDVGQRLESLLRRWNSRRADAPSTSAISED   60
                             |       -         -         - |      11        21        31        41        51         
                             2                             3                                                         

   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)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1PZQ)

(-) Pfam Domains  (1, 2)

NMR Structure

(-) Gene Ontology  (11, 11)

NMR Structure(hide GO term definitions)
Chain A,B   (ERYA2_SACER | Q03132)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    GO:0048037    cofactor binding    Interacting selectively and non-covalently with a cofactor, a substance that is required for the activity of an enzyme or other protein. Cofactors may be inorganic, such as the metal atoms zinc, iron, and copper in certain forms, or organic, in which case they are referred to as coenzymes. Cofactors may either be bound tightly to active sites or bind loosely with the substrate.
    GO:0047879    erythronolide synthase activity    Catalysis of the reaction: 6 malonyl-CoA + propionyl-CoA = 7 CoA + 6-deoxyerythronolide B.
    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.
    GO:0031177    phosphopantetheine binding    Interacting selectively and non-covalently with phosphopantetheine, the vitamin pantetheine 4'-(dihydrogen phosphate).
    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.
    GO:0016746    transferase activity, transferring acyl groups    Catalysis of the transfer of an acyl group from one compound (donor) to another (acceptor).
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:0033068    macrolide biosynthetic process    The chemical reactions and pathways leading to the formation of macrolides, any of a large group of polyketide compounds that contain a large lactone ring with few or no double bonds and no nitrogen atoms, linked glycosidically to one or more sugar groups. The macrolides include the carbomycins, the erythromycins, oleandomycin, oligomycins, and the spiramycins, and act as antibiotics, mainly against Gram-positive bacteria.
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    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

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

UniProtKB/Swiss-Prot
        ERYA2_SACER | Q031321pzr 2qo3 3el6

(-) Related Entries Specified in the PDB File

1pzr STRUCTURE OF FUSED DOCKING DOMAINS FROM THE ERYTHROMYCIN POLYKETIDE SYNTHASE (DEBS), A MODEL FOR THE INTERACTION BETWEEN DEBS 2 AND DEBS 3: THE B DOMAIN