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(-) Description

Title :  COMPLEX STRUCTURE OF THE EXTERNAL THIOESTERASE OF THE SURFACTIN-SYNTHETASE WITH A CARRIER DOMAIN
 
Authors :  A. Koglin, F. Lohr, F. Bernhard, Rogov V. V. , D. P. Frueh, E. R. Strieter M. R. Mofid, P. Guntert, G. Wagner, C. T. Walsh, M. A. Marahiel, V. Dotsc
Date :  10 Apr 08  (Deposition) - 09 Dec 08  (Release) - 19 Oct 16  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A,B  (18x)
NMR Structure *:  A,B  (1x)
Keywords :  Thioesterase, A/B-Hydrolase, Nrps, Non-Ribosomal Peptide Synthetase, Type Ii Thioesterase, Antibiotic Biosynthesis, Ligase, Multifunctional Enzyme, Phosphopantetheine, Sporulation, Stress Response, Ligase-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  A. Koglin, F. Lohr, F. Bernhard, V. V. Rogov, D. P. Frueh, E. R. Strieter M. R. Mofid, P. Guntert, G. Wagner, C. T. Walsh, M. A. Marahiel, V. Dotsc
Structural Basis For The Selectivity Of The External Thioesterase Of The Surfactin Synthetase.
Nature V. 454 907 2008
PubMed-ID: 18704089  |  Reference-DOI: 10.1038/NATURE07161

(-) Compounds

Molecule 1 - TYROCIDINE SYNTHETASE 3 (TYROCIDINE SYNTHETASE III)
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System VectorPET22
    FragmentACYL CARRIER 3 DOMAIN, UNP RESIDUES 3033-3112
    GeneTYCC
    Organism ScientificBREVIBACILLUS PARABREVIS
 
Molecule 2 - SURFACTIN SYNTHETASE THIOESTERASE SUBUNIT
    ChainsB
    EC Number3.1.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System VectorPET
    GeneSRFAD, SRFA4
    Organism ScientificBACILLUS SUBTILIS
    SynonymCOLD SHOCK PROTEIN CSI16

 Structural Features

(-) Chains, Units

  12
NMR Structure (18x)AB
NMR Structure * (1x)AB

Summary Information (see also Sequences/Alignments below)

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

(no "Ligand,Modified Residues,Ions" information available for 2K2Q)

(-) Sites  (0, 0)

(no "Site" information available for 2K2Q)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2K2Q)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 2K2Q)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2K2Q)

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CARRIERPS50075 Carrier protein (CP) domain profile.TYCC_BREPA965-1040
2002-2077
3040-3115
4075-4150
5119-5194
6162-6237
  1-
-
A:10-82
-
-
-
2PHOSPHOPANTETHEINEPS00012 Phosphopantetheine attachment site.TYCC_BREPA995-1010
2032-2047
3070-3085
4105-4120
5149-5164
6192-6207
  1-
-
A:40-55
-
-
-
NMR Structure * (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CARRIERPS50075 Carrier protein (CP) domain profile.TYCC_BREPA965-1040
2002-2077
3040-3115
4075-4150
5119-5194
6162-6237
  1-
-
A:10-82
-
-
-
2PHOSPHOPANTETHEINEPS00012 Phosphopantetheine attachment site.TYCC_BREPA995-1010
2032-2047
3070-3085
4105-4120
5149-5164
6192-6207
  1-
-
A:40-55
-
-
-

(-) Exons   (0, 0)

(no "Exon" information available for 2K2Q)

(-) 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:82
 aligned with TYCC_BREPA | O30409 from UniProtKB/Swiss-Prot  Length:6486

    Alignment length:84
                                  3038      3048      3058      3068      3078      3088      3098      3108    
          TYCC_BREPA   3029 EGKPVTEAQYVAPTNAVESKLAEIWERVLGVSGIGILDNFFQIGGHSLKAMAVAAQVHREYQVELPLKVLFAQPTIKALAQYVA 3112
               SCOP domains d2  k2qa_ A: Peptidyl carrier protein (PCP), thioester domain                        SCOP domains
               CATH domains ------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------PP-binding-2k2qA01 A:17-81                                       - Pfam domains
         Sec.struct. author ..--..........hhhhhhhhhhh........................hhhhhhhh..................hhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (1) -----------CARRIER  PDB: A:10-82 UniProt: 3040-3115                                  PROSITE (1)
                PROSITE (2) -----------------------------------------PHOSPHOPANTETHEI--------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------ Transcript
                2k2q A    1 MG--VTEAQYVAPTNAVESKLAEIWERVLGVSGIGILDNFFQIGGHSLKAMAVAAQVHREYQVELPLKVLFAQPTIKALAQYVA   82
                             |  |    8        18        28        38        48        58        68        78    
                             2  3                                                                               

Chain B from PDB  Type:PROTEIN  Length:242
 aligned with SRFAD_BACSU | Q08788 from UniProtKB/Swiss-Prot  Length:242

    Alignment length:242
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240  
         SRFAD_BACSU      1 MSQLFKSFDASEKTQLICFPFAGGYSASFRPLHAFLQGECEMLAAEPPGHGTNQTSAIEDLEELTDLYKQELNLRPDRPFVLFGHSMGGMITFRLAQKLEREGIFPQAVIISAIQPPHIQRKKVSHLPDDQFLDHIIQLGGMPAELVENKEVMSFFLPSFRSDYRALEQFELYDLAQIQSPVHVFNGLDDKKCIRDAEGWKKWAKDITFHQFDGGHMFLLSQTEEVAERIFAILNQHPIIQP  242
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------Thioesterase-2k2qB01 B:14-234                                                                                                                                                                                                -------- Pfam domains
         Sec.struct. author ..eee.........eee.....hhhhhhhhhhhhhhh.....eeee............hhhhhhhhhh............eee.....hhhhhhhhhhhhhhhh....eeeeeee.............hhhhhhh...........hhhhhh......hhhhhhhhhh.............eeeeee....hhhhhhhhhhh.....eeeeee...hhhhhhhhhhhhhhhhhhhh...... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                2k2q B    1 MSQLFKSFDASEKTQLICFPFAGGYSASFRPLHAFLQGECEMLAAEPPGHGTNQTSAIEDLEELTDLYKQELNLRPDRPFVLFGHSMGGMITFRLAQKLEREGIFPQAVIISAIQPPHIQRKKVSHLPDDQFLDHIIQLGGMPAELVENKEVMSFFLPSFRSDYRALEQFELYDLAQIQSPVHVFNGLDDKKCIRDAEGWKKWAKDITFHQFDGGHMFLLSQTEEVAERIFAILNQHPIIQP  242
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240  

   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, 1)

NMR Structure

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2K2Q)

(-) Pfam Domains  (2, 2)

NMR Structure

(-) Gene Ontology  (11, 14)

NMR Structure(hide GO term definitions)
Chain A   (TYCC_BREPA | O30409)
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:0016788    hydrolase activity, acting on ester bonds    Catalysis of the hydrolysis of any ester bond.
    GO:0016874    ligase activity    Catalysis of the joining of two substances, or two groups within a single molecule, with the concomitant hydrolysis of the diphosphate bond in ATP or a similar triphosphate.
    GO:0031177    phosphopantetheine binding    Interacting selectively and non-covalently with phosphopantetheine, the vitamin pantetheine 4'-(dihydrogen phosphate).
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: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.

Chain B   (SRFAD_BACSU | Q08788)
molecular function
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0016788    hydrolase activity, acting on ester bonds    Catalysis of the hydrolysis of any ester bond.
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:0008610    lipid biosynthetic process    The chemical reactions and pathways resulting in the formation of lipids, compounds soluble in an organic solvent but not, or sparingly, in an aqueous solvent.
    GO:0030435    sporulation resulting in formation of a cellular spore    The process in which a relatively unspecialized cell acquires the specialized features of a cellular spore, a cell form that can be used for dissemination, for survival of adverse conditions because of its heat and dessication resistance, and/or for reproduction.
cellular component
    GO:0005737    cytoplasm    All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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 Related Entries

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

UniProtKB/Swiss-Prot
        SRFAD_BACSU | Q087882ron
        TYCC_BREPA | O304091dny 2gdw 2gdx 2gdy 2ge1 2jgp 2md9 4mrt

(-) Related Entries Specified in the PDB File

2gdx PCP DOMAIN
2ron THIOESTERASE