Show PDB file:   
         Plain Text   HTML   (compressed file size)
QuickSearch:   
by PDB,NDB,UniProt,PROSITE Code or Search Term(s)  
(-)NMR Structure - manually
(-)NMR Structure - model 1
(-)NMR Structure - model 1, sites
(-)NMR Structure - all models
collapse expand < >
Image NMR Structure - manually
NMR Structure - manually  (Jmol Viewer)
Image NMR Structure - model 1
NMR Structure - model 1  (Jmol Viewer)
Image NMR Structure - model 1, sites
NMR Structure - model 1, sites  (Jmol Viewer)
Image NMR Structure - all models
NMR Structure - all models  (Jmol Viewer)

(-) Description

Title :  NMR SOLUTION STRUCTURES OF 3,5-DIOXOHEXYL ACP (A TRIKETIDE MIMIC) FROM THE ACTINORHODIN POLYKETIDE SYNTHASE IN STREPTOMYCES COELICOLOR
 
Authors :  M. P. Crump, S. E. Evans, C. Williams
Date :  08 Mar 09  (Deposition) - 14 Apr 09  (Release) - 09 Jun 09  (Revision)
Method :  SOLUTION NMR
Resolution :  NOT APPLICABLE
Chains :  NMR Structure  :  A  (20x)
Keywords :  Acp, Triketide, Polyketide, Actinorhodin, Antibiotic Biosynthesis, Phosphopantetheine, Biosynthetic Protein (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  S. E. Evans, C. Williams, C. J. Arthur, E. Ploskon, P. Wattana-Amorn, R. J. Cox, J. Crosby, C. L. Willis, T. J. Simpson, M. P. Crump
Probing The Interactions Of Early Polyketide Intermediates With The Actinorhodin Acp From S. Coelicolor A3(2).
J. Mol. Biol. V. 389 511 2009
PubMed-ID: 19361520  |  Reference-DOI: 10.1016/J.JMB.2009.03.072
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - ACTINORHODIN POLYKETIDE SYNTHASE ACYL CARRIER PROTEIN
    ChainsA
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System StrainBL21
    Expression System Taxid562
    Expression System VariantDE3
    Expression System VectorPET11C
    GeneSCO5089, SCBAC28G1.15
    MutationYES
    Organism ScientificSTREPTOMYCES COELICOLOR
    Organism Taxid1902
    StrainA3(2)
    SynonymACP, ACTI ORF3

 Structural Features

(-) Chains, Units

  
NMR Structure (20x)

Summary Information (see also Sequences/Alignments below)

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

NMR Structure (1, 1)
No.NameCountTypeFull Name
1SXD1Ligand/IonN-{2-[(3,5-DIOXOHEXYL)SULFANYL]ETHYL}-N~3~-[(2S)-2-HYDROXY-3,3-DIMETHYL-4-(PHOSPHONOOXY)BUTANOYL]-BETA-ALANINAMIDE

(-) Sites  (1, 1)

NMR Structure (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARESER A:42BINDING SITE FOR RESIDUE SXD A 87

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (2, 2)

NMR Structure (2, 2)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1CARRIERPS50075 Carrier protein (CP) domain profile.ACPX_STRCO4-82  1A:4-82
2PHOSPHOPANTETHEINEPS00012 Phosphopantetheine attachment site.ACPX_STRCO37-52  1A:37-52

(-) Exons   (0, 0)

(no "Exon" information available for 2KGE)

(-) 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:86
 aligned with ACPX_STRCO | Q02054 from UniProtKB/Swiss-Prot  Length:86

    Alignment length:86
                                    10        20        30        40        50        60        70        80      
            ACPX_STRCO    1 MATLLTTDDLRRALVECAGETDGTDLSGDFLDLRFEDIGYDSLALMETAARLESRYGVSIPDDVAGRVDTPRELLDLINGALAEAA 86
               SCOP domains -------------------------------------------------------------------------------------- SCOP domains
               CATH domains 2kgeA00 A:1-86  [code=1.10.1200.10, no name defined]                                   CATH domains
               Pfam domains -------PP-binding-2kgeA01 A:8-78                                              -------- Pfam domains
         Sec.struct. author .....hhhhhhhhhhhhhh.....................hhhhhhhhhhhhhhhhh...hhhhhh...hhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) ---CARRIER  PDB: A:4-82 UniProt: 4-82                                             ---- PROSITE (1)
                PROSITE (2) ------------------------------------PHOSPHOPANTETHEI---------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------- Transcript
                  2kge A  1 MATLLTTDDLRRALVESAGETDGTDLSGDFLDLRFEDIGYDSLALMETAARLESRYGVSIPDDVAGRVDTPRELLDLINGALAEAA 86
                                    10        20        30        40        50        60        70        80      

   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  (0, 0)

(no "SCOP Domain" information available for 2KGE)

(-) CATH Domains  (1, 1)

NMR Structure

(-) Pfam Domains  (1, 1)

NMR Structure

(-) Gene Ontology  (1, 1)

NMR Structure(hide GO term definitions)
Chain A   (ACPX_STRCO | Q02054)
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.

 Visualization

(-) Interactive Views

NMR Structure
  Complete Structure
    Jena3D(integrated viewing of ligand, site, SAP, PROSITE, SCOP information)
    WebMol | AstexViewer[tm]@PDBe
(Java Applets, require no local installation except for Java; loading may be slow)
    STRAP
(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    RasMol
(require local installation)
    Molscript (VRML)
(requires installation of a VRML viewer; select preferred view via VRML and generate a mono or stereo PDF format file)
 
  Ligands, Modified Residues, Ions
    SXD  [ RasMol | Jena3D ]  +environment [ RasMol | Jena3D ]
 
  Sites
    AC1  [ RasMol ]  +environment [ RasMol ]
 
  Cis Peptide Bonds
(no "Cis Peptide Bonds" information available for 2kge)
 

(-) Still Images

Jmol
  protein: cartoon or spacefill or dots and stick; nucleic acid: cartoon and stick; ligands: spacefill; active site: stick
Molscript
  protein, nucleic acid: cartoon; ligands: spacefill; active site: ball and stick

 Databases and Analysis Tools

(-) Databases

Access by PDB/NDB ID
  2kge
    Family and Domain InformationProDom | SYSTERS
    General Structural InformationGlycoscienceDB | MMDB | NDB | OCA | PDB | PDBe | PDBj | PDBsum | PDBWiki | PQS | PROTEOPEDIA
    Orientation in MembranesOPM
    Protein SurfaceSURFACE
    Secondary StructureDSSP (structure derived) | HSSP (homology derived)
    Structural GenomicsGeneCensus
    Structural NeighboursCE | VAST
    Structure ClassificationCATH | Dali | SCOP
    Validation and Original DataBMRB Data View | BMRB Restraints Grid | EDS | PROCHECK | RECOORD | WHAT_CHECK
 
Access by UniProt ID/Accession number
  ACPX_STRCO | Q02054
    Comparative Protein Structure ModelsModBase
    Genomic InformationEnsembl
    Protein-protein InteractionDIP
    Sequence, Family and Domain InformationInterPro | Pfam | SMART | UniProtKB/SwissProt
 
Access by Enzyme Classificator   (EC Number)
  (no 'Enzyme Classificator' available)
    General Enzyme InformationBRENDA | EC-PDB | Enzyme | IntEnz
    PathwayKEGG | MetaCyc
 
Access by Disease Identifier   (MIM ID)
  (no 'MIM ID' available)
    Disease InformationOMIM
 
Access by GenAge ID
  (no 'GenAge ID' available)
    Age Related InformationGenAge

(-) Analysis Tools

Access by PDB/NDB ID
    Domain InformationXDom
    Interatomic Contacts of Structural UnitsCSU
    Ligand-protein ContactsLPC
    Protein CavitiescastP
    Sequence and Secondary StructurePDBCartoon
    Structure AlignmentSTRAP(Java WebStart application, automatic local installation, requires Java; full application with system access!)
    Structure and Sequence BrowserSTING
 
Access by UniProt ID/Accession number
  ACPX_STRCO | Q02054
    Protein Disorder PredictionDisEMBL | FoldIndex | GLOBPLOT (for more information see DisProt)

 Related Entries

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

UniProtKB/Swiss-Prot
        ACPX_STRCO | Q020541af8 1nnz 2af8 2k0x 2k0y 2kg6 2kg8 2kg9 2kga 2kgc 2kgd 2mvu 2mvv

(-) Related Entries Specified in the PDB File

2k0x NMR SOLUTIONS STRUCTURE OF HOLO ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2k0y NMR SOLUTIONS STRUCTURE OF APO ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kg6 NMR SOLUTIONS STRUCTURE OF ACETYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kg8 NMR SOLUTIONS STRUCTURE OF MALONYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kg9 NMR SOLUTIONS STRUCTURE OF BUTYRYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kga NMR SOLUTIONS STRUCTURE OF HEXANOYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kgc NMR SOLUTIONS STRUCTURE OF OCTANOYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR
2kgd NMR SOLUTIONS STRUCTURE OF 3-OXOBUTYL ACP FROM THE ACTINORHODIN PATHWAY OF STREPTOMYCES COELICOLOR RELATED ID: 15658 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR HOLO ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 15659 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR APO ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16196 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR ACETYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16197 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR MALONYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16199 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR BUTYRYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16200 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR HEXANOYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16201 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR OCTANOYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR RELATED ID: 16202 RELATED DB: BMRB 1H, 13C AND 15N NMR ASSIGNMENTS FOR 3-XOXBUTYL ACP FROM THE ACTINORHODIN POLYKETIDE SYNTHASE OF STREPTOMYCES COELICOLOR