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(-) Description

Title :  DETERMINING THE MOLECULAR BASIS FOR STARTER UNIT SELECTION DURING DAUNORUBICIN BIOSYNTHESIS
 
Authors :  D. R. Jackson, T. R. Valentic, S. C. Tsai, A. Patel, L. Mohammed, K. Vasil P. Wattana-Amorn, P. F. Long, M. P. Crump, J. Crosby
Date :  22 Jan 15  (Deposition) - 27 Jan 16  (Release) - 27 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Polyketide, Daunorubicin, Natural Product, Starter Unit, Transferase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  D. R. Jackson, T. R. Valentic, S. C. Tsai, A. Patel, L. Mohammed, K. Vasilakis, P. Wattana-Amorn, P. F. Long, M. P. Crump, J. Crosby
Determining The Molecular Basis For Starter Unit Selection During Daunorubicin Biosynthesis
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - DAUNORUBICIN-DOXORUBICIN POLYKETIDE SYNTHASE
    Chains: A, B
    EC Number: 2.3.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28A
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Gene: DPSC
    Organism Scientific: STREPTOMYCES PEUCETIUS
    Organism Taxid: 1950
    Other Details: THE PROTEIN WAS CO-CRYSTALLIZED WITH A PROPIONYL PHOSPHOPANTETHEINE ANALOGUE
    Synonym: DPSC

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 2)
No.NameCountTypeFull Name
142X2Ligand/IonN~3~-[(2R)-2-HYDROXY-3,3-DIMETHYL-4-(PHOSPHONOOXY)BUTANOYL]-N-[2-(PROPANOYLAMINO)ETHYL]-BETA-ALANINAMIDE

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREVAL A:117 , SER A:118 , TYR A:165 , MET A:197 , LYS A:221 , ARG A:271 , VAL A:327 , GLY A:328 , ALA A:329 , HOH A:610 , HOH A:628 , HOH A:668 , HOH A:678 , HOH A:682 , HOH A:694 , HOH A:700 , HOH A:731 , LEU B:93binding site for residue 42X A 401
2AC2SOFTWARELEU A:93 , LEU B:86 , VAL B:117 , SER B:118 , TYR B:165 , MET B:197 , LYS B:221 , VAL B:237 , ARG B:271 , VAL B:327 , GLY B:328 , ALA B:329 , PHE B:331 , HOH B:630 , HOH B:650 , HOH B:657 , HOH B:666 , HOH B:673binding site for residue 42X B 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4XS9)

(-) Cis Peptide Bonds  (5, 5)

Asymmetric/Biological Unit
No.Residues
1Pro A:151 -Pro A:152
2Gly A:330 -Phe A:331
3Pro B:151 -Pro B:152
4Arg B:213 -Ala B:214
5Gly B:330 -Phe B:331

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4XS9)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4XS9)

(-) Exons   (0, 0)

(no "Exon" information available for 4XS9)

(-) Sequences/Alignments

Asymmetric/Biological 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:341
                                                                                                                                                                                                                                                                                                                                                                                     
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeeee...eeehhhhhhh...hhhhhhhhh..eee.....hhhhhhhhhhhhhhhhhh.hhh.eeeeeee..........hhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhh.....eeeeeeee....................eeeeeeee.....eeeeeeeeee.hhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeee....hhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.......eeeeeeee...eeeeeeeee......... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xs9 A   9 GDLYVAGCGVWLPPPVTTEQALAAGHCDRRLASSTRMLSVAVADKETPAEMAALAAQTALDRSGVAPAHVDLVLHASLYFQGHHLWAPSSYVQRVAVGNRCPAMEVRQVSNGGMAALELARAYLLAAPDRVAALITTGDRMHPPGFDRWSSDPGTVYADGGTALVLSRQGGFARLRSLVTVSEPVLEGMHRGGHPFGPPSPEEQRAVDLDAHKRAYVAEAGSSFSVARVSAGQEEALTGALEAAGAGLDDISRVVLPHMGWRRLSAAYFNKWHIQPERTTWEFGRRTGHLGGGDPIAGFDHLVGSGRLAPGELCLLVSVGAGFSWSCAVVELLERPSWAAA 349
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238       248       258       268       278       288       298       308       318       328       338       348 


Chain B from PDB  Type:PROTEIN  Length:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeeeee...eeehhhhhhh...hhhhhhhhh..eee.....hhhhhhhhhhhhhhhhhh.hhh.eeeeeee..........hhhhhhhhhhh.....eeeeehhhhhhhhhhhhhhhhhhh.....eeeeeeee....................eeeeeeee.....eeeeeeeeee.hhhhhhhh................hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh..hhh.eeeee....hhhhhhhhhhhhhh.hhhhhhhhhhhhhh.hhhhhhhhhhhhhhhh.......eeeeeeee...eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4xs9 B  10 DLYVAGCGVWLPPPVTTEQALAAGHCDRRLASSTRMLSVAVADKETPAEMAALAAQTALDRSGVAPAHVDLVLHASLYFQGHHLWAPSSYVQRVAVGNRCPAMEVRQVSNGGMAALELARAYLLAAPDRVAALITTGDRMHPPGFDRWSSDPGTVYADGGTALVLSRQGGFARLRSLVTVSEPVLEGMHRGGHPFGPPSPEEQRAVDLDAHKRAYVAEAGSSFSVARVSAGQEEALTGALEAAGAGLDDISRVVLPHMGWRRLSAAYFNKWHIQPERTTWEFGRRTGHLGGGDPIAGFDHLVGSGRLAPGELCLLVSVGAGFSWSCAVVELLERPSWAA 348
                                    19        29        39        49        59        69        79        89        99       109       119       129       139       149       159       169       179       189       199       209       219       229       239       249       259       269       279       289       299       309       319       329       339
   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 4XS9)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4XS9)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4XS9)

(-) Gene Ontology  (3, 3)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
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  Q54816_STRPE | Q54816
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  2.3.1.-
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 Related Entries

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

UniProtKB/TrEMBL
        Q54816_STRPE | Q54816: 4xs7 4xsa 4xsb 5tt4

(-) Related Entries Specified in the PDB File

4xqp WILD-TYPE DAUNORUBICIN-DOXORUBICIN POLYKETIDE SYNTHASE
4xs7
4xsa
4xsb