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Q5SFD1

- CHMJ_STRBI

UniProt

Q5SFD1 - CHMJ_STRBI

Protein

dTDP-4-dehydro-6-deoxyglucose 3-epimerase

Gene

chmJ

Organism
Streptomyces bikiniensis
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 30 (01 Oct 2014)
      Sequence version 1 (21 Dec 2004)
      Previous versions | rss
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    Functioni

    Catalyzes the conversion of dTDP-4-oxo-6-deoxyglucose to dTDP-4-oxo-6-deoxyallose, via a C-3 epimerization. This is a step in the biosynthesis of the mycinose moiety of the chalcomycin antibiotic.1 Publication

    Catalytic activityi

    dTDP-4-dehydro-6-deoxy-alpha-D-glucose = dTDP-4-dehydro-6-deoxy-alpha-D-allose.1 Publication

    Kineticsi

    kcat is 6.4 sec(-1).

    1. KM=04 mM for dTDP-4-dehydro-6-deoxy-alpha-D-glucose

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei21 – 211Substrate
    Binding sitei26 – 261Substrate
    Binding sitei45 – 451Substrate
    Binding sitei57 – 571Substrate
    Active sitei60 – 601Proton acceptor1 Publication
    Binding sitei70 – 701Substrate
    Binding sitei117 – 1171Substrate
    Active sitei130 – 1301Proton donor1 Publication
    Binding sitei136 – 1361Substrate
    Binding sitei141 – 1411Substrate

    GO - Molecular functioni

    1. dTDP-4-dehydrorhamnose 3,5-epimerase activity Source: InterPro

    GO - Biological processi

    1. antibiotic biosynthetic process Source: UniProtKB-KW
    2. lipopolysaccharide biosynthetic process Source: InterPro

    Keywords - Molecular functioni

    Isomerase

    Keywords - Biological processi

    Antibiotic biosynthesis, Carbohydrate metabolism

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    dTDP-4-dehydro-6-deoxyglucose 3-epimerase (EC:5.1.3.27)
    Alternative name(s):
    dTDP-4-dehydro-6-deoxy-D-glucose 3-epimerase
    dTDP-4-keto-6-deoxyglucose epimerase
    dTDP-4-oxo-6-deoxy-D-glucose epimerase
    Gene namesi
    Name:chmJ
    OrganismiStreptomyces bikiniensis
    Taxonomic identifieri1896 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesStreptomycineaeStreptomycetaceaeStreptomyces

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi60 – 601H → N: No effect on substrate affinity, but 2400-fold reduction in activity. 1 Publication
    Mutagenesisi130 – 1301Y → F: Slight decrease in substrate affinity, and 1650-fold reduction in activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 196196dTDP-4-dehydro-6-deoxyglucose 3-epimerasePRO_0000425106Add
    BLAST

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Structurei

    Secondary structure

    1
    196
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi9 – 124
    Beta strandi16 – 194
    Beta strandi22 – 298
    Helixi30 – 378
    Beta strandi45 – 517
    Beta strandi55 – 628
    Beta strandi64 – 663
    Beta strandi70 – 8415
    Turni91 – 944
    Beta strandi96 – 1027
    Turni103 – 1053
    Beta strandi108 – 1114
    Beta strandi116 – 1216
    Beta strandi126 – 1349
    Helixi138 – 1403
    Beta strandi141 – 1433
    Turni149 – 1513
    Helixi165 – 1684
    Helixi173 – 1786
    Helixi185 – 19612

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    4HMZX-ray2.00A/B/C/D1-196[»]
    4HN0X-ray2.20A/B/C/D1-196[»]
    4HN1X-ray1.60A/B/C/D1-196[»]
    ProteinModelPortaliQ5SFD1.
    SMRiQ5SFD1. Positions 2-189.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Family and domain databases

    Gene3Di2.60.120.10. 1 hit.
    InterProiIPR000888. dTDP_sugar_isom.
    IPR014710. RmlC-like_jellyroll.
    IPR011051. RmlC_Cupin.
    [Graphical view]
    PANTHERiPTHR21047. PTHR21047. 1 hit.
    PfamiPF00908. dTDP_sugar_isom. 1 hit.
    [Graphical view]
    ProDomiPD001462. dTDP_sugar_isom. 1 hit.
    [Graphical view] [Entries sharing at least one domain]
    SUPFAMiSSF51182. SSF51182. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Q5SFD1-1 [UniParc]FASTAAdd to Basket

    « Hide

    MHPLSIEGAW SQEPVIHSDH RGRSHEWFRG ESFRQAFGHD FPVAQVNVAV    50
    SHRGALRGIH YTEIPPGQAK YSVCVRGAGL DVVVDVRIGS PTFGRWEIVP 100
    MDAERNTAVY LTAGLGRAFL SLTDDATLVY LCSSGYAPAR EHSVNPLDPD 150
    LGIAWPDDIE PLLSDRDENA PTLATAERLG LLPTYQAWQE QQQAQR 196
    Length:196
    Mass (Da):21,683
    Last modified:December 21, 2004 - v1
    Checksum:i26C8CD880701F1CA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY509120 Genomic DNA. Translation: AAS79451.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY509120 Genomic DNA. Translation: AAS79451.1 .

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    4HMZ X-ray 2.00 A/B/C/D 1-196 [» ]
    4HN0 X-ray 2.20 A/B/C/D 1-196 [» ]
    4HN1 X-ray 1.60 A/B/C/D 1-196 [» ]
    ProteinModelPortali Q5SFD1.
    SMRi Q5SFD1. Positions 2-189.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Family and domain databases

    Gene3Di 2.60.120.10. 1 hit.
    InterProi IPR000888. dTDP_sugar_isom.
    IPR014710. RmlC-like_jellyroll.
    IPR011051. RmlC_Cupin.
    [Graphical view ]
    PANTHERi PTHR21047. PTHR21047. 1 hit.
    Pfami PF00908. dTDP_sugar_isom. 1 hit.
    [Graphical view ]
    ProDomi PD001462. dTDP_sugar_isom. 1 hit.
    [Graphical view ] [Entries sharing at least one domain ]
    SUPFAMi SSF51182. SSF51182. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Chalcomycin biosynthesis gene cluster from Streptomyces bikiniensis: novel features of an unusual ketolide produced through expression of the chm polyketide synthase in Streptomyces fradiae."
      Ward S.L., Hu Z., Schirmer A., Reid R., Revill W.P., Reeves C.D., Petrakovsky O.V., Dong S.D., Katz L.
      Antimicrob. Agents Chemother. 48:4703-4712(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: NRRL 2737.
    2. "Structural and functional studies on a 3'-epimerase involved in the biosynthesis of dTDP-6-deoxy-D-allose."
      Kubiak R.L., Phillips R.K., Zmudka M.W., Ahn M.R., Maka E.M., Pyeatt G.L., Roggensack S.J., Holden H.M.
      Biochemistry 51:9375-9383(2012) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.60 ANGSTROMS) OF APOENZYME; COMPLEX WITH DTDP-QUINOVOSE AND MUTANT ASN-60/PHE-130 IN COMPLEX WITH DTDP, FUNCTION, CATALYTIC ACTIVITY, SUBUNIT, ACTIVE SITES, MUTAGENESIS OF HIS-60 AND TYR-130.
      Strain: NRRL 2737.

    Entry informationi

    Entry nameiCHMJ_STRBI
    AccessioniPrimary (citable) accession number: Q5SFD1
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 22, 2014
    Last sequence update: December 21, 2004
    Last modified: October 1, 2014
    This is version 30 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3