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Q5SFD1

- CHMJ_STRBI

UniProt

Q5SFD1 - CHMJ_STRBI

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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

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
Complete GO annotation...

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

        10         20         30         40         50
MHPLSIEGAW SQEPVIHSDH RGRSHEWFRG ESFRQAFGHD FPVAQVNVAV
60 70 80 90 100
SHRGALRGIH YTEIPPGQAK YSVCVRGAGL DVVVDVRIGS PTFGRWEIVP
110 120 130 140 150
MDAERNTAVY LTAGLGRAFL SLTDDATLVY LCSSGYAPAR EHSVNPLDPD
160 170 180 190
LGIAWPDDIE PLLSDRDENA PTLATAERLG LLPTYQAWQE QQQAQR
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