Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

dTDP-4-dehydrorhamnose 3,5-epimerase

Gene

NGR_a03520

Organism
Sinorhizobium fredii (strain NBRC 101917 / NGR234)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose.By similarity

Catalytic activityi

dTDP-4-dehydro-6-deoxy-alpha-D-glucose = dTDP-4-dehydro-beta-L-rhamnose.

Pathwayi: dTDP-L-rhamnose biosynthesis

This protein is involved in the pathway dTDP-L-rhamnose biosynthesis, which is part of Carbohydrate biosynthesis.
View all proteins of this organism that are known to be involved in the pathway dTDP-L-rhamnose biosynthesis and in Carbohydrate biosynthesis.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei31 – 311SubstrateBy similarity
Binding sitei36 – 361SubstrateBy similarity
Binding sitei54 – 541SubstrateBy similarity
Binding sitei56 – 561SubstrateBy similarity
Binding sitei67 – 671SubstrateBy similarity
Binding sitei70 – 701SubstrateBy similarity
Sitei70 – 701Important in abstrating the protons in C3' and C5'By similarity
Binding sitei80 – 801SubstrateBy similarity
Binding sitei91 – 911SubstrateBy similarity
Binding sitei127 – 1271SubstrateBy similarity
Sitei140 – 1401May have a key role in proton donation to C5'By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase

Enzyme and pathway databases

BioCyciRETL1328306-WGS:GSTH-1530-MONOMER.
SFRE394:GBYN-6403-MONOMER.
UniPathwayiUPA00124.

Names & Taxonomyi

Protein namesi
Recommended name:
dTDP-4-dehydrorhamnose 3,5-epimerase (EC:5.1.3.13)
Alternative name(s):
Thymidine diphospho-4-keto-rhamnose 3,5-epimerase
dTDP-4-keto-6-deoxyglucose 3,5-epimerase
dTDP-6-deoxy-D-xylo-4-hexulose 3,5-epimerase
dTDP-L-rhamnose synthase
Gene namesi
Ordered Locus Names:NGR_a03520
ORF Names:y4gL
Encoded oniPlasmid sym pNGR234a0 Publication
OrganismiSinorhizobium fredii (strain NBRC 101917 / NGR234)
Taxonomic identifieri394 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesRhizobiaceaeSinorhizobium/Ensifer groupSinorhizobium
Proteomesi
  • UP000001054 Componenti: Plasmid sym pNGR234a

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 195195dTDP-4-dehydrorhamnose 3,5-epimerasePRO_0000207982Add
BLAST

Structurei

3D structure databases

ProteinModelPortaliP55468.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni176 – 1772Substrate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000227724.
KOiK01790.
OMAiPMEQGKL.
OrthoDBiEOG6HTP2V.

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.
TIGRFAMsiTIGR01221. rmlC. 1 hit.

Sequencei

Sequence statusi: Complete.

P55468-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGGTELDEMY FQSLSIAEVK LIRPRKFGDC RGYFSEVFRE KWFRKNVADV
60 70 80 90 100
GLVQDNESLS AQIGTVRGLH FQLEPFAQGK LVRCTRGALF DVAVDVRVGS
110 120 130 140 150
PTYGKWVSAE LSQENGAQLW VPAGFAHGFM TLKADTVISY KVTAPYSAEH
160 170 180 190
DRGLKWDDPA IGINWPKMTT YVLSEKDSSQ PSLCELPVSF QYVKV
Length:195
Mass (Da):21,852
Last modified:November 1, 1997 - v1
Checksum:i77176926984CC1A2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00090 Genomic DNA. Translation: AAB91686.1.
RefSeqiNP_443874.1. NC_000914.2.
WP_010875366.1. NC_000914.2.

Genome annotation databases

EnsemblBacteriaiAAB91686; AAB91686; NGR_a03520.
GeneIDi962164.
KEGGirhi:NGR_a03520.
PATRICi32301449. VBIRhiSp122450_0360.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U00090 Genomic DNA. Translation: AAB91686.1.
RefSeqiNP_443874.1. NC_000914.2.
WP_010875366.1. NC_000914.2.

3D structure databases

ProteinModelPortaliP55468.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAB91686; AAB91686; NGR_a03520.
GeneIDi962164.
KEGGirhi:NGR_a03520.
PATRICi32301449. VBIRhiSp122450_0360.

Phylogenomic databases

HOGENOMiHOG000227724.
KOiK01790.
OMAiPMEQGKL.
OrthoDBiEOG6HTP2V.

Enzyme and pathway databases

UniPathwayiUPA00124.
BioCyciRETL1328306-WGS:GSTH-1530-MONOMER.
SFRE394:GBYN-6403-MONOMER.

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.
TIGRFAMsiTIGR01221. rmlC. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Molecular basis of symbiosis between Rhizobium and legumes."
    Freiberg C.A., Fellay R., Bairoch A., Broughton W.J., Rosenthal A., Perret X.
    Nature 387:394-401(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NBRC 101917 / NGR234.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: NBRC 101917 / NGR234.

Entry informationi

Entry nameiRMLC_SINFN
AccessioniPrimary (citable) accession number: P55468
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 6, 2016
This is version 90 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

Complete proteome, Plasmid, Reference proteome

Documents

  1. Rhizobium plasmid pNGR234a
    Rhizobium plasmid pNGR234a: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.