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Protein

D-ribose pyranase

Gene

rbsD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the interconversion of beta-pyran and beta-furan forms of D-ribose. It also catalyzes the conversion between beta-allofuranose and beta-allopyranose.1 Publication

Caution

Was originally thought (PubMed:3011793) to be a high affinity ribose transport protein, but further analysis (PubMed:15060078) shows that it is a D-ribose pyranase.2 Publications

Catalytic activityi

Beta-D-ribopyranose = beta-D-ribofuranose.1 Publication
Beta-D-allopyranose = beta-D-allofuranose.1 Publication

Pathwayi: D-ribose degradation

This protein is involved in step 1 of the subpathway that synthesizes D-ribose 5-phosphate from beta-D-ribopyranose.
Proteins known to be involved in the 2 steps of the subpathway in this organism are:
  1. D-ribose pyranase (rbsD)
  2. Ribokinase (rbsK)
This subpathway is part of the pathway D-ribose degradation, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-ribose 5-phosphate from beta-D-ribopyranose, the pathway D-ribose degradation and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei20Proton donorCurated1
Binding sitei28SubstrateBy similarity1
Binding sitei106SubstrateBy similarity1

GO - Molecular functioni

  • identical protein binding Source: EcoCyc
  • intramolecular lyase activity Source: InterPro
  • intramolecular transferase activity Source: EcoCyc
  • monosaccharide binding Source: InterPro

GO - Biological processi

  • D-ribose catabolic process Source: EcoCyc

Keywordsi

Molecular functionIsomerase
Biological processCarbohydrate metabolism

Enzyme and pathway databases

BioCyciEcoCyc:EG10817-MONOMER
MetaCyc:EG10817-MONOMER
BRENDAi5.4.99.62 2026
UniPathwayiUPA00916; UER00888

Names & Taxonomyi

Protein namesi
Recommended name:
D-ribose pyranase (EC:5.4.99.621 Publication)
Gene namesi
Name:rbsD
Ordered Locus Names:b3748, JW5857
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10817 rbsD

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi20H → A: Loss of pyranase activity. 1 Publication1
Mutagenesisi106H → A: Retains one-third of the original activity. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000971921 – 139D-ribose pyranaseAdd BLAST139

Proteomic databases

EPDiP04982
PaxDbiP04982
PRIDEiP04982

Interactioni

Subunit structurei

Homodecamer.2 Publications

GO - Molecular functioni

  • identical protein binding Source: EcoCyc

Protein-protein interaction databases

BioGridi4261236, 14 interactors
STRINGi316385.ECDH10B_3936

Structurei

3D structure databases

ProteinModelPortaliP04982
SMRiP04982
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni128 – 130Substrate bindingBy similarity3

Sequence similaritiesi

Belongs to the RbsD / FucU family. RbsD subfamily.Curated

Phylogenomic databases

eggNOGiENOG4105MRB Bacteria
COG1869 LUCA
HOGENOMiHOG000219040
InParanoidiP04982
KOiK06726
OMAiIIRTGEC
PhylomeDBiP04982

Family and domain databases

Gene3Di3.40.1650.10, 1 hit
HAMAPiMF_01661 D_rib_pyranase, 1 hit
InterProiView protein in InterPro
IPR023064 D-ribose_pyranase
IPR023750 RbsD-like_sf
IPR007721 RbsD_FucU
PANTHERiPTHR37831 PTHR37831, 1 hit
PfamiView protein in Pfam
PF05025 RbsD_FucU, 1 hit
SUPFAMiSSF102546 SSF102546, 1 hit

Sequencei

Sequence statusi: Complete.

P04982-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKKGTVLNSD ISSVISRLGH TDTLVVCDAG LPIPKSTTRI DMALTQGVPS
60 70 80 90 100
FMQVLGVVTN EMQVEAAIIA EEIKHHNPQL HETLLTHLEQ LQKHQGNTIE
110 120 130
IRYTTHEQFK QQTAESQAVI RSGECSPYAN IILCAGVTF
Length:139
Mass (Da):15,292
Last modified:July 19, 2004 - v3
Checksum:iD19A9D98CB79F611
GO

Sequence cautioni

The sequence AAA62101 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M13169 Genomic DNA Translation: AAA51472.1
L10328 Genomic DNA Translation: AAA62101.1 Different initiation.
U00096 Genomic DNA Translation: AAC76771.2
AP009048 Genomic DNA Translation: BAE77540.1
X68551 Genomic DNA Translation: CAA48556.1
PIRiE65178
RefSeqiNP_418204.2, NC_000913.3
WP_001301979.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC76771; AAC76771; b3748
BAE77540; BAE77540; BAE77540
GeneIDi948267
KEGGiecj:JW5857
eco:b3748
PATRICifig|1411691.4.peg.2952

Similar proteinsi

Entry informationi

Entry nameiRBSD_ECOLI
AccessioniPrimary (citable) accession number: P04982
Secondary accession number(s): Q2M866
Entry historyiIntegrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: July 19, 2004
Last modified: March 28, 2018
This is version 136 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome
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Main funding by: National Institutes of Health