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Protein

Ribose-5-phosphate isomerase B

Gene

rpiB

Organism
Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the interconversion of ribulose-5-P and ribose-5-P. It has not isomerase activity towards D-allose 6-phosphate.2 Publications

Miscellaneous

In mycobacterial enzymes, the usual proton acceptor is not a cysteine, but is remplaced by a glutamate.1 Publication

Catalytic activityi

D-ribose 5-phosphate = D-ribulose 5-phosphate.2 Publications

Enzyme regulationi

Weakly inhibited by phosphate and completely inhibited by iodoacetate.1 Publication

Kineticsi

Kcat is 120 sec(-1) for D-ribose 5-phosphate.1 Publication
  1. KM=1.0 mM for D-ribose 5-phosphate1 Publication
  2. KM=3.7 mM for D-ribose 5-phosphate1 Publication

    Pathwayi: pentose phosphate pathway

    This protein is involved in step 1 of the subpathway that synthesizes D-ribose 5-phosphate from D-ribulose 5-phosphate (non-oxidative stage).1 Publication
    Proteins known to be involved in this subpathway in this organism are:
    1. Ribose-5-phosphate isomerase B (rpiB)
    This subpathway is part of the pathway pentose phosphate pathway, which is itself part of Carbohydrate degradation.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes D-ribose 5-phosphate from D-ribulose 5-phosphate (non-oxidative stage), the pathway pentose phosphate pathway and in Carbohydrate degradation.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Active sitei75Proton acceptorCombined sources2 Publications1
    Active sitei102Proton donorCombined sources2 Publications1
    Binding sitei103D-ribulose 5-phosphateCombined sources2 Publications1
    Binding sitei113D-ribulose 5-phosphateCombined sources3 Publications1
    Binding sitei137D-ribulose 5-phosphateCombined sources3 Publications1
    Binding sitei141D-ribulose 5-phosphateCombined sources2 Publications1

    GO - Molecular functioni

    • ribose-5-phosphate isomerase activity Source: MTBBASE

    GO - Biological processi

    Keywordsi

    Molecular functionIsomerase
    Biological processCarbohydrate metabolism

    Enzyme and pathway databases

    UniPathwayiUPA00115; UER00412.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribose-5-phosphate isomerase B1 Publication (EC:5.3.1.62 Publications)
    Alternative name(s):
    Phosphoriboisomerase B1 Publication
    Gene namesi
    Name:rpiB1 Publication
    Ordered Locus Names:Rv2465c
    ORF Names:MTV008.21c
    OrganismiMycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
    Taxonomic identifieri83332 [NCBI]
    Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesMycobacteriaceaeMycobacteriumMycobacterium tuberculosis complex
    Proteomesi
    • UP000001584 Componenti: Chromosome

    Organism-specific databases

    TubercuListiRv2465c.

    Subcellular locationi

    GO - Cellular componenti

    • extracellular region Source: MTBBASE

    Pathology & Biotechi

    Chemistry databases

    ChEMBLiCHEMBL1770044.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00002511481 – 162Ribose-5-phosphate isomerase BAdd BLAST162

    Proteomic databases

    PaxDbiP9WKD7.

    Interactioni

    Subunit structurei

    Homodimer.2 Publications1 Publication

    Protein-protein interaction databases

    STRINGi83332.Rv2465c.

    Chemistry databases

    BindingDBiP9WKD7.

    Structurei

    Secondary structure

    1162
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi5 – 10Combined sources6
    Helixi12 – 27Combined sources16
    Beta strandi31 – 34Combined sources4
    Helixi47 – 59Combined sources13
    Beta strandi64 – 72Combined sources9
    Helixi73 – 80Combined sources8
    Beta strandi87 – 89Combined sources3
    Helixi93 – 101Combined sources9
    Beta strandi106 – 111Combined sources6
    Helixi112 – 114Combined sources3
    Helixi117 – 129Combined sources13
    Helixi136 – 151Combined sources16

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1USLX-ray1.88A/B/C/D/E1-162[»]
    2BESX-ray2.10A/B/C/D/E1-162[»]
    2BETX-ray2.20A/B/C/D/E1-162[»]
    2VVOX-ray1.85A/B/C/D/E1-162[»]
    2VVPX-ray1.65A/B/C/D/E1-162[»]
    2VVQX-ray2.00A/B/C/D/E1-162[»]
    ProteinModelPortaliP9WKD7.
    SMRiP9WKD7.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni11 – 12D-ribulose 5-phosphate bindingCombined sources3 Publications2
    Regioni70 – 74D-ribulose 5-phosphate bindingCombined sources2 Publications5

    Sequence similaritiesi

    Belongs to the LacAB/RpiB family.Curated

    Phylogenomic databases

    eggNOGiENOG4108YZG. Bacteria.
    COG0698. LUCA.
    KOiK01808.
    OMAiDDYPPFC.
    PhylomeDBiP9WKD7.

    Family and domain databases

    Gene3Di3.40.1400.10. 1 hit.
    InterProiView protein in InterPro
    IPR011860. Rib-5-P_Isoase.
    IPR003500. RpiB_LacA_LacB.
    PANTHERiPTHR30345. PTHR30345. 1 hit.
    PfamiView protein in Pfam
    PF02502. LacAB_rpiB. 1 hit.
    PIRSFiPIRSF005384. RpiB_LacA_B. 1 hit.
    SUPFAMiSSF89623. SSF89623. 1 hit.
    TIGRFAMsiTIGR02133. RPI_actino. 1 hit.
    TIGR00689. rpiB_lacA_lacB. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    P9WKD7-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MSGMRVYLGA DHAGYELKQR IIEHLKQTGH EPIDCGALRY DADDDYPAFC
    60 70 80 90 100
    IAAATRTVAD PGSLGIVLGG SGNGEQIAAN KVPGARCALA WSVQTAALAR
    110 120 130 140 150
    EHNNAQLIGI GGRMHTVAEA LAIVDAFVTT PWSKAQRHQR RIDILAEYER
    160
    THEAPPVPGA PA
    Length:162
    Mass (Da):17,278
    Last modified:April 16, 2014 - v1
    Checksum:i31EF834F28783E00
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    AL123456 Genomic DNA. Translation: CCP45258.1.
    RefSeqiWP_003899332.1. NZ_KK339370.1.
    YP_177884.1. NC_000962.3.

    Genome annotation databases

    EnsemblBacteriaiCCP45258; CCP45258; Rv2465c.
    GeneIDi887225.
    KEGGimtu:Rv2465c.
    mtv:RVBD_2465c.
    PATRICifig|83332.111.peg.2759.

    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.

    Entry informationi

    Entry nameiRPIB_MYCTU
    AccessioniPrimary (citable) accession number: P9WKD7
    Secondary accession number(s): L0TCF4, Q79FD7, Q7D737
    Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 16, 2014
    Last sequence update: April 16, 2014
    Last modified: July 5, 2017
    This is version 26 of the entry and version 1 of the sequence. See complete history.
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Reference proteome

    Documents

    1. Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh
      Mycobacterium tuberculosis strains ATCC 25618 / H37Rv and CDC 1551 / Oshkosh: entries and gene names
    2. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    3. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    4. SIMILARITY comments
      Index of protein domains and families