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Protein

Ribose-5-phosphate isomerase A

Gene

rpiA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the interconversion between the ribose 5-P and ribulose 5-P involved in the pentose phosphate cycle and in the process of photosynthesis.1 Publication

Catalytic activityi

D-ribose 5-phosphate = D-ribulose 5-phosphate.UniRule annotation1 Publication

Enzyme regulationi

Inhibited by D-4-phosphoerythronic acid.1 Publication

Kineticsi

  1. KM=1.17 mM for ribose 5-P1 Publication

    pH dependencei

    Optimum pH is 6 (at 50 degrees Celsius).1 Publication

    Temperature dependencei

    Optimum temperature is over 95 degrees Celsius.1 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).UniRule annotation
    Proteins known to be involved in this subpathway in this organism are:
    1. Ribose-5-phosphate isomerase A (rpiA)
    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
    Sitei85Plays a direct or indirect catalytic role1
    Active sitei107Proton acceptor1 Publication1
    Binding sitei125Substrate1

    GO - Molecular functioni

    • ribose-5-phosphate isomerase activity Source: UniProtKB

    GO - Biological processi

    • pentose-phosphate shunt, non-oxidative branch Source: UniProtKB
    Complete GO annotation...

    Keywords - Molecular functioni

    Isomerase

    Enzyme and pathway databases

    BRENDAi5.3.1.6. 5244.
    UniPathwayiUPA00115; UER00412.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribose-5-phosphate isomerase AUniRule annotation (EC:5.3.1.6UniRule annotation)
    Alternative name(s):
    Phosphoriboisomerase AUniRule annotation
    Short name:
    PRIUniRule annotation
    Gene namesi
    Name:rpiAUniRule annotation
    Ordered Locus Names:PH1375
    OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
    Taxonomic identifieri70601 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    Proteomesi
    • UP000000752 Componenti: Chromosome

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi85D → N: Strong decrease in the catalytic efficiency and increase in the binding affinity. 1 Publication1
    Mutagenesisi100R → A: 2-fold decrease in the catalytic efficiency and strong decrease in the binding affinity. 1 Publication1
    Mutagenesisi107E → Q: Loss of activity. 1 Publication1
    Mutagenesisi125K → A: 2-fold decrease in the catalytic efficiency and strong decrease in the binding affinity. 1 Publication1
    Mutagenesisi168D → N: Almost the same catalytic efficiency and binding affinity than wild-type. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    ChainiPRO_00001585171 – 229Ribose-5-phosphate isomerase AAdd BLAST229

    Interactioni

    Subunit structurei

    Homotetramer.1 Publication

    Protein-protein interaction databases

    IntActiO50083. 1 interactor.
    MINTiMINT-1502514.
    STRINGi70601.PH1375.

    Structurei

    Secondary structure

    1229
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Helixi3 – 14Combined sources12
    Helixi15 – 17Combined sources3
    Beta strandi23 – 26Combined sources4
    Helixi30 – 44Combined sources15
    Beta strandi52 – 57Combined sources6
    Helixi58 – 66Combined sources9
    Helixi74 – 76Combined sources3
    Beta strandi80 – 85Combined sources6
    Beta strandi88 – 90Combined sources3
    Helixi104 – 112Combined sources9
    Beta strandi114 – 122Combined sources9
    Helixi123 – 125Combined sources3
    Beta strandi136 – 140Combined sources5
    Helixi142 – 144Combined sources3
    Helixi145 – 151Combined sources7
    Helixi152 – 155Combined sources4
    Beta strandi158 – 161Combined sources4
    Beta strandi165 – 170Combined sources6
    Beta strandi178 – 183Combined sources6
    Helixi190 – 198Combined sources9
    Beta strandi203 – 209Combined sources7
    Beta strandi215 – 220Combined sources6
    Beta strandi223 – 228Combined sources6

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1LK5X-ray1.75A/B/C/D1-229[»]
    1LK7X-ray2.00A/B/C/D1-229[»]
    ProteinModelPortaliO50083.
    SMRiO50083.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO50083.

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni28 – 31Substrate binding4
    Regioni85 – 88Substrate binding4
    Regioni98 – 101Substrate binding4

    Sequence similaritiesi

    Belongs to the ribose 5-phosphate isomerase family.UniRule annotation

    Phylogenomic databases

    eggNOGiarCOG01122. Archaea.
    COG0120. LUCA.
    HOGENOMiHOG000276369.
    KOiK01807.
    OMAiGACHVQE.

    Family and domain databases

    CDDicd01398. RPI_A. 1 hit.
    HAMAPiMF_00170. Rib_5P_isom_A. 1 hit.
    InterProiIPR004788. Ribose5P_isomerase_typA.
    IPR020672. Ribose5P_isomerase_typA_subgr.
    [Graphical view]
    PANTHERiPTHR11934. PTHR11934. 1 hit.
    PfamiPF06026. Rib_5-P_isom_A. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00021. rpiA. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    O50083-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MNVEEMKKIA AKEALKFIED DMVIGLGTGS TTAYFIKLLG EKLKRGEISD
    60 70 80 90 100
    IVGVPTSYQA KLLAIEHDIP IASLDQVDAI DVAVDGADEV DPNLNLIKGR
    110 120 130 140 150
    GAALTMEKII EYRAGTFIVL VDERKLVDYL CQKMPVPIEV IPQAWKAIIE
    160 170 180 190 200
    ELSIFNAKAE LRMGVNKDGP VITDNGNFII DAKFPRIDDP LDMEIELNTI
    210 220
    PGVIENGIFA DIADIVIVGT REGVKKLER
    Length:229
    Mass (Da):25,162
    Last modified:June 1, 1998 - v1
    Checksum:i0E35BCB9F608D93C
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    BA000001 Genomic DNA. Translation: BAA30481.1.
    PIRiA71010.
    RefSeqiWP_010885464.1. NC_000961.1.

    Genome annotation databases

    EnsemblBacteriaiBAA30481; BAA30481; BAA30481.
    GeneIDi1443702.
    KEGGipho:PH1375.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    BA000001 Genomic DNA. Translation: BAA30481.1.
    PIRiA71010.
    RefSeqiWP_010885464.1. NC_000961.1.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    1LK5X-ray1.75A/B/C/D1-229[»]
    1LK7X-ray2.00A/B/C/D1-229[»]
    ProteinModelPortaliO50083.
    SMRiO50083.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    IntActiO50083. 1 interactor.
    MINTiMINT-1502514.
    STRINGi70601.PH1375.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblBacteriaiBAA30481; BAA30481; BAA30481.
    GeneIDi1443702.
    KEGGipho:PH1375.

    Phylogenomic databases

    eggNOGiarCOG01122. Archaea.
    COG0120. LUCA.
    HOGENOMiHOG000276369.
    KOiK01807.
    OMAiGACHVQE.

    Enzyme and pathway databases

    UniPathwayiUPA00115; UER00412.
    BRENDAi5.3.1.6. 5244.

    Miscellaneous databases

    EvolutionaryTraceiO50083.

    Family and domain databases

    CDDicd01398. RPI_A. 1 hit.
    HAMAPiMF_00170. Rib_5P_isom_A. 1 hit.
    InterProiIPR004788. Ribose5P_isomerase_typA.
    IPR020672. Ribose5P_isomerase_typA_subgr.
    [Graphical view]
    PANTHERiPTHR11934. PTHR11934. 1 hit.
    PfamiPF06026. Rib_5-P_isom_A. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00021. rpiA. 1 hit.
    ProtoNetiSearch...

    Entry informationi

    Entry nameiRPIA_PYRHO
    AccessioniPrimary (citable) accession number: O50083
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: June 1, 1998
    Last modified: November 2, 2016
    This is version 110 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, Complete proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    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.