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Protein

Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic

Gene

GAPC1

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Key enzyme in glycolysis that catalyzes the first step of the pathway by converting D-glyceraldehyde 3-phosphate (G3P) into 3-phospho-D-glyceroyl phosphate. Essential for the maintenance of cellular ATP levels and carbohydrate metabolism (By similarity).By similarity

Catalytic activityi

D-glyceraldehyde 3-phosphate + phosphate + NAD+ = 3-phospho-D-glyceroyl phosphate + NADH.PROSITE-ProRule annotation

Kineticsi

  1. KM=0.061 mM for NADH1 Publication
  2. KM=0.059 mM for NAD+1 Publication
  3. KM=0.036 mM for 3-phospho-D-glyceroyl phosphate1 Publication
  4. KM=0.111 mM for D-glyceraldehyde 3-phosphate1 Publication

    Pathwayi: glycolysis

    This protein is involved in step 1 of the subpathway that synthesizes pyruvate from D-glyceraldehyde 3-phosphate.
    Proteins known to be involved in the 5 steps of the subpathway in this organism are:
    1. Glyceraldehyde-3-phosphate dehydrogenase 2, cytosolic (GAPC2), Glyceraldehyde-3-phosphate dehydrogenase 3, cytosolic (GAPC3), Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic (GAPC1)
    2. no protein annotated in this organism
    3. no protein annotated in this organism
    4. Enolase (ENO1)
    5. Pyruvate kinase (OsJ_23327), Pyruvate kinase (Os04g0677500), Pyruvate kinase (LOC_Os10g42100), Pyruvate kinase (Os07g0181000), Pyruvate kinase (Os10g0571200), Pyruvate kinase (OsJ_12060), Pyruvate kinase 2, cytosolic (Os12g0145700), Pyruvate kinase (LOC_Os12g05110), Pyruvate kinase (Os01g0276700), Pyruvate kinase (Os01g0276700), Pyruvate kinase (Os03g0325000), Pyruvate kinase (Os01g0660300), Pyruvate kinase (OJ1014_E09.29-2), Pyruvate kinase, Pyruvate kinase (Os11g0216000), Pyruvate kinase (LOC_Os03g46910), Pyruvate kinase 1, cytosolic (Os11g0148500), Pyruvate kinase (OsJ_10677), Pyruvate kinase (P0445H04.13), Pyruvate kinase (OsJ_32540), Pyruvate kinase (Os01g0276700), Pyruvate kinase (Os07g0181000), Pyruvate kinase, Pyruvate kinase (OJ1014_E09.29-1), Pyruvate kinase (Os11g0216000), Pyruvate kinase (OsJ_02894), Pyruvate kinase (Os07g0181000), Pyruvate kinase (LOC_Os03g20880)
    This subpathway is part of the pathway glycolysis, which is itself part of Carbohydrate degradation.
    View all proteins of this organism that are known to be involved in the subpathway that synthesizes pyruvate from D-glyceraldehyde 3-phosphate, the pathway glycolysis and in Carbohydrate degradation.

    Sites

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Binding sitei35NAD1 Publication1
    Binding sitei82NAD; via carbonyl oxygen1 Publication1
    Active sitei154NucleophilePROSITE-ProRule annotation1
    Sitei181Activates thiol group during catalysisBy similarity1
    Binding sitei184Glyceraldehyde 3-phosphateBy similarity1
    Binding sitei236Glyceraldehyde 3-phosphateBy similarity1
    Binding sitei318NADBy similarity1

    Regions

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Nucleotide bindingi13 – 14NAD1 Publication2

    GO - Molecular functioni

    GO - Biological processi

    Complete GO annotation...

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Biological processi

    Glycolysis

    Keywords - Ligandi

    NAD

    Enzyme and pathway databases

    BRENDAi1.2.1.12. 4460.
    ReactomeiR-OSA-70171. Glycolysis.
    R-OSA-70263. Gluconeogenesis.
    UniPathwayiUPA00109; UER00184.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolic (EC:1.2.1.12)
    Alternative name(s):
    PP38
    Gene namesi
    Name:GAPC1
    Synonyms:GAPC, GAPDH, GPC
    Ordered Locus Names:Os08g0126300, LOC_Os08g03290
    ORF Names:OJ1163_G08.15, OsJ_024858
    OrganismiOryza sativa subsp. japonica (Rice)
    Taxonomic identifieri39947 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
    Proteomesi
    • UP000059680 Componenti: Chromosome 8

    Subcellular locationi

    GO - Cellular componenti

    Complete GO annotation...

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Mutagenesisi37F → G or T: 7-fold decrease in affinity toward NAD. More than 500-fold decrease in catalytic efficiency. 1 Publication1
    Mutagenesisi37F → L: 9-fold decrease in affinity toward NAD. More than 1000-fold decrease in catalytic efficiency. 1 Publication1

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Initiator methionineiRemoved1 Publication
    ChainiPRO_00001456092 – 337Glyceraldehyde-3-phosphate dehydrogenase 1, cytosolicAdd BLAST336

    Post-translational modificationi

    Phosphorylated after gibberellin treatment.1 Publication

    Proteomic databases

    PaxDbiQ0J8A4.
    PRIDEiQ0J8A4.

    Expressioni

    Inductioni

    By gibberellin.1 Publication

    Gene expression databases

    ExpressionAtlasiQ0J8A4. baseline and differential.
    GenevisibleiQ0J8A4. OS.

    Interactioni

    Subunit structurei

    Homotetramer.1 Publication

    Protein-protein interaction databases

    STRINGi39947.LOC_Os08g03290.1.

    Structurei

    Secondary structure

    1337
    Legend: HelixTurnBeta strandPDB Structure known for this area
    Show more details
    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Beta strandi4 – 9Combined sources6
    Helixi13 – 23Combined sources11
    Beta strandi26 – 34Combined sources9
    Beta strandi36 – 38Combined sources3
    Helixi40 – 48Combined sources9
    Turni51 – 53Combined sources3
    Beta strandi61 – 65Combined sources5
    Beta strandi68 – 71Combined sources4
    Beta strandi74 – 79Combined sources6
    Helixi84 – 86Combined sources3
    Helixi89 – 92Combined sources4
    Beta strandi96 – 99Combined sources4
    Beta strandi101 – 103Combined sources3
    Helixi107 – 110Combined sources4
    Helixi112 – 115Combined sources4
    Beta strandi120 – 125Combined sources6
    Beta strandi128 – 130Combined sources3
    Turni135 – 137Combined sources3
    Helixi139 – 141Combined sources3
    Beta strandi148 – 150Combined sources3
    Helixi154 – 170Combined sources17
    Beta strandi172 – 181Combined sources10
    Beta strandi187 – 191Combined sources5
    Helixi198 – 201Combined sources4
    Helixi204 – 206Combined sources3
    Beta strandi209 – 212Combined sources4
    Helixi215 – 222Combined sources8
    Helixi224 – 226Combined sources3
    Beta strandi229 – 236Combined sources8
    Beta strandi243 – 253Combined sources11
    Helixi257 – 269Combined sources13
    Turni270 – 272Combined sources3
    Beta strandi276 – 279Combined sources4
    Helixi285 – 288Combined sources4
    Beta strandi294 – 298Combined sources5
    Turni299 – 301Combined sources3
    Beta strandi303 – 306Combined sources4
    Beta strandi309 – 316Combined sources8
    Helixi320 – 335Combined sources16

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3E5RX-ray2.30A/B/C/O1-337[»]
    3E6AX-ray3.77A/B/C/O2-337[»]
    3V1YX-ray1.86A/B/C/O1-337[»]
    ProteinModelPortaliQ0J8A4.
    SMRiQ0J8A4.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ0J8A4.

    Family & Domainsi

    Region

    Feature keyPosition(s)DescriptionActionsGraphical viewLength
    Regioni153 – 155Glyceraldehyde 3-phosphate bindingBy similarity3
    Regioni213 – 214Glyceraldehyde 3-phosphate bindingBy similarity2

    Sequence similaritiesi

    Phylogenomic databases

    eggNOGiKOG0657. Eukaryota.
    COG0057. LUCA.
    HOGENOMiHOG000071678.
    InParanoidiQ0J8A4.
    KOiK00134.
    OMAiTRDTSIK.
    OrthoDBiEOG09360F5Y.

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    InterProiIPR020831. GlycerAld/Erythrose_P_DH.
    IPR020830. GlycerAld_3-P_DH_AS.
    IPR020829. GlycerAld_3-P_DH_cat.
    IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
    IPR006424. Glyceraldehyde-3-P_DH_1.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PANTHERiPTHR10836. PTHR10836. 1 hit.
    PfamiPF02800. Gp_dh_C. 1 hit.
    PF00044. Gp_dh_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000149. GAP_DH. 1 hit.
    PRINTSiPR00078. G3PDHDRGNASE.
    SMARTiSM00846. Gp_dh_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF51735. SSF51735. 1 hit.
    TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
    PROSITEiPS00071. GAPDH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q0J8A4-1 [UniParc]FASTAAdd to basket

    « Hide

            10         20         30         40         50
    MGKIKIGING FGRIGRLVAR VALQSEDVEL VAVNDPFITT DYMTYMFKYD
    60 70 80 90 100
    TVHGQWKHSD IKIKDSKTLL LGEKPVTVFG IRNPDEIPWA EAGAEYVVES
    110 120 130 140 150
    TGVFTDKEKA AAHLKGGAKK VVISAPSKDA PMFVCGVNED KYTSDIDIVS
    160 170 180 190 200
    NASCTTNCLA PLAKVIHDNF GIIEGLMTTV HAITATQKTV DGPSSKDWRG
    210 220 230 240 250
    GRAASFNIIP SSTGAAKAVG KVLPDLNGKL TGMSFRVPTV DVSVVDLTVR
    260 270 280 290 300
    IEKAASYDAI KSAIKSASEG KLKGIIGYVE EDLVSTDFVG DSRSSIFDAK
    310 320 330
    AGIALNDNFV KLVAWYDNEW GYSNRVIDLI RHMAKTQ
    Length:337
    Mass (Da):36,413
    Last modified:October 3, 2006 - v1
    Checksum:i3A8154CF7A06A603
    GO

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    EF122472 mRNA. Translation: ABL74559.1.
    GQ848031 mRNA. Translation: ADM86844.1.
    AP003886 Genomic DNA. Translation: BAD08850.1.
    AP008214 Genomic DNA. Translation: BAF22811.1.
    AP014964 Genomic DNA. Translation: BAT03659.1.
    CM000145 Genomic DNA. Translation: EAZ41375.1.
    AK071097 mRNA. Translation: BAG92310.1.
    AK103777 mRNA. Translation: BAG96258.1.
    RefSeqiXP_015650130.1. XM_015794644.1.
    UniGeneiOs.12168.

    Genome annotation databases

    EnsemblPlantsiOS08T0126300-01; OS08T0126300-01; OS08G0126300.
    OS08T0126300-02; OS08T0126300-02; OS08G0126300.
    GeneIDi4344564.
    GrameneiOS08T0126300-01; OS08T0126300-01; OS08G0126300.
    OS08T0126300-02; OS08T0126300-02; OS08G0126300.
    KEGGiosa:4344564.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBLi
    GenBanki
    DDBJi
    Links Updated
    EF122472 mRNA. Translation: ABL74559.1.
    GQ848031 mRNA. Translation: ADM86844.1.
    AP003886 Genomic DNA. Translation: BAD08850.1.
    AP008214 Genomic DNA. Translation: BAF22811.1.
    AP014964 Genomic DNA. Translation: BAT03659.1.
    CM000145 Genomic DNA. Translation: EAZ41375.1.
    AK071097 mRNA. Translation: BAG92310.1.
    AK103777 mRNA. Translation: BAG96258.1.
    RefSeqiXP_015650130.1. XM_015794644.1.
    UniGeneiOs.12168.

    3D structure databases

    Select the link destinations:
    PDBei
    RCSB PDBi
    PDBji
    Links Updated
    PDB entryMethodResolution (Å)ChainPositionsPDBsum
    3E5RX-ray2.30A/B/C/O1-337[»]
    3E6AX-ray3.77A/B/C/O2-337[»]
    3V1YX-ray1.86A/B/C/O1-337[»]
    ProteinModelPortaliQ0J8A4.
    SMRiQ0J8A4.
    ModBaseiSearch...
    MobiDBiSearch...

    Protein-protein interaction databases

    STRINGi39947.LOC_Os08g03290.1.

    Proteomic databases

    PaxDbiQ0J8A4.
    PRIDEiQ0J8A4.

    Protocols and materials databases

    Structural Biology KnowledgebaseSearch...

    Genome annotation databases

    EnsemblPlantsiOS08T0126300-01; OS08T0126300-01; OS08G0126300.
    OS08T0126300-02; OS08T0126300-02; OS08G0126300.
    GeneIDi4344564.
    GrameneiOS08T0126300-01; OS08T0126300-01; OS08G0126300.
    OS08T0126300-02; OS08T0126300-02; OS08G0126300.
    KEGGiosa:4344564.

    Phylogenomic databases

    eggNOGiKOG0657. Eukaryota.
    COG0057. LUCA.
    HOGENOMiHOG000071678.
    InParanoidiQ0J8A4.
    KOiK00134.
    OMAiTRDTSIK.
    OrthoDBiEOG09360F5Y.

    Enzyme and pathway databases

    UniPathwayiUPA00109; UER00184.
    BRENDAi1.2.1.12. 4460.
    ReactomeiR-OSA-70171. Glycolysis.
    R-OSA-70263. Gluconeogenesis.

    Miscellaneous databases

    EvolutionaryTraceiQ0J8A4.

    Gene expression databases

    ExpressionAtlasiQ0J8A4. baseline and differential.
    GenevisibleiQ0J8A4. OS.

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    InterProiIPR020831. GlycerAld/Erythrose_P_DH.
    IPR020830. GlycerAld_3-P_DH_AS.
    IPR020829. GlycerAld_3-P_DH_cat.
    IPR020828. GlycerAld_3-P_DH_NAD(P)-bd.
    IPR006424. Glyceraldehyde-3-P_DH_1.
    IPR016040. NAD(P)-bd_dom.
    [Graphical view]
    PANTHERiPTHR10836. PTHR10836. 1 hit.
    PfamiPF02800. Gp_dh_C. 1 hit.
    PF00044. Gp_dh_N. 1 hit.
    [Graphical view]
    PIRSFiPIRSF000149. GAP_DH. 1 hit.
    PRINTSiPR00078. G3PDHDRGNASE.
    SMARTiSM00846. Gp_dh_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF51735. SSF51735. 1 hit.
    TIGRFAMsiTIGR01534. GAPDH-I. 1 hit.
    PROSITEiPS00071. GAPDH. 1 hit.
    [Graphical view]
    ProtoNetiSearch...

    Entry informationi

    Entry nameiG3PC1_ORYSJ
    AccessioniPrimary (citable) accession number: Q0J8A4
    Secondary accession number(s): B7EIW3, Q42977, Q6ZK60
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 10, 2007
    Last sequence update: October 3, 2006
    Last modified: November 2, 2016
    This is version 81 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Plants contain two types of GAPDH: cytosolic forms which participate in glycolysis and chloroplast forms which participate in photosynthesis. All the forms are encoded by distinct genes.

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. PATHWAY comments
      Index of metabolic and biosynthesis pathways
    2. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    3. Oryza sativa (rice)
      Index of Oryza sativa entries and their corresponding gene designations
    4. 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.