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O80988

- GCSP2_ARATH

UniProt

O80988 - GCSP2_ARATH

Protein

Glycine dehydrogenase (decarboxylating) 2, mitochondrial

Gene

GLDP2

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 117 (01 Oct 2014)
      Sequence version 1 (01 Nov 1998)
      Previous versions | rss
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    Functioni

    The glycine decarboxylase (GDC) or glycine cleavage system catalyzes the degradation of glycine. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor; CO2 is released and the remaining methylamine moiety is then transferred to the lipoamide cofactor of the H protein By similarity.By similarity

    Catalytic activityi

    Glycine + [glycine-cleavage complex H protein]-N(6)-lipoyl-L-lysine = [glycine-cleavage complex H protein]-S-aminomethyl-N(6)-dihydrolipoyl-L-lysine + CO2.

    Cofactori

    Pyridoxal phosphate.By similarity

    GO - Molecular functioni

    1. ATP binding Source: TAIR
    2. glycine dehydrogenase (decarboxylating) activity Source: UniProtKB-EC
    3. pyridoxal phosphate binding Source: InterPro

    GO - Biological processi

    1. glycine catabolic process Source: InterPro

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    Pyridoxal phosphate

    Enzyme and pathway databases

    BioCyciARA:AT2G26080-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glycine dehydrogenase (decarboxylating) 2, mitochondrial (EC:1.4.4.2)
    Alternative name(s):
    Glycine cleavage system P protein 2
    Glycine decarboxylase 2
    Glycine decarboxylase P-protein 2
    Short name:
    AtGLDP2
    Glycine dehydrogenase (aminomethyl-transferring) 2
    Gene namesi
    Name:GLDP2
    Synonyms:GDCSP, GDP2
    Ordered Locus Names:At2g26080
    ORF Names:T19L18.11
    OrganismiArabidopsis thaliana (Mouse-ear cress)
    Taxonomic identifieri3702 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
    ProteomesiUP000006548: Chromosome 2

    Organism-specific databases

    TAIRiAT2G26080.

    Subcellular locationi

    Mitochondrion 1 Publication

    GO - Cellular componenti

    1. apoplast Source: TAIR
    2. chloroplast Source: TAIR
    3. chloroplast envelope Source: TAIR
    4. mitochondrion Source: TAIR

    Keywords - Cellular componenti

    Mitochondrion

    Pathology & Biotechi

    Disruption phenotypei

    No visible phenotype; due to the redundancy with GLDP1. Gldp1 and gldp2 double mutants have a seedling development arrested at the cotyledon stage even under nonphotorespiratory conditions.1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 7272MitochondrionSequence AnalysisAdd
    BLAST
    Chaini73 – 1044972Glycine dehydrogenase (decarboxylating) 2, mitochondrialPRO_0000010743Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei780 – 7801N6-(pyridoxal phosphate)lysineBy similarity

    Proteomic databases

    PaxDbiO80988.
    PRIDEiO80988.

    Expressioni

    Tissue specificityi

    Expressed in leaves. Detected in roots, stems, flowers and siliques.1 Publication

    Gene expression databases

    ArrayExpressiO80988.
    GenevestigatoriO80988.

    Interactioni

    Subunit structurei

    Homodimer By similarity. The glycine cleavage system is composed of four proteins: P, T, L and H.By similarity

    Protein-protein interaction databases

    BioGridi2501. 2 interactions.
    STRINGi3702.AT2G26080.1-P.

    Structurei

    3D structure databases

    ProteinModelPortaliO80988.
    SMRiO80988. Positions 76-1031.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the GcvP family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG1003.
    HOGENOMiHOG000239369.
    InParanoidiO80988.
    KOiK00281.
    OMAiQPANEEQ.
    PhylomeDBiO80988.

    Family and domain databases

    Gene3Di3.40.640.10. 2 hits.
    HAMAPiMF_00711. GcvP.
    InterProiIPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR003437. GDC_P_homo.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view]
    PANTHERiPTHR11773. PTHR11773. 1 hit.
    PfamiPF02347. GDC-P. 2 hits.
    [Graphical view]
    SUPFAMiSSF53383. SSF53383. 3 hits.
    TIGRFAMsiTIGR00461. gcvP. 1 hit.

    Sequencei

    Sequence statusi: Complete.

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

    O80988-1 [UniParc]FASTAAdd to Basket

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    MERARRLAYR GIVKRLVNET KRHRNGESSL LPTTTVTPSR YVSSVSSFLH     50
    RRRDVSGSAF TTSGRNQHQT RSISVDALKP SDTFPRRHNS ATPDEQAQMA 100
    NYCGFDNLNT LIDSTVPKSI RLDSMKFSGI FDEGLTESQM IEHMSDLASK 150
    NKVFKSFIGM GYYNTHVPPV ILRNIMENPA WYTQYTPYQA EISQGRLESL 200
    LNYQTVITDL TGLPMSNASL LDEGTAAAEA MAMCNNILKG KKKTFVIASN 250
    CHPQTIDVCK TRADGFDLKV VTVDIKDVDY SSGDVCGVLV QYPGTEGEVL 300
    DYGEFVKNAH ANGVKVVMAT DLLALTMLKP PGEFGADIVV GSGQRFGVPM 350
    GYGGPHAAFL ATSQEYKRMM PGRIIGVSVD SSGKQALRMA MQTREQHIRR 400
    DKATSNICTA QALLANMTAM YAVYHGPEGL KSIAQRVHGL AGVFALGLKK 450
    LGTAQVQDLP FFDTVKVTCS DATAIFDVAA KKEINLRLVD SNTITVAFDE 500
    TTTLDDVDKL FEVFASGKPV QFTAESLAPE FNNAIPSSLT RESPYLTHPI 550
    FNMYHTEHEL LRYIHKLQNK DLSLCHSMIP LGSCTMKLNA TTEMMPVTWP 600
    SFTNMHPFAP VEQAQGYQEM FTNLGELLCT ITGFDSFSLQ PNAGAAGEYA 650
    GLMVIRAYHM SRGDHHRNVC IIPVSAHGTN PASAAMCGMK IVAVGTDAKG 700
    NINIEELRNA AEANKDNLAA LMVTYPSTHG VYEEGIDEIC NIIHENGGQV 750
    YMDGANMNAQ VGLTSPGFIG ADVCHLNLHK TFCIPHGGGG PGMGPIGVKQ 800
    HLAPFLPSHP VIPTGGIPEP EQTSPLGTIS AAPWGSALIL PISYTYIAMM 850
    GSGGLTDASK IAILNANYMA KRLESHYPVL FRGVNGTVAH EFIIDLRGFK 900
    NTAGIEPEDV AKRLMDYGFH GPTMSWPVPG TLMIEPTESE SKAELDRFCD 950
    ALISIREEIS QIEKGNADPN NNVLKGAPHP PSLLMADTWK KPYSREYAAF 1000
    PAPWLRSSKF WPTTGRVDNV YGDRNLVCTL QPANEEQAAA AVSA 1044
    Length:1,044
    Mass (Da):113,776
    Last modified:November 1, 1998 - v1
    Checksum:i227C30B67D82A97D
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti534 – 5341A → T in BAE98954. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC004747 Genomic DNA. Translation: AAC31228.1.
    CP002685 Genomic DNA. Translation: AEC07793.1.
    AK226865 mRNA. Translation: BAE98954.1.
    PIRiT02615.
    RefSeqiNP_180178.1. NM_128167.3.
    UniGeneiAt.24550.
    At.72082.

    Genome annotation databases

    EnsemblPlantsiAT2G26080.1; AT2G26080.1; AT2G26080.
    GeneIDi817149.
    KEGGiath:AT2G26080.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AC004747 Genomic DNA. Translation: AAC31228.1 .
    CP002685 Genomic DNA. Translation: AEC07793.1 .
    AK226865 mRNA. Translation: BAE98954.1 .
    PIRi T02615.
    RefSeqi NP_180178.1. NM_128167.3.
    UniGenei At.24550.
    At.72082.

    3D structure databases

    ProteinModelPortali O80988.
    SMRi O80988. Positions 76-1031.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 2501. 2 interactions.
    STRINGi 3702.AT2G26080.1-P.

    Proteomic databases

    PaxDbi O80988.
    PRIDEi O80988.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblPlantsi AT2G26080.1 ; AT2G26080.1 ; AT2G26080 .
    GeneIDi 817149.
    KEGGi ath:AT2G26080.

    Organism-specific databases

    GeneFarmi 1741. 130.
    TAIRi AT2G26080.

    Phylogenomic databases

    eggNOGi COG1003.
    HOGENOMi HOG000239369.
    InParanoidi O80988.
    KOi K00281.
    OMAi QPANEEQ.
    PhylomeDBi O80988.

    Enzyme and pathway databases

    BioCyci ARA:AT2G26080-MONOMER.

    Gene expression databases

    ArrayExpressi O80988.
    Genevestigatori O80988.

    Family and domain databases

    Gene3Di 3.40.640.10. 2 hits.
    HAMAPi MF_00711. GcvP.
    InterProi IPR020580. GDC-P_N.
    IPR020581. GDC_P.
    IPR003437. GDC_P_homo.
    IPR015424. PyrdxlP-dep_Trfase.
    IPR015421. PyrdxlP-dep_Trfase_major_sub1.
    [Graphical view ]
    PANTHERi PTHR11773. PTHR11773. 1 hit.
    Pfami PF02347. GDC-P. 2 hits.
    [Graphical view ]
    SUPFAMi SSF53383. SSF53383. 3 hits.
    TIGRFAMsi TIGR00461. gcvP. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: cv. Columbia.
    2. The Arabidopsis Information Resource (TAIR)
      Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
      Cited for: GENOME REANNOTATION.
      Strain: cv. Columbia.
    3. "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs."
      Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A., Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y., Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.
      , Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y., Shinozaki K.
      Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: cv. Columbia.
    4. "The glycine decarboxylase system: a fascinating complex."
      Douce R., Bourguignon J., Neuburger M., Rebeille F.
      Trends Plant Sci. 6:167-176(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: REVIEW.
    5. "Genetic manipulation of glycine decarboxylation."
      Bauwe H., Kolukisaoglu U.
      J. Exp. Bot. 54:1523-1535(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: REVIEW, NOMENCLATURE.
    6. "Experimental analysis of the Arabidopsis mitochondrial proteome highlights signaling and regulatory components, provides assessment of targeting prediction programs, and indicates plant-specific mitochondrial proteins."
      Heazlewood J.L., Tonti-Filippini J.S., Gout A.M., Day D.A., Whelan J., Millar A.H.
      Plant Cell 16:241-256(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Strain: cv. Landsberg erecta.
    7. "Deletion of glycine decarboxylase in Arabidopsis is lethal under nonphotorespiratory conditions."
      Engel N., van den Daele K., Kolukisaoglu U., Morgenthal K., Weckwerth W., Paernik T., Keerberg O., Bauwe H.
      Plant Physiol. 144:1328-1335(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, DISRUPTION PHENOTYPE, TISSUE SPECIFICITY.
      Strain: cv. Columbia and cv. Wassilewskija.

    Entry informationi

    Entry nameiGCSP2_ARATH
    AccessioniPrimary (citable) accession number: O80988
    Secondary accession number(s): Q0WV94
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 1, 2000
    Last sequence update: November 1, 1998
    Last modified: October 1, 2014
    This is version 117 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programPlant Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Arabidopsis thaliana
      Arabidopsis thaliana: entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3