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Q06700

- GCDA_ACIFV

UniProt

Q06700 - GCDA_ACIFV

Protein

Glutaconyl-CoA decarboxylase subunit alpha

Gene

gcdA

Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 79 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Decarboxylase subunit of the primary sodium pump glutaconyl-CoA decarboxylase (GCD).

    Catalytic activityi

    4-carboxybut-2-enoyl-CoA = but-2-enoyl-CoA + CO2.

    Pathwayi

    GO - Molecular functioni

    1. glutaconyl-CoA decarboxylase activity Source: UniProtKB-EC
    2. ligase activity Source: InterPro

    GO - Biological processi

    1. glutamate catabolic process via 2-hydroxyglutarate Source: UniProtKB-UniPathway
    2. sodium ion transport Source: UniProtKB-KW

    Keywords - Molecular functioni

    Decarboxylase, Lyase

    Keywords - Biological processi

    Ion transport, Sodium transport, Transport

    Keywords - Ligandi

    Biotin, Sodium

    Enzyme and pathway databases

    BioCyciAFER591001:GHUL-1890-MONOMER.
    MetaCyc:MONOMER-1054.
    SABIO-RKQ06700.
    UniPathwayiUPA00533; UER00688.

    Protein family/group databases

    TCDBi3.B.1.1.3. the na(+)-transporting carboxylic acid decarboxylase (nat-dc) family.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Glutaconyl-CoA decarboxylase subunit alpha (EC:4.1.1.70)
    Alternative name(s):
    Carboxyltransferase
    Gene namesi
    Name:gcdA
    Ordered Locus Names:Acfer_1817
    OrganismiAcidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
    Taxonomic identifieri591001 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesNegativicutesSelenomonadalesAcidaminococcaceaeAcidaminococcus
    ProteomesiUP000001902: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 587587Glutaconyl-CoA decarboxylase subunit alphaPRO_0000087438Add
    BLAST

    Interactioni

    Subunit structurei

    Heterooctamer consisting of two alpha, two beta, two gamma and two delta subunits.

    Structurei

    Secondary structure

    1
    587
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi7 – 104
    Helixi25 – 4723
    Helixi52 – 576
    Helixi63 – 708
    Beta strandi77 – 804
    Beta strandi94 – 1029
    Beta strandi105 – 1128
    Turni114 – 1196
    Helixi125 – 13915
    Beta strandi143 – 1475
    Helixi154 – 1563
    Helixi157 – 1604
    Beta strandi161 – 1633
    Helixi169 – 17911
    Beta strandi184 – 1885
    Beta strandi190 – 1934
    Helixi195 – 2017
    Beta strandi202 – 2098
    Beta strandi213 – 2164
    Beta strandi227 – 2304
    Helixi233 – 24412
    Beta strandi252 – 2543
    Helixi255 – 2584
    Turni259 – 2613
    Beta strandi267 – 2715
    Helixi272 – 28413
    Helixi291 – 2944
    Beta strandi295 – 2973
    Helixi306 – 3083
    Helixi309 – 3124
    Helixi323 – 3286
    Helixi332 – 3343
    Beta strandi337 – 3404
    Beta strandi347 – 3548
    Beta strandi357 – 3648
    Beta strandi367 – 3693
    Helixi389 – 40416
    Beta strandi409 – 4135
    Helixi422 – 4265
    Helixi429 – 44113
    Beta strandi447 – 4515
    Beta strandi453 – 4564
    Helixi459 – 4624
    Turni469 – 4713
    Beta strandi472 – 4776
    Beta strandi482 – 4865
    Helixi488 – 50518
    Helixi511 – 52616
    Helixi530 – 5367
    Beta strandi538 – 5425
    Turni545 – 5473
    Helixi548 – 55912
    Helixi569 – 5713
    Helixi574 – 58310

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1PIXX-ray2.20A/B1-587[»]
    ProteinModelPortaliQ06700.
    SMRiQ06700. Positions 2-587.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiQ06700.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini35 – 568534CarboxyltransferaseAdd
    BLAST

    Sequence similaritiesi

    Contains 1 carboxyltransferase domain.Curated

    Phylogenomic databases

    HOGENOMiHOG000064887.
    KOiK01615.
    OMAiGGMNPKG.

    Family and domain databases

    Gene3Di3.90.226.10. 2 hits.
    InterProiIPR000022. Carboxyl_trans.
    IPR029045. ClpP/crotonase-like_dom.
    IPR011763. COA_CT_C.
    IPR011762. COA_CT_N.
    [Graphical view]
    PfamiPF01039. Carboxyl_trans. 1 hit.
    [Graphical view]
    SUPFAMiSSF52096. SSF52096. 2 hits.
    PROSITEiPS50989. COA_CT_CTER. 1 hit.
    PS50980. COA_CT_NTER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q06700-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGFYSMPRYF QNMPQVGKPL KKADAANEEQ LKKIEEEIHQ LIKEAQEAGK    50
    ADADVNKRGE LTALQRIEKL VEPGSWRPLN TLFNPQGNKN GSVAIVKGLG 100
    RVNGKWCVVV ASDNKKLAGA WVPGQAECLL RASDTAKTLH VPLVYVLNCS 150
    GVKFDEQEKV YPNRRGGGTP FFRNAELNQL GIPVIVGIYG TNPAGGGYHS 200
    ISPTVIIAHE KANMAVGGAG IMGGMNPKGH VDLEYANEIA DMVDRTGKTE 250
    PPGAVDIHYT ETGFMREVYA SEEGVLEGIK KYVGMLPKYD PEFFRVDDPK 300
    APAFPADDLY SMVPLNDKRA YDIYNVIARL FDNSELHEYK KGYGPEMVTG 350
    LAKVNGLLVG VVANVQGLLM NYPEYKAAGS VGIGGKLYRQ GLVKMNEFVT 400
    LCARDRLPIV WIQDTTGIDV GNDAEKAELL GLGQSLIYSI QTSHIPQFEI 450
    TLRKGTAAAH YVLGGPQGND TNAFSIGTAA TEIAVMNGET AATAMYSRRL 500
    AKDRKAGKDL QPTIDKMNNL IQAFYTKSRP KVCAELGLVD EIVDMNKIRG 550
    YVEAFTEAAY QNPESICPFH QMILPRAIRE FETFVKK 587
    Length:587
    Mass (Da):64,347
    Last modified:November 1, 1996 - v1
    Checksum:iBF1C0D2F2DCA86DA
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X69435 Genomic DNA. Translation: CAA49210.1.
    CP001859 Genomic DNA. Translation: ADB48171.1.
    X59645 Genomic DNA. Translation: CAA42195.1.
    PIRiS29787.
    RefSeqiWP_012939154.1. NC_013740.1.
    YP_003399486.1. NC_013740.1.

    Genome annotation databases

    EnsemblBacteriaiADB48171; ADB48171; Acfer_1817.
    GeneIDi8738320.
    KEGGiafn:Acfer_1817.
    PATRICi31910225. VBIAciFer109666_1808.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X69435 Genomic DNA. Translation: CAA49210.1 .
    CP001859 Genomic DNA. Translation: ADB48171.1 .
    X59645 Genomic DNA. Translation: CAA42195.1 .
    PIRi S29787.
    RefSeqi WP_012939154.1. NC_013740.1.
    YP_003399486.1. NC_013740.1.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1PIX X-ray 2.20 A/B 1-587 [» ]
    ProteinModelPortali Q06700.
    SMRi Q06700. Positions 2-587.
    ModBasei Search...
    MobiDBi Search...

    Protein family/group databases

    TCDBi 3.B.1.1.3. the na(+)-transporting carboxylic acid decarboxylase (nat-dc) family.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADB48171 ; ADB48171 ; Acfer_1817 .
    GeneIDi 8738320.
    KEGGi afn:Acfer_1817.
    PATRICi 31910225. VBIAciFer109666_1808.

    Phylogenomic databases

    HOGENOMi HOG000064887.
    KOi K01615.
    OMAi GGMNPKG.

    Enzyme and pathway databases

    UniPathwayi UPA00533 ; UER00688 .
    BioCyci AFER591001:GHUL-1890-MONOMER.
    MetaCyc:MONOMER-1054.
    SABIO-RK Q06700.

    Miscellaneous databases

    EvolutionaryTracei Q06700.

    Family and domain databases

    Gene3Di 3.90.226.10. 2 hits.
    InterProi IPR000022. Carboxyl_trans.
    IPR029045. ClpP/crotonase-like_dom.
    IPR011763. COA_CT_C.
    IPR011762. COA_CT_N.
    [Graphical view ]
    Pfami PF01039. Carboxyl_trans. 1 hit.
    [Graphical view ]
    SUPFAMi SSF52096. SSF52096. 2 hits.
    PROSITEi PS50989. COA_CT_CTER. 1 hit.
    PS50980. COA_CT_NTER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Cloning, sequencing and expression of the gene encoding the carboxytransferase subunit of the biotin-dependent Na+ pump glutaconyl-CoA decarboxylase from Acidaminococcus fermentans in Escherichia coli."
      Bendrat K., Buckel W.
      Eur. J. Biochem. 211:697-702(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PARTIAL PROTEIN SEQUENCE.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 25085 / DSM 20731 / VR4.
    3. "Identification of the gene encoding the activator of (R)-2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans by gene expression in Escherichia coli."
      Bendrat K., Mueller U., Klees A.-G., Buckel W.
      FEBS Lett. 329:329-331(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 548-587.
    4. "Activation of (R)-2-hydroxyglutaryl-CoA dehydratase from Acidaminococcus fermentans."
      Mueller U., Buckel W.
      Eur. J. Biochem. 230:698-704(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 548-587.
    5. "Crystal structure of the carboxyltransferase subunit of the bacterial sodium ion pump glutaconyl-coenzyme A decarboxylase."
      Wendt K.S., Schall I., Huber R., Buckel W., Jacob U.
      EMBO J. 22:3493-3502(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.2 ANGSTROMS).

    Entry informationi

    Entry nameiGCDA_ACIFV
    AccessioniPrimary (citable) accession number: Q06700
    Secondary accession number(s): D2RM69
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 79 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, 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. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3