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Q06700

- GCDA_ACIFV

UniProt

Q06700 - GCDA_ACIFV

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Protein
Glutaconyl-CoA decarboxylase subunit alpha
Gene
gcdA, Acfer_1817
Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at protein leveli

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
Complete GO annotation...

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 alpha
PRO_0000087438Add
BLAST

Interactioni

Subunit structurei

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

Structurei

Secondary structure

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.

Miscellaneous databases

EvolutionaryTraceiQ06700.

Family & Domainsi

Domains and Repeats

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

Sequence similaritiesi

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

« Hide 'large scale' publications
  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: September 3, 2014
This is version 78 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

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

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