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Protein

Glutaconyl-CoA decarboxylase subunit beta

Gene

gcdB

Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

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

Catalytic activityi

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

Pathwayi: L-glutamate degradation via hydroxyglutarate pathway

This protein is involved in step 5 of the subpathway that synthesizes crotonoyl-CoA from L-glutamate.
Proteins known to be involved in the 5 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. no protein annotated in this organism
  3. Glutaconate CoA-transferase subunit B (gctB), Glutaconate CoA-transferase subunit A (gctA)
  4. (R)-2-hydroxyglutaryl-CoA dehydratase, subunit beta (hgdB), (R)-2-hydroxyglutaryl-CoA dehydratase activating ATPase (hgdC), (R)-2-hydroxyglutaryl-CoA dehydratase, subunit alpha (hgdA)
  5. Glutaconyl-CoA decarboxylase subunit delta (gcdD), Glutaconyl-CoA decarboxylase subunit gamma (gcdC), Glutaconyl-CoA decarboxylase subunit alpha (gcdA), Glutaconyl-CoA decarboxylase subunit beta (gcdB)
This subpathway is part of the pathway L-glutamate degradation via hydroxyglutarate pathway, which is itself part of Amino-acid degradation.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes crotonoyl-CoA from L-glutamate, the pathway L-glutamate degradation via hydroxyglutarate pathway and in Amino-acid degradation.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDecarboxylase, Lyase
Biological processIon transport, Sodium transport, Transport
LigandSodium

Enzyme and pathway databases

BioCyciAFER591001:G1GH7-1897-MONOMER
MetaCyc:MONOMER-1055
SABIO-RKiQ9ZAA6
UniPathwayi
UPA00533;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 beta (EC:4.1.1.70)
Alternative name(s):
Carboxylyase
Gene namesi
Name:gcdB
Ordered Locus Names:Acfer_1834
OrganismiAcidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Taxonomic identifieri591001 [NCBI]
Taxonomic lineageiBacteriaFirmicutesNegativicutesAcidaminococcalesAcidaminococcaceaeAcidaminococcus
Proteomesi
  • UP000001902 Componenti: Chromosome

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transmembranei16 – 39HelicalSequence analysisAdd BLAST24
Transmembranei46 – 65HelicalSequence analysisAdd BLAST20
Transmembranei74 – 96HelicalSequence analysisAdd BLAST23
Transmembranei107 – 130HelicalSequence analysisAdd BLAST24
Transmembranei137 – 153HelicalSequence analysisAdd BLAST17
Transmembranei160 – 178HelicalSequence analysisAdd BLAST19
Transmembranei208 – 232HelicalSequence analysisAdd BLAST25
Transmembranei254 – 271HelicalSequence analysisAdd BLAST18
Transmembranei284 – 302HelicalSequence analysisAdd BLAST19
Transmembranei316 – 332HelicalSequence analysisAdd BLAST17
Transmembranei345 – 369HelicalSequence analysisAdd BLAST25

GO - Cellular componenti

Keywords - Cellular componenti

Cell membrane, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002185611 – 375Glutaconyl-CoA decarboxylase subunit betaAdd BLAST375

Post-translational modificationi

The N-terminus is blocked.

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi591001.Acfer_1834

Family & Domainsi

Sequence similaritiesi

Belongs to the GcdB/MmdB/OadB family.Curated

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG4105D9Q Bacteria
COG1883 LUCA
HOGENOMiHOG000295684
KOiK01615
OMAiPMIADPK
OrthoDBiPOG091H1BTD

Family and domain databases

InterProiView protein in InterPro
IPR005661 OadB_MmdB
PANTHERiPTHR35806 PTHR35806, 1 hit
PfamiView protein in Pfam
PF03977 OAD_beta, 1 hit
PIRSFiPIRSF015658 MmdB_OadB, 1 hit
TIGRFAMsiTIGR01109 Na_pump_decarbB, 1 hit

Sequencei

Sequence statusi: Complete.

Q9ZAA6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDAFVVALTS VIQDSGFVAF TWGNAVMMLV GCILLYLAIV KGFEPLLLSP
60 70 80 90 100
IAFGCILANV PRTGFETDPG VMQLILGGIK YEIFPPLIFM GVGAMTDFGP
110 120 130 140 150
LIANPKTLLL GAAAQIGVFV ALLGAMLLGF NVKEASAIGI IGGADGPTSI
160 170 180 190 200
YLASKMAPHL LGAIAVAAYS YMSLVPLIQP PVMKLFTSKE ERKIKMAQLR
210 220 230 240 250
TVTHFEKVVF PIVTTIFISL LLPSVCSLIG MLMLGNLFTE SGCMDRLSDT
260 270 280 290 300
AQNALMNSVT IMLATGTGLT MKAESFLTLQ TIEIICLGLV AFIGGTAGGV
310 320 330 340 350
LFGKLMSKLD GGKTNPLIGS AGVSAVPMAA RVSQVVGQQA DPGNFLLMHA
360 370
MGPNVAGVIG TAVAAGTMLA MVGGK
Length:375
Mass (Da):38,897
Last modified:May 1, 1999 - v1
Checksum:i393D621373A75018
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF030576 Genomic DNA Translation: AAC69173.1
CP001859 Genomic DNA Translation: ADB48188.1
RefSeqiWP_012939171.1, NC_013740.1

Genome annotation databases

EnsemblBacteriaiADB48188; ADB48188; Acfer_1834
KEGGiafn:Acfer_1834

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF030576 Genomic DNA Translation: AAC69173.1
CP001859 Genomic DNA Translation: ADB48188.1
RefSeqiWP_012939171.1, NC_013740.1

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi591001.Acfer_1834

Protein family/group databases

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

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiADB48188; ADB48188; Acfer_1834
KEGGiafn:Acfer_1834

Phylogenomic databases

eggNOGiENOG4105D9Q Bacteria
COG1883 LUCA
HOGENOMiHOG000295684
KOiK01615
OMAiPMIADPK
OrthoDBiPOG091H1BTD

Enzyme and pathway databases

UniPathwayi
UPA00533;UER00688

BioCyciAFER591001:G1GH7-1897-MONOMER
MetaCyc:MONOMER-1055
SABIO-RKiQ9ZAA6

Family and domain databases

InterProiView protein in InterPro
IPR005661 OadB_MmdB
PANTHERiPTHR35806 PTHR35806, 1 hit
PfamiView protein in Pfam
PF03977 OAD_beta, 1 hit
PIRSFiPIRSF015658 MmdB_OadB, 1 hit
TIGRFAMsiTIGR01109 Na_pump_decarbB, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiGCDB_ACIFV
AccessioniPrimary (citable) accession number: Q9ZAA6
Secondary accession number(s): D2RM86
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 16, 2004
Last sequence update: May 1, 1999
Last modified: February 28, 2018
This is version 90 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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