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Protein

Glutaconyl-CoA decarboxylase subunit alpha

Gene

gcdA

Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Reviewed-Annotation score: 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: 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 A (gctA), Glutaconate CoA-transferase subunit B (gctB)
  4. (R)-2-hydroxyglutaryl-CoA dehydratase subunit beta (hgdB), (R)-2-hydroxyglutaryl-CoA dehydratase subunit alpha (hgdA)
  5. Glutaconyl-CoA decarboxylase subunit gamma (gcdC), Glutaconyl-CoA decarboxylase subunit beta (gcdB), Glutaconyl-CoA decarboxylase subunit delta (gcdD), Glutaconyl-CoA decarboxylase subunit alpha (gcdA)
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

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Biological processi

Ion transport, Sodium transport, Transport

Keywords - Ligandi

Biotin, Sodium

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-1054.
BRENDAi4.1.1.70. 85.
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 lineageiBacteriaFirmicutesNegativicutesAcidaminococcalesAcidaminococcaceaeAcidaminococcus
Proteomesi
  • UP000001902 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000874381 – 587Glutaconyl-CoA decarboxylase subunit alphaAdd BLAST587

Interactioni

Subunit structurei

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

Protein-protein interaction databases

STRINGi591001.Acfer_1817.

Structurei

Secondary structure

1587
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 10Combined sources4
Helixi25 – 47Combined sources23
Helixi52 – 57Combined sources6
Helixi63 – 70Combined sources8
Beta strandi77 – 80Combined sources4
Beta strandi94 – 102Combined sources9
Beta strandi105 – 112Combined sources8
Turni114 – 119Combined sources6
Helixi125 – 139Combined sources15
Beta strandi143 – 147Combined sources5
Helixi154 – 156Combined sources3
Helixi157 – 160Combined sources4
Beta strandi161 – 163Combined sources3
Helixi169 – 179Combined sources11
Beta strandi184 – 188Combined sources5
Beta strandi190 – 193Combined sources4
Helixi195 – 201Combined sources7
Beta strandi202 – 209Combined sources8
Beta strandi213 – 216Combined sources4
Beta strandi227 – 230Combined sources4
Helixi233 – 244Combined sources12
Beta strandi252 – 254Combined sources3
Helixi255 – 258Combined sources4
Turni259 – 261Combined sources3
Beta strandi267 – 271Combined sources5
Helixi272 – 284Combined sources13
Helixi291 – 294Combined sources4
Beta strandi295 – 297Combined sources3
Helixi306 – 308Combined sources3
Helixi309 – 312Combined sources4
Helixi323 – 328Combined sources6
Helixi332 – 334Combined sources3
Beta strandi337 – 340Combined sources4
Beta strandi347 – 354Combined sources8
Beta strandi357 – 364Combined sources8
Beta strandi367 – 369Combined sources3
Helixi389 – 404Combined sources16
Beta strandi409 – 413Combined sources5
Helixi422 – 426Combined sources5
Helixi429 – 441Combined sources13
Beta strandi447 – 451Combined sources5
Beta strandi453 – 456Combined sources4
Helixi459 – 462Combined sources4
Turni469 – 471Combined sources3
Beta strandi472 – 477Combined sources6
Beta strandi482 – 486Combined sources5
Helixi488 – 505Combined sources18
Helixi511 – 526Combined sources16
Helixi530 – 536Combined sources7
Beta strandi538 – 542Combined sources5
Turni545 – 547Combined sources3
Helixi548 – 559Combined sources12
Helixi569 – 571Combined sources3
Helixi574 – 583Combined sources10

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1PIXX-ray2.20A/B1-587[»]
ProteinModelPortaliQ06700.
SMRiQ06700.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ06700.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini31 – 298CoA carboxyltransferase N-terminalPROSITE-ProRule annotationAdd BLAST268
Domaini295 – 558CoA carboxyltransferase C-terminalPROSITE-ProRule annotationAdd BLAST264

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni31 – 558CarboxyltransferasePROSITE-ProRule annotationAdd BLAST528

Sequence similaritiesi

Contains 1 CoA carboxyltransferase C-terminal domain.PROSITE-ProRule annotation
Contains 1 CoA carboxyltransferase N-terminal domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiENOG4107QX3. Bacteria.
COG4799. LUCA.
HOGENOMiHOG000064887.
KOiK01615.
OMAiTEIYVMH.
OrthoDBiPOG091H00L6.

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

        10         20         30         40         50
MGFYSMPRYF QNMPQVGKPL KKADAANEEQ LKKIEEEIHQ LIKEAQEAGK
60 70 80 90 100
ADADVNKRGE LTALQRIEKL VEPGSWRPLN TLFNPQGNKN GSVAIVKGLG
110 120 130 140 150
RVNGKWCVVV ASDNKKLAGA WVPGQAECLL RASDTAKTLH VPLVYVLNCS
160 170 180 190 200
GVKFDEQEKV YPNRRGGGTP FFRNAELNQL GIPVIVGIYG TNPAGGGYHS
210 220 230 240 250
ISPTVIIAHE KANMAVGGAG IMGGMNPKGH VDLEYANEIA DMVDRTGKTE
260 270 280 290 300
PPGAVDIHYT ETGFMREVYA SEEGVLEGIK KYVGMLPKYD PEFFRVDDPK
310 320 330 340 350
APAFPADDLY SMVPLNDKRA YDIYNVIARL FDNSELHEYK KGYGPEMVTG
360 370 380 390 400
LAKVNGLLVG VVANVQGLLM NYPEYKAAGS VGIGGKLYRQ GLVKMNEFVT
410 420 430 440 450
LCARDRLPIV WIQDTTGIDV GNDAEKAELL GLGQSLIYSI QTSHIPQFEI
460 470 480 490 500
TLRKGTAAAH YVLGGPQGND TNAFSIGTAA TEIAVMNGET AATAMYSRRL
510 520 530 540 550
AKDRKAGKDL QPTIDKMNNL IQAFYTKSRP KVCAELGLVD EIVDMNKIRG
560 570 580
YVEAFTEAAY QNPESICPFH QMILPRAIRE FETFVKK
Length:587
Mass (Da):64,347
Last modified:November 1, 1996 - v1
Checksum:iBF1C0D2F2DCA86DA
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.

Genome annotation databases

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

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1PIXX-ray2.20A/B1-587[»]
ProteinModelPortaliQ06700.
SMRiQ06700.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi591001.Acfer_1817.

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

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

Phylogenomic databases

eggNOGiENOG4107QX3. Bacteria.
COG4799. LUCA.
HOGENOMiHOG000064887.
KOiK01615.
OMAiTEIYVMH.
OrthoDBiPOG091H00L6.

Enzyme and pathway databases

UniPathwayiUPA00533; UER00688.
BioCyciMetaCyc:MONOMER-1054.
BRENDAi4.1.1.70. 85.
SABIO-RKQ06700.

Miscellaneous databases

EvolutionaryTraceiQ06700.

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]
ProtoNetiSearch...

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: November 2, 2016
This is version 93 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

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.