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Protein

Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial

Gene

MCCA

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Biotin-attachment subunit of the 3-methylcrotonyl-CoA carboxylase, an enzyme that catalyzes the conversion of 3-methylcrotonyl-CoA to 3-methylglutaconyl-CoA, a critical step for leucine and isovaleric acid catabolism.By similarity

Catalytic activityi

ATP + 3-methylcrotonoyl-CoA + HCO3- = ADP + phosphate + 3-methylglutaconyl-CoA.

Cofactori

Protein has several cofactor binding sites:
  • biotin
  • Mn2+By similarityNote: Binds 2 manganese ions per subunit.By similarity

Pathwayi: L-leucine degradation

This protein is involved in step 2 of the subpathway that synthesizes (S)-3-hydroxy-3-methylglutaryl-CoA from 3-isovaleryl-CoA.
Proteins known to be involved in the 3 steps of the subpathway in this organism are:
  1. Isovaleryl-CoA dehydrogenase, mitochondrial (IVD)
  2. Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial (MCCA), Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial (MCCB)
  3. no protein annotated in this organism
This subpathway is part of the pathway L-leucine degradation, 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 (S)-3-hydroxy-3-methylglutaryl-CoA from 3-isovaleryl-CoA, the pathway L-leucine degradation and in Amino-acid degradation.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei152ATPBy similarity1
Binding sitei236ATPBy similarity1
Binding sitei271ATPBy similarity1
Metal bindingi311Manganese 1By similarity1
Metal bindingi325Manganese 1By similarity1
Metal bindingi325Manganese 2By similarity1
Metal bindingi327Manganese 2By similarity1
Active sitei329By similarity1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • biotin carboxylase activity Source: InterPro
  • cobalt ion binding Source: TAIR
  • methylcrotonoyl-CoA carboxylase activity Source: TAIR

GO - Biological processi

  • leucine catabolic process Source: TAIR
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Ligandi

ATP-binding, Biotin, Manganese, Metal-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciARA:AT1G03090-MONOMER.
BRENDAi6.4.1.4. 399.
ReactomeiR-ATH-196780. Biotin transport and metabolism.
R-ATH-70895. Branched-chain amino acid catabolism.
UniPathwayiUPA00363; UER00861.

Names & Taxonomyi

Protein namesi
Recommended name:
Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial (EC:6.4.1.4)
Short name:
MCCase subunit alpha
Alternative name(s):
3-methylcrotonyl-CoA carboxylase 1
3-methylcrotonyl-CoA:carbon dioxide ligase subunit alpha
Gene namesi
Name:MCCA
Ordered Locus Names:At1g03090
ORF Names:F10O3.9, F10O3_8
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 1

Organism-specific databases

TAIRiAT1G03090.

Subcellular locationi

GO - Cellular componenti

  • cytosolic ribosome Source: TAIR
  • mitochondrial matrix Source: UniProtKB-SubCell
  • mitochondrion Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 25MitochondrionSequence analysisAdd BLAST25
ChainiPRO_000000283526 – 734Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrialAdd BLAST709

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei645PhosphoserineCombined sources1
Modified residuei699N6-biotinyllysinePROSITE-ProRule annotationBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ42523.
PRIDEiQ42523.

PTM databases

iPTMnetiQ42523.

Expressioni

Tissue specificityi

In roots, cotyledons, leaves, flowers, ovaries, siliques and embryos.1 Publication

Gene expression databases

GenevisibleiQ42523. AT.

Interactioni

Subunit structurei

Probably a heterodimer composed of biotin-containing alpha subunits and beta subunits.By similarity

Protein-protein interaction databases

BioGridi23601. 1 interactor.
STRINGi3702.AT1G03090.2.

Structurei

3D structure databases

ProteinModelPortaliQ42523.
SMRiQ42523.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini37 – 484Biotin carboxylationAdd BLAST448
Domaini156 – 354ATP-graspPROSITE-ProRule annotationAdd BLAST199
Domaini657 – 733Biotinyl-bindingPROSITE-ProRule annotationAdd BLAST77

Sequence similaritiesi

Contains 1 ATP-grasp domain.PROSITE-ProRule annotation
Contains 1 biotin carboxylation domain.Curated
Contains 1 biotinyl-binding domain.PROSITE-ProRule annotationCurated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG0238. Eukaryota.
COG4770. LUCA.
HOGENOMiHOG000008989.
InParanoidiQ42523.
KOiK01968.
OMAiNISEKFR.
OrthoDBiEOG09360439.
PhylomeDBiQ42523.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005481. BC-like_N.
IPR001882. Biotin_BS.
IPR011764. Biotin_carboxylation_dom.
IPR005482. Biotin_COase_C.
IPR000089. Biotin_lipoyl.
IPR005479. CbamoylP_synth_lsu-like_ATP-bd.
IPR016185. PreATP-grasp_dom.
IPR011054. Rudment_hybrid_motif.
IPR011053. Single_hybrid_motif.
[Graphical view]
PfamiPF02785. Biotin_carb_C. 1 hit.
PF00289. Biotin_carb_N. 1 hit.
PF00364. Biotin_lipoyl. 1 hit.
PF02786. CPSase_L_D2. 1 hit.
[Graphical view]
SMARTiSM00878. Biotin_carb_C. 1 hit.
[Graphical view]
SUPFAMiSSF51230. SSF51230. 1 hit.
SSF51246. SSF51246. 1 hit.
SSF52440. SSF52440. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS50979. BC. 1 hit.
PS00188. BIOTIN. 1 hit.
PS50968. BIOTINYL_LIPOYL. 1 hit.
PS00866. CPSASE_1. 1 hit.
PS00867. CPSASE_2. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q42523-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MSMMTVWALR RNVRRKNHSM LVRYISGSAS MKPKEQCIEK ILVANRGEIA
60 70 80 90 100
CRIMRTAKRL GIQTVAVYSD ADRDSLHVKS ADEAVRIGPP SARLSYLSGV
110 120 130 140 150
TIMEAAARTG AQAIHPGYGF LSESSDFAQL CEDSGLTFIG PPASAIRDMG
160 170 180 190 200
DKSASKRIMG AAGVPLVPGY HGHEQDIDHM KSEAEKIGYP IIIKPTHGGG
210 220 230 240 250
GKGMRIVQSG KDFADSFLGA QREAAASFGV NTILLEKYIT RPRHIEVQIF
260 270 280 290 300
GDKHGNVLHL YERDCSVQRR HQKIIEEAPA PNISEKFRAN LGQAAVSAAR
310 320 330 340 350
AVGYYNAGTV EFIVDTESDQ FYFMEMNTRL QVEHPVTEMI VGQDLVEWQI
360 370 380 390 400
RVANGEPLPL SQSEVPMSGH AFEARIYAEN VPKGFLPATG VLNHYRPVAV
410 420 430 440 450
SPSVRVETGV EQGDTVSMHY DPMIAKLVVW GGNRGEALVK LKDCLSNFQV
460 470 480 490 500
AGVPTNINFL QKLASHKEFA VGNVETHFIE HHKSDLFADE SNPAATEVAY
510 520 530 540 550
KAVKHSAALV AACISTIEHS TWNESNHGKV PSIWYSNPPF RVHHEAKQTI
560 570 580 590 600
ELEWNNECEG TGSNLISLGV RYQPDGSYLI EEGNDSPSLE LRVTRAGKCD
610 620 630 640 650
FRVEAAGLSM NVSLAAYLKD GYKHIHIWHG SEHHQFKQKV GIEFSEDEEG
660 670 680 690 700
VQHRTSSETS SHPPGTIVAP MAGLVVKVLV ENEAKVDQGQ PILVLEAMKM
710 720 730
EHVVKAPSSG SIQDLKVKAG QQVSDGSALF RIKG
Length:734
Mass (Da):80,451
Last modified:May 2, 2002 - v2
Checksum:i251CACF6464B046B
GO
Isoform 2 (identifier: Q42523-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     281-300: Missing.

Note: May be due to exon skipping. No experimental confirmation available.
Show »
Length:714
Mass (Da):78,369
Checksum:i60AE5054E7C1C9E2
GO

Sequence cautioni

The sequence AAD25800 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti85V → D in AAA67356 (PubMed:7716229).Curated1
Sequence conflicti92A → AK in AAA67356 (PubMed:7716229).Curated1
Sequence conflicti430W → L in AAA67356 (PubMed:7716229).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_008910281 – 300Missing in isoform 2. 1 PublicationAdd BLAST20

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U12536 mRNA. Translation: AAA67356.1.
AC006550 Genomic DNA. Translation: AAD25800.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE27527.1.
CP002684 Genomic DNA. Translation: AEE27528.1.
AY070723 mRNA. Translation: AAL50065.1.
PIRiG86161.
RefSeqiNP_563674.1. NM_100191.4. [Q42523-2]
NP_849583.1. NM_179252.3. [Q42523-1]
UniGeneiAt.24059.

Genome annotation databases

EnsemblPlantsiAT1G03090.2; AT1G03090.2; AT1G03090. [Q42523-1]
GeneIDi838362.
GrameneiAT1G03090.2; AT1G03090.2; AT1G03090.
KEGGiath:AT1G03090.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U12536 mRNA. Translation: AAA67356.1.
AC006550 Genomic DNA. Translation: AAD25800.1. Sequence problems.
CP002684 Genomic DNA. Translation: AEE27527.1.
CP002684 Genomic DNA. Translation: AEE27528.1.
AY070723 mRNA. Translation: AAL50065.1.
PIRiG86161.
RefSeqiNP_563674.1. NM_100191.4. [Q42523-2]
NP_849583.1. NM_179252.3. [Q42523-1]
UniGeneiAt.24059.

3D structure databases

ProteinModelPortaliQ42523.
SMRiQ42523.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi23601. 1 interactor.
STRINGi3702.AT1G03090.2.

PTM databases

iPTMnetiQ42523.

Proteomic databases

PaxDbiQ42523.
PRIDEiQ42523.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT1G03090.2; AT1G03090.2; AT1G03090. [Q42523-1]
GeneIDi838362.
GrameneiAT1G03090.2; AT1G03090.2; AT1G03090.
KEGGiath:AT1G03090.

Organism-specific databases

TAIRiAT1G03090.

Phylogenomic databases

eggNOGiKOG0238. Eukaryota.
COG4770. LUCA.
HOGENOMiHOG000008989.
InParanoidiQ42523.
KOiK01968.
OMAiNISEKFR.
OrthoDBiEOG09360439.
PhylomeDBiQ42523.

Enzyme and pathway databases

UniPathwayiUPA00363; UER00861.
BioCyciARA:AT1G03090-MONOMER.
BRENDAi6.4.1.4. 399.
ReactomeiR-ATH-196780. Biotin transport and metabolism.
R-ATH-70895. Branched-chain amino acid catabolism.

Miscellaneous databases

PROiQ42523.

Gene expression databases

GenevisibleiQ42523. AT.

Family and domain databases

Gene3Di3.30.1490.20. 1 hit.
3.30.470.20. 1 hit.
3.40.50.20. 1 hit.
InterProiIPR011761. ATP-grasp.
IPR013815. ATP_grasp_subdomain_1.
IPR013816. ATP_grasp_subdomain_2.
IPR005481. BC-like_N.
IPR001882. Biotin_BS.
IPR011764. Biotin_carboxylation_dom.
IPR005482. Biotin_COase_C.
IPR000089. Biotin_lipoyl.
IPR005479. CbamoylP_synth_lsu-like_ATP-bd.
IPR016185. PreATP-grasp_dom.
IPR011054. Rudment_hybrid_motif.
IPR011053. Single_hybrid_motif.
[Graphical view]
PfamiPF02785. Biotin_carb_C. 1 hit.
PF00289. Biotin_carb_N. 1 hit.
PF00364. Biotin_lipoyl. 1 hit.
PF02786. CPSase_L_D2. 1 hit.
[Graphical view]
SMARTiSM00878. Biotin_carb_C. 1 hit.
[Graphical view]
SUPFAMiSSF51230. SSF51230. 1 hit.
SSF51246. SSF51246. 1 hit.
SSF52440. SSF52440. 1 hit.
PROSITEiPS50975. ATP_GRASP. 1 hit.
PS50979. BC. 1 hit.
PS00188. BIOTIN. 1 hit.
PS50968. BIOTINYL_LIPOYL. 1 hit.
PS00866. CPSASE_1. 1 hit.
PS00867. CPSASE_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiMCCA_ARATH
AccessioniPrimary (citable) accession number: Q42523
Secondary accession number(s): Q9SA61
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 2, 2002
Last sequence update: May 2, 2002
Last modified: November 30, 2016
This is version 154 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

Temporal and spatial accumulation of the alpha and beta subunits during development at approximately equal molar ratios.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  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.