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Protein

Isovaleryl-CoA dehydrogenase, mitochondrial

Gene

Ivd

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Catalytic activityi

Isovaleryl-CoA + electron-transfer flavoprotein = 3-methylcrotonyl-CoA + reduced electron-transfer flavoprotein.1 Publication

Cofactori

FAD1 Publication

Pathwayi: L-leucine degradation

This protein is involved in step 1 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 beta chain, mitochondrial (Mccc2), Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial (Mccc1)
  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 sitei172Substrate; via carbonyl oxygenBy similarity1
Binding sitei275SubstrateBy similarity1
Active sitei284Proton acceptorBy similarity1
Binding sitei310FADBy similarity1
Binding sitei321FADBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi163 – 172FADBy similarity10
Nucleotide bindingi196 – 198FADBy similarity3
Nucleotide bindingi378 – 382FADBy similarity5
Nucleotide bindingi407 – 409FADBy similarity3

GO - Molecular functioni

GO - Biological processi

  • fatty acid beta-oxidation using acyl-CoA dehydrogenase Source: BHF-UCL
  • leucine catabolic process Source: BHF-UCL
  • leucine metabolic process Source: RGD
  • lipid homeostasis Source: GO_Central
  • protein homooligomerization Source: RGD
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

FAD, Flavoprotein

Enzyme and pathway databases

BRENDAi1.3.8.4. 5301.
ReactomeiR-RNO-70895. Branched-chain amino acid catabolism.
SABIO-RKP12007.
UniPathwayiUPA00363; UER00860.

Names & Taxonomyi

Protein namesi
Recommended name:
Isovaleryl-CoA dehydrogenase, mitochondrial (EC:1.3.8.4)
Short name:
IVD
Gene namesi
Name:Ivd
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 3

Organism-specific databases

RGDi2936. Ivd.

Subcellular locationi

  • Mitochondrion matrix 1 Publication

GO - Cellular componenti

  • mitochondrial matrix Source: BHF-UCL
  • mitochondrial membrane Source: BHF-UCL
Complete GO annotation...

Keywords - Cellular componenti

Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 30MitochondrionAdd BLAST30
ChainiPRO_000000053431 – 424Isovaleryl-CoA dehydrogenase, mitochondrialAdd BLAST394

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei56N6-acetyllysine; alternateBy similarity1
Modified residuei56N6-succinyllysine; alternateBy similarity1
Modified residuei65N6-acetyllysine; alternateBy similarity1
Modified residuei65N6-succinyllysine; alternateBy similarity1
Modified residuei76N6-acetyllysine; alternateBy similarity1
Modified residuei76N6-succinyllysine; alternateBy similarity1
Modified residuei239N6-acetyllysineBy similarity1
Modified residuei260N6-acetyllysine; alternateBy similarity1
Modified residuei260N6-succinyllysine; alternateBy similarity1
Modified residuei316N6-succinyllysineBy similarity1

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiP12007.
PRIDEiP12007.

PTM databases

iPTMnetiP12007.
PhosphoSitePlusiP12007.

Expressioni

Gene expression databases

BgeeiENSRNOG00000009421.
GenevisibleiP12007. RN.

Interactioni

Subunit structurei

Homotetramer.

Protein-protein interaction databases

BioGridi246669. 1 interactor.
STRINGi10116.ENSRNOP00000013829.

Structurei

3D structure databases

ProteinModelPortaliP12007.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni220 – 221Substrate bindingBy similarity2
Regioni282 – 285Substrate bindingBy similarity4
Regioni405 – 406Substrate bindingBy similarity2

Sequence similaritiesi

Belongs to the acyl-CoA dehydrogenase family.Curated

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiKOG0141. Eukaryota.
ENOG410XNMY. LUCA.
GeneTreeiENSGT00760000119007.
HOGENOMiHOG000131659.
HOVERGENiHBG000224.
InParanoidiP12007.
KOiK00253.
OMAiMNAARSY.
OrthoDBiEOG091G04BS.
PhylomeDBiP12007.
TreeFamiTF105050.

Family and domain databases

Gene3Di1.10.540.10. 1 hit.
InterProiIPR006089. Acyl-CoA_DH_CS.
IPR006091. Acyl-CoA_Oxase/DH_cen-dom.
IPR009075. AcylCo_DH/oxidase_C.
IPR013786. AcylCoA_DH/ox_N.
IPR009100. AcylCoA_DH/oxidase_NM_dom.
[Graphical view]
PfamiPF00441. Acyl-CoA_dh_1. 1 hit.
PF02770. Acyl-CoA_dh_M. 1 hit.
PF02771. Acyl-CoA_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF47203. SSF47203. 1 hit.
SSF56645. SSF56645. 1 hit.
PROSITEiPS00072. ACYL_COA_DH_1. 1 hit.
PS00073. ACYL_COA_DH_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P12007-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MATAVRLLGR RVSSWRLRPL PSPLAVPQRA HSMLPVDDDI NGLNEEQKQL
60 70 80 90 100
RHTISKFVQE NLAPKAQEID QSNDFKNLRE FWKQLGSLGV LGITAPVQYG
110 120 130 140 150
GSGLGYLEHV LVMEEISRAS AAVGLSYGAH SNLCINQIVR NGNEAQKEKY
160 170 180 190 200
LPKLISGEFI GALAMSEPNA GSDVVSMRLK AEKKGDHYVL NGNKFWITNG
210 220 230 240 250
PDADVLVVYA KTDLTAVPAS RGITAFIVEK DMPGFSTSKK LDKLGMRGSN
260 270 280 290 300
TCELVFEDCK VPAANILSQE SKGVYVLMSG LDLERLVLAG GPLGIMQAVL
310 320 330 340 350
DHTIPYLHVR EAFGQKIGQF QLMQGKMADM YTRLMACRQY VYNVARACDE
360 370 380 390 400
GHITAKDCAG VILYTAECAT QVALDGIQCL GGNGYINDFP MGRFLRDAKL
410 420
YEIGGGTSEV RRLVIGRAFN ADFR
Length:424
Mass (Da):46,435
Last modified:April 1, 1990 - v2
Checksum:iD09FFD0A88EA5791
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05031 mRNA. Translation: AAA41454.1.
BC088401 mRNA. Translation: AAH88401.1.
M19867 mRNA. Translation: AAA41459.1.
PIRiC34252.
RefSeqiNP_036724.1. NM_012592.2.
UniGeneiRn.147.

Genome annotation databases

EnsembliENSRNOT00000013829; ENSRNOP00000013829; ENSRNOG00000009421.
GeneIDi24513.
KEGGirno:24513.
UCSCiRGD:2936. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J05031 mRNA. Translation: AAA41454.1.
BC088401 mRNA. Translation: AAH88401.1.
M19867 mRNA. Translation: AAA41459.1.
PIRiC34252.
RefSeqiNP_036724.1. NM_012592.2.
UniGeneiRn.147.

3D structure databases

ProteinModelPortaliP12007.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi246669. 1 interactor.
STRINGi10116.ENSRNOP00000013829.

PTM databases

iPTMnetiP12007.
PhosphoSitePlusiP12007.

Proteomic databases

PaxDbiP12007.
PRIDEiP12007.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000013829; ENSRNOP00000013829; ENSRNOG00000009421.
GeneIDi24513.
KEGGirno:24513.
UCSCiRGD:2936. rat.

Organism-specific databases

CTDi3712.
RGDi2936. Ivd.

Phylogenomic databases

eggNOGiKOG0141. Eukaryota.
ENOG410XNMY. LUCA.
GeneTreeiENSGT00760000119007.
HOGENOMiHOG000131659.
HOVERGENiHBG000224.
InParanoidiP12007.
KOiK00253.
OMAiMNAARSY.
OrthoDBiEOG091G04BS.
PhylomeDBiP12007.
TreeFamiTF105050.

Enzyme and pathway databases

UniPathwayiUPA00363; UER00860.
BRENDAi1.3.8.4. 5301.
ReactomeiR-RNO-70895. Branched-chain amino acid catabolism.
SABIO-RKP12007.

Miscellaneous databases

PROiP12007.

Gene expression databases

BgeeiENSRNOG00000009421.
GenevisibleiP12007. RN.

Family and domain databases

Gene3Di1.10.540.10. 1 hit.
InterProiIPR006089. Acyl-CoA_DH_CS.
IPR006091. Acyl-CoA_Oxase/DH_cen-dom.
IPR009075. AcylCo_DH/oxidase_C.
IPR013786. AcylCoA_DH/ox_N.
IPR009100. AcylCoA_DH/oxidase_NM_dom.
[Graphical view]
PfamiPF00441. Acyl-CoA_dh_1. 1 hit.
PF02770. Acyl-CoA_dh_M. 1 hit.
PF02771. Acyl-CoA_dh_N. 1 hit.
[Graphical view]
SUPFAMiSSF47203. SSF47203. 1 hit.
SSF56645. SSF56645. 1 hit.
PROSITEiPS00072. ACYL_COA_DH_1. 1 hit.
PS00073. ACYL_COA_DH_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiIVD_RAT
AccessioniPrimary (citable) accession number: P12007
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1989
Last sequence update: April 1, 1990
Last modified: November 2, 2016
This is version 150 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. 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.