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Entry version 121 (02 Jun 2021)
Sequence version 3 (20 Apr 2010)
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Protein

D-2-hydroxyglutarate dehydrogenase, mitochondrial

Gene

D2HGDH

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Catalyzes the oxidation of (R)-2-hydroxyglutarate to 2-oxoglutarate. May be involved in the catabolism of propionyl-CoA derived from beta-oxidation. Involved in degradation of lysine for the supply of carbon and electrons to the ETF/ETFQO complex during dark-induced sugar starvation.

3 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

FAD1 PublicationNote: Binds 1 FAD per monomer.1 Publication

<p>This subsection of the 'Function' section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

Very low activity toward D-lactate, D-2-hydroxybutyrate and meso-tartrate. Does not efficiently use cytochrome c as electron acceptor and is not able to transfer electrons to NAD or NADP.
  1. KM=584 µM for (R)-2-hydroxyglutarate (with DCIP as acceptor molecule)1 Publication

pH dependencei

Optimum pH is 8.5-9.5.1 Publication

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

GO - Biological processi

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionOxidoreductase
LigandFAD, Flavoprotein

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
ARA:MONOMERQT-4168

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
D-2-hydroxyglutarate dehydrogenase, mitochondrial (EC:1.1.99.39)
Short name:
AtD-2HGDH
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:D2HGDH
Ordered Locus Names:At4g36400
ORF Names:AP22.14, C7A10.960
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiArabidopsis thaliana (Mouse-ear cress)
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri3702 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliopsidaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000006548 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome 4

Organism-specific databases

Arabidopsis Information Portal

More...
Araporti
AT4G36400

The Arabidopsis Information Resource

More...
TAIRi
locus:2115230, AT4G36400

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Keywords - Cellular componenti

Mitochondrion

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

<p>This subsection of the 'Pathology and Biotech' section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

No visible phenotype when grown under standard conditions.2 Publications

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a transit peptide.<p><a href='/help/transit' target='_top'>More...</a></p>Transit peptidei1 – 78Mitochondrion1 PublicationAdd BLAST78
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_000039338979 – 559D-2-hydroxyglutarate dehydrogenase, mitochondrialAdd BLAST481

Proteomic databases

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
O23240

PRoteomics IDEntifications database

More...
PRIDEi
O23240

ProteomicsDB: a multi-organism proteome resource

More...
ProteomicsDBi
222598

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section reports the experimentally proven effects of inducers and repressors (usually chemical compounds or environmental factors) on the level of protein (or mRNA) expression (up-regulation, down-regulation, constitutive expression).<p><a href='/help/induction' target='_top'>More...</a></p>Inductioni

By dark-induced senescence.1 Publication

Gene expression databases

ExpressionAtlas, Differential and Baseline Expression

More...
ExpressionAtlasi
O23240, baseline and differential

Genevisible search portal to normalized and curated expression data from Genevestigator

More...
Genevisiblei
O23240, AT

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction_section">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Homodimer.

1 Publication

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
15074, 1 interactor

STRING: functional protein association networks

More...
STRINGi
3702.AT4G36400.2

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
O23240

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini130 – 309FAD-binding PCMH-typePROSITE-ProRule annotationAdd BLAST180

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG1232, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_017779_4_1_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
O23240

Identification of Orthologs from Complete Genome Data

More...
OMAi
TPRTCGE

Database of Orthologous Groups

More...
OrthoDBi
515900at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O23240

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.45.10, 1 hit
3.30.43.10, 1 hit
3.30.465.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR016166, FAD-bd_PCMH
IPR036318, FAD-bd_PCMH-like_sf
IPR016167, FAD-bd_PCMH_sub1
IPR016169, FAD-bd_PCMH_sub2
IPR016164, FAD-linked_Oxase-like_C
IPR004113, FAD-linked_oxidase_C
IPR006094, Oxid_FAD_bind_N
IPR016171, Vanillyl_alc_oxidase_C-sub2

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF02913, FAD-oxidase_C, 1 hit
PF01565, FAD_binding_4, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF55103, SSF55103, 1 hit
SSF56176, SSF56176, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51387, FAD_PCMH, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

O23240-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MMMQKLRRSG EFIRFGCKSL ISSRPNKDSV SRSVSGFVNH YKSKGKLFEL
60 70 80 90 100
SDGNYKTELH HPCISRNVGM LLQQYKCFGS SAASLIQRNP LFSSLDSKDV
110 120 130 140 150
SYFKEILGEK NVVEDKERLE TANTDWMHKY KGSSKLMLLP KNTQEVSQIL
160 170 180 190 200
EYCDSRRLAV VPQGGNTGLV GGSVPVFDEV IVNVGLMNKI LSFDEVSGVL
210 220 230 240 250
VCEAGCILEN LATFLDTKGF IMPLDLGAKG SCHIGGNVST NAGGLRLIRY
260 270 280 290 300
GSLHGTVLGL EAVTANGNVL DMLGTLRKDN TGYDLKHLFI GSEGSLGIVT
310 320 330 340 350
KVSILTQPKL SSVNLAFIAC KDYLSCQKLL VEAKRNLGEI LSAFEFLDNN
360 370 380 390 400
SMDLVLNHLD GVRNPVSSSE NFYILIETTG SDETNDREKL EAFLLKSLEK
410 420 430 440 450
GLVSDGVIAQ DINQASSFWR IREGITEALQ KAGAVYKYDL SLPVEEIYNI
460 470 480 490 500
VNDLRGRLGD LANVMGYGHL GDGNLHLNIS AAEYNDKLLG LIEPYVYEWT
510 520 530 540 550
SKHRGSISAE HGLGVMKANE IFYSKSPETV ALMASIKKLL DPKGILNPYK

VLPHSLFSN
Length:559
Mass (Da):61,445
Last modified:April 20, 2010 - v3
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i53D72B588A7302A9
GO

<p>This subsection of the 'Sequence' section reports difference(s) between the protein sequence shown in the UniProtKB entry and other available protein sequences derived from the same gene.<p><a href='/help/sequence_caution' target='_top'>More...</a></p>Sequence cautioni

The sequence AAL24169 differs from that shown. Intron retention.Curated
The sequence CAB16815 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence CAB80306 differs from that shown. Reason: Erroneous gene model prediction.Curated

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
Z99708 Genomic DNA Translation: CAB16815.1 Sequence problems.
AL161589 Genomic DNA Translation: CAB80306.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE86651.1
CP002687 Genomic DNA Translation: AEE86652.1
AY058061 mRNA Translation: AAL24169.1 Sequence problems.
AY090301 mRNA Translation: AAL90962.1

Protein sequence database of the Protein Information Resource

More...
PIRi
F85429

NCBI Reference Sequences

More...
RefSeqi
NP_001320151.1, NM_001342409.1
NP_974692.1, NM_202963.2

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
AT4G36400.1; AT4G36400.1; AT4G36400
AT4G36400.2; AT4G36400.2; AT4G36400

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
829792

Gramene; a comparative resource for plants

More...
Gramenei
AT4G36400.1; AT4G36400.1; AT4G36400
AT4G36400.2; AT4G36400.2; AT4G36400

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ath:AT4G36400

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z99708 Genomic DNA Translation: CAB16815.1 Sequence problems.
AL161589 Genomic DNA Translation: CAB80306.1 Sequence problems.
CP002687 Genomic DNA Translation: AEE86651.1
CP002687 Genomic DNA Translation: AEE86652.1
AY058061 mRNA Translation: AAL24169.1 Sequence problems.
AY090301 mRNA Translation: AAL90962.1
PIRiF85429
RefSeqiNP_001320151.1, NM_001342409.1
NP_974692.1, NM_202963.2

3D structure databases

SMRiO23240
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi15074, 1 interactor
STRINGi3702.AT4G36400.2

Proteomic databases

PaxDbiO23240
PRIDEiO23240
ProteomicsDBi222598

Genome annotation databases

EnsemblPlantsiAT4G36400.1; AT4G36400.1; AT4G36400
AT4G36400.2; AT4G36400.2; AT4G36400
GeneIDi829792
GrameneiAT4G36400.1; AT4G36400.1; AT4G36400
AT4G36400.2; AT4G36400.2; AT4G36400
KEGGiath:AT4G36400

Organism-specific databases

AraportiAT4G36400
TAIRilocus:2115230, AT4G36400

Phylogenomic databases

eggNOGiKOG1232, Eukaryota
HOGENOMiCLU_017779_4_1_1
InParanoidiO23240
OMAiTPRTCGE
OrthoDBi515900at2759
PhylomeDBiO23240

Enzyme and pathway databases

BioCyciARA:MONOMERQT-4168

Miscellaneous databases

Protein Ontology

More...
PROi
PR:O23240

Gene expression databases

ExpressionAtlasiO23240, baseline and differential
GenevisibleiO23240, AT

Family and domain databases

Gene3Di1.10.45.10, 1 hit
3.30.43.10, 1 hit
3.30.465.10, 1 hit
InterProiView protein in InterPro
IPR016166, FAD-bd_PCMH
IPR036318, FAD-bd_PCMH-like_sf
IPR016167, FAD-bd_PCMH_sub1
IPR016169, FAD-bd_PCMH_sub2
IPR016164, FAD-linked_Oxase-like_C
IPR004113, FAD-linked_oxidase_C
IPR006094, Oxid_FAD_bind_N
IPR016171, Vanillyl_alc_oxidase_C-sub2
PfamiView protein in Pfam
PF02913, FAD-oxidase_C, 1 hit
PF01565, FAD_binding_4, 1 hit
SUPFAMiSSF55103, SSF55103, 1 hit
SSF56176, SSF56176, 1 hit
PROSITEiView protein in PROSITE
PS51387, FAD_PCMH, 1 hit

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiD2HDH_ARATH
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: O23240
Secondary accession number(s): Q93Z78
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 20, 2010
Last sequence update: April 20, 2010
Last modified: June 2, 2021
This is version 121 of the entry and version 3 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families
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