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Protein

Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial

Gene

SDH1

Organism
Oryza sativa subsp. japonica (Rice)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Flavoprotein (FP) subunit of succinate dehydrogenase (SDH) that is involved in complex II of the mitochondrial electron transport chain and is responsible for transferring electrons from succinate to ubiquinone (coenzyme Q).By similarity

Catalytic activityi

Succinate + a quinone = fumarate + a quinol.

Cofactori

FADBy similarity

Pathway: tricarboxylic acid cycle

This protein is involved in step 1 of the subpathway that synthesizes fumarate from succinate (eukaryal route).Curated
Proteins known to be involved in this subpathway in this organism are:
  1. Succinate dehydrogenase [ubiquinone] iron-sulfur subunit 1, mitochondrial (SDH2-1), Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial (SDH1), Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial (rps14), Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial (OsJ_29116), Succinate dehydrogenase [ubiquinone] iron-sulfur subunit, mitochondrial (OsJ_25852), Succinate dehydrogenase [ubiquinone] iron-sulfur subunit 2, mitochondrial (SDH2-2)
This subpathway is part of the pathway tricarboxylic acid cycle, which is itself part of Carbohydrate metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes fumarate from succinate (eukaryal route), the pathway tricarboxylic acid cycle and in Carbohydrate metabolism.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei260 – 2601FADBy similarity
Binding sitei281 – 2811SubstrateBy similarity
Binding sitei293 – 2931SubstrateBy similarity
Active sitei325 – 3251Proton acceptorBy similarity
Binding sitei392 – 3921SubstrateBy similarity
Binding sitei426 – 4261FADBy similarity
Binding sitei437 – 4371SubstrateBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi52 – 576FADBy similarity
Nucleotide bindingi75 – 9016FADBy similarityAdd
BLAST
Nucleotide bindingi442 – 4432FADBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Electron transport, Transport, Tricarboxylic acid cycle

Keywords - Ligandi

FAD, Flavoprotein

Enzyme and pathway databases

UniPathwayiUPA00223; UER01006.

Names & Taxonomyi

Protein namesi
Recommended name:
Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrial (EC:1.3.5.1)
Alternative name(s):
Flavoprotein subunit of complex II
Short name:
FP
Gene namesi
Name:SDH1
Ordered Locus Names:Os07g0134800, LOC_Os07g04240
ORF Names:P0507H12.27
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBOP cladeOryzoideaeOryzeaeOryzinaeOryza
ProteomesiUP000000763 Componenti: Chromosome 7

Organism-specific databases

GrameneiQ6ZDY8.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Membrane, Mitochondrion, Mitochondrion inner membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 3131MitochondrionSequence AnalysisAdd
BLAST
Chaini32 – 630599Succinate dehydrogenase [ubiquinone] flavoprotein subunit, mitochondrialPRO_0000247593Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei83 – 831Tele-8alpha-FAD histidineBy similarity

Proteomic databases

PaxDbiQ6ZDY8.
PRIDEiQ6ZDY8.

Expressioni

Gene expression databases

ExpressionAtlasiQ6ZDY8. baseline and differential.

Interactioni

Subunit structurei

Component of complex II composed of eight subunits in plants: four classical SDH subunits SDH1, SDH2, SDH3 and SDH4 (a flavoprotein (FP), an iron-sulfur protein (IP), and a cytochrome b composed of a large and a small subunit.), as well as four subunits unknown in mitochondria from bacteria and heterotrophic eukaryotes.1 Publication

Protein-protein interaction databases

STRINGi39947.LOC_Os07g04240.1.

Structurei

3D structure databases

ProteinModelPortaliQ6ZDY8.
SMRiQ6ZDY8. Positions 36-630.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG1053.
HOGENOMiHOG000160475.
InParanoidiQ6ZDY8.
KOiK00234.
OMAiGKNHNSV.

Family and domain databases

Gene3Di1.20.58.100. 1 hit.
3.90.700.10. 1 hit.
InterProiIPR003953. FAD_bind_dom.
IPR003952. FRD_SDH_FAD_BS.
IPR015939. Fum_Rdtase/Succ_DH_flav-like_C.
IPR027477. Succ_DH/fumarate_Rdtase_cat.
IPR011281. Succ_DH_flav_su_fwd.
IPR014006. Succ_Dhase_FrdA_Gneg.
[Graphical view]
PfamiPF00890. FAD_binding_2. 1 hit.
PF02910. Succ_DH_flav_C. 1 hit.
[Graphical view]
SUPFAMiSSF46977. SSF46977. 1 hit.
SSF56425. SSF56425. 1 hit.
TIGRFAMsiTIGR01816. sdhA_forward. 1 hit.
TIGR01812. sdhA_frdA_Gneg. 1 hit.
PROSITEiPS00504. FRD_SDH_FAD_BINDING. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q6ZDY8-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MWRGCVSRGL RSLSKGKGSS SSAPVSAAAR LFSTASSSYT VVDHSYDAVV
60 70 80 90 100
VGAGGAGLRA AIGLSEHGFN TACITKLFPT RSHTVAAQGG INAALGNMTE
110 120 130 140 150
DDWRWHMYDT VKGSDWLGDQ DSIQYMCREA PKAVIELENY GLPFSRTEDG
160 170 180 190 200
KIYQRAFGGQ SLDFGKGGQA YRCACAADRT GHAMLHTLYG QAMKHNTQFF
210 220 230 240 250
VEYFALDLIM DSEGTCQGVI ALNMEDGTLH RFRATNTILA TGGYGRAYFS
260 270 280 290 300
ATSAHTCTGD GNAMVARAGL PLQDLEFVQF HPTGIYGAGC LITEGSRGEG
310 320 330 340 350
GILRNSEGER FMERYAPTAK DLASRDVVSR SMTMEIREGR GVGPLKDHIY
360 370 380 390 400
LHLNHLPPEV LKERLPGISE TAAIFAGVDV TKEPIPVLPT VHYNMGGIPT
410 420 430 440 450
NYHGEVVTMK GDNPDSVVPG LMAAGEAACA SVHGANRLGA NSLLDIVVFG
460 470 480 490 500
RACANRVAET AKPGEKQKPL QKSAGEKTIA WLDKLRNANG SLPTSKIRLN
510 520 530 540 550
MQRVMQNNAA VFRTQETLEE GCKLITKAWE SYHDVKISDR SLIWNSDLIE
560 570 580 590 600
TIELENLLIN ACITMHSAEA RKESRGAHAR EDFTKRDDEQ WMKHSLGYWE
610 620 630
NEKVRLAYRP VHMNTLDSEV ESFPPKARVY
Length:630
Mass (Da):68,854
Last modified:July 5, 2004 - v1
Checksum:i9BDEE1ABC77CF08C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004338 Genomic DNA. Translation: BAC83515.1.
AP008213 Genomic DNA. Translation: BAF20759.1.
AK065901 mRNA. Translation: BAG89728.1.
RefSeqiNP_001058845.1. NM_001065380.1.
UniGeneiOs.22581.

Genome annotation databases

EnsemblPlantsiOS07T0134800-01; OS07T0134800-01; OS07G0134800.
GeneIDi4342350.
KEGGiosa:4342350.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP004338 Genomic DNA. Translation: BAC83515.1.
AP008213 Genomic DNA. Translation: BAF20759.1.
AK065901 mRNA. Translation: BAG89728.1.
RefSeqiNP_001058845.1. NM_001065380.1.
UniGeneiOs.22581.

3D structure databases

ProteinModelPortaliQ6ZDY8.
SMRiQ6ZDY8. Positions 36-630.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi39947.LOC_Os07g04240.1.

Proteomic databases

PaxDbiQ6ZDY8.
PRIDEiQ6ZDY8.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiOS07T0134800-01; OS07T0134800-01; OS07G0134800.
GeneIDi4342350.
KEGGiosa:4342350.

Organism-specific databases

GrameneiQ6ZDY8.

Phylogenomic databases

eggNOGiCOG1053.
HOGENOMiHOG000160475.
InParanoidiQ6ZDY8.
KOiK00234.
OMAiGKNHNSV.

Enzyme and pathway databases

UniPathwayiUPA00223; UER01006.

Gene expression databases

ExpressionAtlasiQ6ZDY8. baseline and differential.

Family and domain databases

Gene3Di1.20.58.100. 1 hit.
3.90.700.10. 1 hit.
InterProiIPR003953. FAD_bind_dom.
IPR003952. FRD_SDH_FAD_BS.
IPR015939. Fum_Rdtase/Succ_DH_flav-like_C.
IPR027477. Succ_DH/fumarate_Rdtase_cat.
IPR011281. Succ_DH_flav_su_fwd.
IPR014006. Succ_Dhase_FrdA_Gneg.
[Graphical view]
PfamiPF00890. FAD_binding_2. 1 hit.
PF02910. Succ_DH_flav_C. 1 hit.
[Graphical view]
SUPFAMiSSF46977. SSF46977. 1 hit.
SSF56425. SSF56425. 1 hit.
TIGRFAMsiTIGR01816. sdhA_forward. 1 hit.
TIGR01812. sdhA_frdA_Gneg. 1 hit.
PROSITEiPS00504. FRD_SDH_FAD_BINDING. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  2. "The rice annotation project database (RAP-DB): 2008 update."
    The rice annotation project (RAP)
    Nucleic Acids Res. 36:D1028-D1033(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: GENOME REANNOTATION.
    Strain: cv. Nipponbare.
  3. "Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice."
    The rice full-length cDNA consortium
    Science 301:376-379(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: cv. Nipponbare.
  4. "Functional and composition differences between mitochondrial complex II in Arabidopsis and rice are correlated with the complex genetic history of the enzyme."
    Huang S., Taylor N.L., Narsai R., Eubel H., Whelan J., Millar A.H.
    Plant Mol. Biol. 72:331-342(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, SUBUNIT.

Entry informationi

Entry nameiSDHA_ORYSJ
AccessioniPrimary (citable) accession number: Q6ZDY8
Secondary accession number(s): Q0D8R4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 25, 2006
Last sequence update: July 5, 2004
Last modified: June 24, 2015
This is version 83 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. Oryza sativa (rice)
    Index of Oryza sativa entries and their corresponding gene designations
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.