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Q7XDC8

- MDHC_ORYSJ

UniProt

Q7XDC8 - MDHC_ORYSJ

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Protein

Malate dehydrogenase, cytoplasmic

Gene

Os10g0478200

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

Functioni

Catalytic activityi

(S)-malate + NAD+ = oxaloacetate + NADH.PROSITE-ProRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei93 – 931Substrate carboxylPROSITE-ProRule annotation
Binding sitei99 – 991Substrate carboxylPROSITE-ProRule annotation
Binding sitei106 – 1061NADBy similarity
Binding sitei113 – 1131NADBy similarity
Binding sitei132 – 1321SubstratePROSITE-ProRule annotation
Binding sitei163 – 1631Substrate carboxylPROSITE-ProRule annotation
Active sitei188 – 1881Proton acceptorBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi12 – 187NADBy similarity
Nucleotide bindingi130 – 1323NADBy similarity

GO - Molecular functioni

  1. L-malate dehydrogenase activity Source: UniProtKB-EC

GO - Biological processi

  1. cellular carbohydrate metabolic process Source: InterPro
  2. malate metabolic process Source: InterPro
  3. tricarboxylic acid cycle Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase, cytoplasmic (EC:1.1.1.37)
Alternative name(s):
PP37
Gene namesi
Ordered Locus Names:Os10g0478200, LOC_Os10g33800
ORF Names:OSJNBa0055P24.3
OrganismiOryza sativa subsp. japonica (Rice)
Taxonomic identifieri39947 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaeBEP cladeEhrhartoideaeOryzeaeOryza
ProteomesiUP000000763: Chromosome 10

Organism-specific databases

GrameneiQ7XDC8.

Subcellular locationi

Cytoplasm By similarity

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed1 Publication
Chaini2 – 332331Malate dehydrogenase, cytoplasmicPRO_0000113418Add
BLAST

Post-translational modificationi

Phosphorylated after gibberellin treatment.1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiQ7XDC8.
PRIDEiQ7XDC8.

Expressioni

Tissue specificityi

Highly expressed in young panicles and immature seeds. Weakly expressed in roots and leaves. Expressed in stem and sheath (at protein level).2 Publications

Gene expression databases

ExpressionAtlasiQ7XDC8. baseline.

Interactioni

Subunit structurei

Homodimer.By similarity

Structurei

3D structure databases

ProteinModelPortaliQ7XDC8.
SMRiQ7XDC8. Positions 4-332.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the LDH/MDH superfamily. MDH type 2 family.Curated

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000220953.
InParanoidiQ7XDC8.
KOiK00025.
OMAiNCLIASK.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
InterProiIPR001557. L-lactate/malate_DH.
IPR022383. Lactate/malate_DH_C.
IPR001236. Lactate/malate_DH_N.
IPR015955. Lactate_DH/Glyco_Ohase_4_C.
IPR001252. Malate_DH_AS.
IPR011274. Malate_DH_NAD-dep_euk.
IPR010945. Malate_DH_type2.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR23382. PTHR23382. 1 hit.
PfamiPF02866. Ldh_1_C. 1 hit.
PF00056. Ldh_1_N. 1 hit.
[Graphical view]
PIRSFiPIRSF000102. Lac_mal_DH. 1 hit.
SUPFAMiSSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01759. MalateDH-SF1. 1 hit.
TIGR01758. MDH_euk_cyt. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q7XDC8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAKEPMRVLV TGAAGQIGYA LVPMIARGVM LGADQPVILH MLDIPPATES
60 70 80 90 100
LNGLKMELVD AAFPLLKGIV ATTDVVEACT GVNVAVMVGG FPRKEGMERK
110 120 130 140 150
DVMSKNVSIY KSQASALEAH AAPNCKVLVV ANPANTNALI LKEFAPSIPE
160 170 180 190 200
KNITCLTRLD HNRALGQISE KLNVQVTDVK NAIIWGNHSS TQYPDVNHAT
210 220 230 240 250
VKTPSGEKPV RELVADDEWL NTEFISTVQQ RGAAIIKARK QSSALSAASS
260 270 280 290 300
ACDHIRDWVL GTPEGTFVSM GVYSDGSYGV PAGLIYSFPV TCSGGEWTIV
310 320 330
QGLPIDEFSR KKMDATAQEL SEEKTLAYSC LN
Length:332
Mass (Da):35,569
Last modified:January 23, 2007 - v3
Checksum:iEB1E3187DCC4DF42
GO

Sequence cautioni

The sequence ABG66141.1 differs from that shown. Reason: Erroneous gene model prediction.

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF353203 mRNA. Translation: AAK26431.1.
AC037425 Genomic DNA. Translation: AAG13573.1.
DP000086 Genomic DNA. Translation: AAP54283.1.
DP000086 Genomic DNA. Translation: ABG66141.1. Sequence problems.
AP008216 Genomic DNA. Translation: BAF26774.1.
RefSeqiNP_001064860.1. NM_001071395.1.
UniGeneiOs.21850.

Genome annotation databases

EnsemblPlantsiOS10T0478200-01; OS10T0478200-01; OS10G0478200.
GeneIDi4348905.
KEGGiosa:4348905.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AF353203 mRNA. Translation: AAK26431.1 .
AC037425 Genomic DNA. Translation: AAG13573.1 .
DP000086 Genomic DNA. Translation: AAP54283.1 .
DP000086 Genomic DNA. Translation: ABG66141.1 . Sequence problems.
AP008216 Genomic DNA. Translation: BAF26774.1 .
RefSeqi NP_001064860.1. NM_001071395.1.
UniGenei Os.21850.

3D structure databases

ProteinModelPortali Q7XDC8.
SMRi Q7XDC8. Positions 4-332.
ModBasei Search...
MobiDBi Search...

Proteomic databases

PaxDbi Q7XDC8.
PRIDEi Q7XDC8.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblPlantsi OS10T0478200-01 ; OS10T0478200-01 ; OS10G0478200 .
GeneIDi 4348905.
KEGGi osa:4348905.

Organism-specific databases

Gramenei Q7XDC8.

Phylogenomic databases

eggNOGi COG0039.
HOGENOMi HOG000220953.
InParanoidi Q7XDC8.
KOi K00025.
OMAi NCLIASK.

Gene expression databases

ExpressionAtlasi Q7XDC8. baseline.

Family and domain databases

Gene3Di 3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
InterProi IPR001557. L-lactate/malate_DH.
IPR022383. Lactate/malate_DH_C.
IPR001236. Lactate/malate_DH_N.
IPR015955. Lactate_DH/Glyco_Ohase_4_C.
IPR001252. Malate_DH_AS.
IPR011274. Malate_DH_NAD-dep_euk.
IPR010945. Malate_DH_type2.
IPR016040. NAD(P)-bd_dom.
[Graphical view ]
PANTHERi PTHR23382. PTHR23382. 1 hit.
Pfami PF02866. Ldh_1_C. 1 hit.
PF00056. Ldh_1_N. 1 hit.
[Graphical view ]
PIRSFi PIRSF000102. Lac_mal_DH. 1 hit.
SUPFAMi SSF56327. SSF56327. 1 hit.
TIGRFAMsi TIGR01759. MalateDH-SF1. 1 hit.
TIGR01758. MDH_euk_cyt. 1 hit.
PROSITEi PS00068. MDH. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Cloning, characterization and prokaryotic expression of cytosolic malate dehydrogenase from Oryza sativa."
    Lin C.F., Jiang R.H., Jiang L.Z., Qian X.Y., Attia K., Yang J.S.
    DNA Seq. 15:314-318(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
  2. "In-depth view of structure, activity, and evolution of rice chromosome 10."
    Yu Y., Rambo T., Currie J., Saski C., Kim H.-R., Collura K., Thompson S., Simmons J., Yang T.-J., Nah G., Patel A.J., Thurmond S., Henry D., Oates R., Palmer M., Pries G., Gibson J., Anderson H.
    , Paradkar M., Crane L., Dale J., Carver M.B., Wood T., Frisch D., Engler F., Soderlund C., Palmer L.E., Teytelman L., Nascimento L., De la Bastide M., Spiegel L., Ware D., O'Shaughnessy A., Dike S., Dedhia N., Preston R., Huang E., Ferraro K., Kuit K., Miller B., Zutavern T., Katzenberger F., Muller S., Balija V., Martienssen R.A., Stein L., Minx P., Johnson D., Cordum H., Mardis E., Cheng Z., Jiang J., Wilson R., McCombie W.R., Wing R.A., Yuan Q., Ouyang S., Liu J., Jones K.M., Gansberger K., Moffat K., Hill J., Tsitrin T., Overton L., Bera J., Kim M., Jin S., Tallon L., Ciecko A., Pai G., Van Aken S., Utterback T., Reidmuller S., Bormann J., Feldblyum T., Hsiao J., Zismann V., Blunt S., de Vazeille A.R., Shaffer T., Koo H., Suh B., Yang Q., Haas B., Peterson J., Pertea M., Volfovsky N., Wortman J., White O., Salzberg S.L., Fraser C.M., Buell C.R., Messing J., Song R., Fuks G., Llaca V., Kovchak S., Young S., Bowers J.E., Paterson A.H., Johns M.A., Mao L., Pan H., Dean R.A.
    Science 300:1566-1569(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Nipponbare.
  4. "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.
  5. "Rice proteome database based on two-dimensional polyacrylamide gel electrophoresis: its status in 2003."
    Komatsu S., Kojima K., Suzuki K., Ozaki K., Higo K.
    Nucleic Acids Res. 32:D388-D392(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEIN SEQUENCE OF 2-11; 41-50; 144-153 AND 151-160, TISSUE SPECIFICITY.
    Strain: cv. Nipponbare.
    Tissue: Panicle, Sheath and Stem.
  6. "Identification of phosphoproteins regulated by gibberellin in rice leaf sheath."
    Khan M.M.K., Jan A., Karibe H., Komatsu S.
    Plant Mol. Biol. 58:27-40(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, INDUCTION, PHOSPHORYLATION.
    Strain: cv. Nipponbare.

Entry informationi

Entry nameiMDHC_ORYSJ
AccessioniPrimary (citable) accession number: Q7XDC8
Secondary accession number(s): Q0IWZ1, Q109J3, Q9FWH5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 20, 2005
Last sequence update: January 23, 2007
Last modified: October 29, 2014
This is version 85 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

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

External Data

Dasty 3