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P46489

- MDHP_FLABI

UniProt

P46489 - MDHP_FLABI

Protein

Malate dehydrogenase [NADP], chloroplastic

Gene
N/A
Organism
Flaveria bidentis (Coastal plain yellowtops) (Ethulia bidentis)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 103 (01 Oct 2014)
      Sequence version 1 (01 Nov 1995)
      Previous versions | rss
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    Functioni

    The chloroplastic, NADP-dependent form is essential for the photosynthesis C4 cycle, which allows plants to circumvent the problem of photorespiration. In C4 plants, NADP-MDH activity acts to convert oxaloacetate to malate in chloroplasts of mesophyll cells for transport to the bundle sheath cells.

    Catalytic activityi

    (S)-malate + NADP+ = oxaloacetate + NADPH.

    Enzyme regulationi

    Chloroplast NADP-MDH is activated upon illumination. In order to be enzymatically active, disulfide bridges on the protein must be reduced by thioredoxin which receives electrons from ferredoxin and the electron transport system of photosynthesis.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei88 – 881Activation of NADP-MDHBy similarity
    Sitei93 – 931Activation of NADP-MDHBy similarity
    Binding sitei198 – 1981SubstratePROSITE-ProRule annotation
    Binding sitei204 – 2041SubstratePROSITE-ProRule annotation
    Binding sitei211 – 2111NADPBy similarity
    Binding sitei218 – 2181NADP1 Publication
    Binding sitei237 – 2371SubstratePROSITE-ProRule annotation
    Binding sitei268 – 2681SubstratePROSITE-ProRule annotation
    Active sitei293 – 2931Proton acceptorBy similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi117 – 1237NADP1 Publication
    Nucleotide bindingi235 – 2373NADP1 Publication

    GO - Molecular functioni

    1. malate dehydrogenase (NADP+) activity Source: UniProtKB-EC

    GO - Biological processi

    1. carbohydrate metabolic process Source: InterPro
    2. malate metabolic process Source: InterPro

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    NADP

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Malate dehydrogenase [NADP], chloroplastic (EC:1.1.1.82)
    Alternative name(s):
    NADP-MDH
    OrganismiFlaveria bidentis (Coastal plain yellowtops) (Ethulia bidentis)
    Taxonomic identifieri4224 [NCBI]
    Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaeasteridscampanulidsAsteralesAsteraceaeAsteroideaeHeliantheae allianceTageteaeFlaveria

    Subcellular locationi

    GO - Cellular componenti

    1. chloroplast Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Chloroplast, Plastid

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 6868ChloroplastAdd
    BLAST
    Chaini69 – 453385Malate dehydrogenase [NADP], chloroplasticPRO_0000018642Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi88 ↔ 93In oxidized inactive NAD-MDH
    Disulfide bondi429 ↔ 441In oxidized inactive NAD-MDH

    Keywords - PTMi

    Disulfide bond

    Interactioni

    Subunit structurei

    Homodimer.1 Publication

    Structurei

    Secondary structure

    1
    453
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Turni90 – 934
    Beta strandi101 – 1033
    Beta strandi111 – 1166
    Turni117 – 1193
    Helixi121 – 13111
    Turni132 – 1365
    Beta strandi142 – 1476
    Helixi150 – 1523
    Helixi153 – 16412
    Turni165 – 1673
    Beta strandi171 – 1788
    Helixi180 – 1834
    Turni184 – 1863
    Beta strandi188 – 1925
    Helixi204 – 22522
    Beta strandi231 – 2344
    Beta strandi236 – 2383
    Helixi239 – 24810
    Helixi255 – 2573
    Beta strandi258 – 2603
    Helixi263 – 27715
    Beta strandi283 – 2853
    Beta strandi288 – 2914
    Beta strandi298 – 3003
    Helixi311 – 3133
    Helixi318 – 3236
    Helixi325 – 3295
    Helixi332 – 3387
    Helixi345 – 36016
    Beta strandi369 – 3746
    Beta strandi384 – 39310
    Beta strandi395 – 3984
    Helixi410 – 42920
    Turni430 – 4356

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1CIVX-ray2.80A69-453[»]
    ProteinModelPortaliP46489.
    SMRiP46489. Positions 80-453.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP46489.

    Family & Domainsi

    Sequence similaritiesi

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

    Keywords - Domaini

    Transit peptide

    Family and domain databases

    Gene3Di3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProiIPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    IPR001252. Malate_DH_AS.
    IPR011273. Malate_DH_NADP-dep_pln.
    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]
    SUPFAMiSSF56327. SSF56327. 1 hit.
    TIGRFAMsiTIGR01757. Malate-DH_plant. 1 hit.
    TIGR01759. MalateDH-SF1. 1 hit.
    PROSITEiPS00068. MDH. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

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

    P46489-1 [UniParc]FASTAAdd to Basket

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    MAVVKLSPWA NYSSSKSEIK SSSSSSSSKS SLSAYVINVS SSPRLSFYNP    50
    YPRRLHHQRL SSPASIRCSV TSSDQIQAPL PAKQKPECFG VFCLTYDLKA 100
    EEETKSWKKI INVAVSGAAG MISNHLLFKL ASGEVFGPDQ PISLKLLGSE 150
    RSFAALEGVA MELEDSLYPL LRQVSIGIDP YEIFQDAEWA LLIGAKPRGP 200
    GMERADLLDI NGQIFAEQGK ALNAVASPNV KVMVVGNPCN TNALICLKNA 250
    PNIPPKNFHA LTRLDENRAK CQLALKAGVF YDKVSNVTIW GNHSTTQVPD 300
    FLNAKIHGIP VTEVIRDRKW LEDEFTNMVQ TRGGVLIKKW GRSSAASTAV 350
    SIVDAIRSLV TPTPEGDWFS TGVYTNGNPY GIAEDIVFSM PCRSKGDGDY 400
    EFVKDVIFDD YLSKKIKKSE DELLAEKKCV AHLTGEGIAV CDLPEDTMLP 450
    GEM 453
    Length:453
    Mass (Da):49,515
    Last modified:November 1, 1995 - v1
    Checksum:i7CD3A0F9F2A7B539
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L40958 mRNA. Translation: AAA63907.1.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    L40958 mRNA. Translation: AAA63907.1 .

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1CIV X-ray 2.80 A 69-453 [» ]
    ProteinModelPortali P46489.
    SMRi P46489. Positions 80-453.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Miscellaneous databases

    EvolutionaryTracei P46489.

    Family and domain databases

    Gene3Di 3.40.50.720. 1 hit.
    3.90.110.10. 1 hit.
    InterProi IPR022383. Lactate/malate_DH_C.
    IPR001236. Lactate/malate_DH_N.
    IPR015955. Lactate_DH/Glyco_Ohase_4_C.
    IPR001252. Malate_DH_AS.
    IPR011273. Malate_DH_NADP-dep_pln.
    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 ]
    SUPFAMi SSF56327. SSF56327. 1 hit.
    TIGRFAMsi TIGR01757. Malate-DH_plant. 1 hit.
    TIGR01759. MalateDH-SF1. 1 hit.
    PROSITEi PS00068. MDH. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Trevanion S.J., Ashton A.R.
      Submitted (APR-1994) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Tissue: Leaf.
    2. "Crystallization and preliminary crystallographic studies of chloroplast NADP-dependent malate dehydrogenase from Flaveria bidentis."
      Macpherson K.H., Ashton A.R., Carr P.D., Trevanion S.J., Verger D., Ollis D.L.
      Acta Crystallogr. D 54:654-656(1998) [PubMed] [Europe PMC] [Abstract]
      Cited for: CRYSTALLIZATION.
    3. "Chloroplast NADP-malate dehydrogenase: structural basis of light-dependent regulation of activity by thiol oxidation and reduction."
      Carr P.D., Verger D., Ashton A.R., Ollis D.L.
      Structure 7:461-475(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) IN COMPLEX WITH NADP, SUBUNIT.
      Tissue: Leaf.

    Entry informationi

    Entry nameiMDHP_FLABI
    AccessioniPrimary (citable) accession number: P46489
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1995
    Last sequence update: November 1, 1995
    Last modified: October 1, 2014
    This is version 103 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

    3D-structure

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3