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P17606

- MDHP1_SORBI

UniProt

P17606 - MDHP1_SORBI

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Protein
Malate dehydrogenase [NADP] 1, chloroplastic
Gene
N/A
Organism
Sorghum bicolor (Sorghum) (Sorghum vulgare)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

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
Sitei64 – 641Activation of NADP-MDH
Sitei69 – 691Activation of NADP-MDH
Binding sitei174 – 1741Substrate By similarity
Binding sitei180 – 1801Substrate By similarity
Binding sitei187 – 1871NADP By similarity
Binding sitei194 – 1941NADP By similarity
Binding sitei213 – 2131Substrate By similarity
Binding sitei244 – 2441Substrate By similarity
Active sitei269 – 2691Proton acceptor By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi93 – 997NADP By similarity
Nucleotide bindingi211 – 2133NADP By similarity

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
Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Ligandi

NADP

Enzyme and pathway databases

BRENDAi1.1.1.82. 5768.

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenase [NADP] 1, chloroplastic (EC:1.1.1.82)
Alternative name(s):
NADP-MDH-1
OrganismiSorghum bicolor (Sorghum) (Sorghum vulgare)
Taxonomic identifieri4558 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaLiliopsidaPoalesPoaceaePACMAD cladePanicoideaeAndropogoneaeSorghum

Organism-specific databases

GrameneiP17606.

Subcellular locationi

GO - Cellular componenti

  1. chloroplast Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Chloroplast, Plastid

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 4040Chloroplast By similarity
Add
BLAST
Chaini41 – 429389Malate dehydrogenase [NADP] 1, chloroplastic
PRO_0000018647Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi64 ↔ 69In oxidized inactive NAD-MDH
Disulfide bondi405 ↔ 417In oxidized inactive NAD-MDH

Keywords - PTMi

Disulfide bond

Interactioni

Subunit structurei

Homodimer.1 Publication

Structurei

Secondary structure

Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi66 – 683
Beta strandi87 – 926
Turni93 – 953
Helixi97 – 10711
Turni108 – 1125
Beta strandi118 – 1236
Helixi126 – 1283
Helixi129 – 14012
Beta strandi147 – 1548
Helixi156 – 1594
Turni160 – 1623
Beta strandi164 – 1685
Helixi180 – 20122
Beta strandi207 – 2104
Beta strandi212 – 2143
Helixi215 – 22410
Helixi231 – 2333
Beta strandi234 – 2363
Helixi239 – 25214
Helixi257 – 2593
Beta strandi264 – 2674
Beta strandi274 – 2763
Helixi287 – 2893
Helixi294 – 30613
Helixi308 – 3158
Helixi321 – 33616
Beta strandi345 – 3506
Beta strandi360 – 36910
Beta strandi372 – 3743
Helixi386 – 40520
Helixi407 – 4104
Beta strandi412 – 4143

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
7MDHX-ray2.40A/B/C/D55-429[»]
ProteinModelPortaliP17606.
SMRiP17606. Positions 61-426.

Miscellaneous databases

EvolutionaryTraceiP17606.

Family & Domainsi

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000220953.
KOiK00051.
OMAiFPDYRHA.

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.

P17606-1 [UniParc]FASTAAdd to Basket

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MGLSTAYSPV GSHLAPAPLG HRRSAQLHRP RRALLATVRC SVDAAKQVQD    50
GVATAEAPAT RKDCFGVFCT TYDLKAEDKT KSWKKLVNIA VSGAAGMISN 100
HLLFKLASGE VFGQDQPIAL KLLGSERSFQ ALEGVAMELE DSLYPLLREV 150
SIGIDPYEVF EDVDWALLIG AKPRGPGMER AALLDINGQI FADQGKALNA 200
VASKNVKVLV VGNPCNTNAL ICLKNAPDIP AKNFHALTRL DENRAKCQLA 250
LKAGVFYDKV SNVTIWGNHS TTQVPDFLNA KIDGRPVKEV IKDTKWLEEE 300
FTITVQKRGG ALIQKWGRSS AASTAVSIAD AIKSLVTPTP EGDWFSTGVY 350
TTGNPYGIAE DIVFSMPCRS KGDGDYELAT DVSMDDFLWE RIKKSEAELL 400
AEKKCVAHLT GEGNAYCDVP EDTMLPGEV 429
Length:429
Mass (Da):46,455
Last modified:August 1, 1990 - v1
Checksum:i17D9E0A34A67F1FF
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti226 – 2283APD → PPH in CAA37531. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M31965 Genomic DNA. Translation: AAA34047.1.
X53453 mRNA. Translation: CAA37531.1.
PIRiJH0151.
S13588.
RefSeqiXP_002445670.1. XM_002445625.1.
UniGeneiSbi.76.

Genome annotation databases

GeneIDi8057802.
KEGGisbi:SORBI_07g023920.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
M31965 Genomic DNA. Translation: AAA34047.1 .
X53453 mRNA. Translation: CAA37531.1 .
PIRi JH0151.
S13588.
RefSeqi XP_002445670.1. XM_002445625.1.
UniGenei Sbi.76.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
7MDH X-ray 2.40 A/B/C/D 55-429 [» ]
ProteinModelPortali P17606.
SMRi P17606. Positions 61-426.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 8057802.
KEGGi sbi:SORBI_07g023920.

Organism-specific databases

Gramenei P17606.

Phylogenomic databases

eggNOGi COG0039.
HOGENOMi HOG000220953.
KOi K00051.
OMAi FPDYRHA.

Enzyme and pathway databases

BRENDAi 1.1.1.82. 5768.

Miscellaneous databases

EvolutionaryTracei P17606.

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. "Structure and characterization of the Sorghum vulgare gene encoding NADP-malate dehydrogenase."
    Luchetta P., Cretin C., Gadal P.
    Gene 89:171-177(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: cv. INRA 450.
    Tissue: Leaf.
  2. "Primary structure of sorghum malate dehydrogenase (NADP) deduced from cDNA sequence. Homology with malate dehydrogenase (NAD)."
    Cretin C., Luchetta P., Joly C., Decottignies P., Lepiniec L., Gadal P., Sallantin M., Huet J.-C., Pernollet J.-C.
    Eur. J. Biochem. 192:299-303(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: cv. Tamaran FNK 140.
    Tissue: Leaf.
  3. "Structural basis for light activation of a chloroplast enzyme: the structure of sorghum NADP-malate dehydrogenase in its oxidized form."
    Johansson K., Ramaswamy S., Saarinen M., Lemaire-Chamley M., Issakidis-Bourguet E., Miginiac-Maslow M., Eklund H.
    Biochemistry 38:4319-4326(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS), SUBUNIT.

Entry informationi

Entry nameiMDHP1_SORBI
AccessioniPrimary (citable) accession number: P17606
Secondary accession number(s): P19796
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1990
Last sequence update: August 1, 1990
Last modified: May 14, 2014
This is version 118 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

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