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Protein

Malate dehydrogenase

Gene

mdh

Organism
Vibrio vulnificus (strain CMCP6)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the reversible oxidation of malate to oxaloacetate.UniRule annotation

Catalytic activityi

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

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei34 – 341NADUniRule annotation
Binding sitei81 – 811SubstrateUniRule annotation
Binding sitei87 – 871SubstrateUniRule annotation
Binding sitei94 – 941NADUniRule annotation
Binding sitei119 – 1191SubstrateUniRule annotation
Binding sitei153 – 1531SubstrateUniRule annotation
Active sitei177 – 1771Proton acceptorUniRule annotation
Binding sitei227 – 2271NADUniRule annotation

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi7 – 137NADUniRule annotation
Nucleotide bindingi117 – 1193NADUniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

Enzyme and pathway databases

BioCyciVVUL216895:GIYM-626-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Malate dehydrogenaseUniRule annotation (EC:1.1.1.37UniRule annotation)
Gene namesi
Name:mdhUniRule annotation
Ordered Locus Names:VV1_0673
OrganismiVibrio vulnificus (strain CMCP6)
Taxonomic identifieri216895 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 310310Malate dehydrogenasePRO_0000113333Add
BLAST

Proteomic databases

PRIDEiQ8DEC2.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi216895.VV1_0673.

Structurei

Secondary structure

1
310
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 65Combined sources
Turni7 – 93Combined sources
Helixi11 – 2313Combined sources
Beta strandi29 – 368Combined sources
Helixi39 – 479Combined sources
Beta strandi54 – 618Combined sources
Helixi64 – 674Combined sources
Beta strandi71 – 755Combined sources
Helixi88 – 10821Combined sources
Beta strandi112 – 1165Combined sources
Helixi121 – 13414Combined sources
Beta strandi142 – 1454Combined sources
Helixi148 – 16114Combined sources
Turni166 – 1683Combined sources
Beta strandi173 – 1753Combined sources
Helixi179 – 1813Combined sources
Beta strandi182 – 1843Combined sources
Helixi186 – 1883Combined sources
Helixi196 – 20712Combined sources
Helixi209 – 2168Combined sources
Turni217 – 2193Combined sources
Helixi225 – 24218Combined sources
Beta strandi247 – 2548Combined sources
Beta strandi261 – 27010Combined sources
Beta strandi273 – 2775Combined sources
Helixi285 – 30824Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4E0BX-ray2.17A/B/C/D1-310[»]
ProteinModelPortaliQ8DEC2.
SMRiQ8DEC2. Positions 1-309.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the LDH/MDH superfamily. MDH type 1 family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000213792.
KOiK00024.
OMAiVEVKGFA.
OrthoDBiEOG6091FG.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
HAMAPiMF_01516. Malate_dehydrog_1.
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.
IPR010097. Malate_DH_type1.
IPR023958. Malate_DH_type1_bac.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR11540. PTHR11540. 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.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q8DEC2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVAVIGAAG GIGQALALLL KNRLPAGSDL ALYDIAPVTP GVAADLSHIP
60 70 80 90 100
THVSIKGYAG EDPTPALEGA DVVLISAGVA RKPGMDRADL FNVNAGIVKS
110 120 130 140 150
LAERIAVVCP NACIGIITNP VNTTVPIAAE VLKKAGVYDK RKLFGVTTLD
160 170 180 190 200
VIRSETFVAE LKGQDPGEVR VPVIGGHSGV TILPLLSQVE GVEFSDEEIA
210 220 230 240 250
ALTKRIQNAG TEVVEAKAGG GSATLSMGQA ACRFGLALVK ALQGEEVIEY
260 270 280 290 300
AYVEGNGEHA SFFAQPVKLG KEGVEEILPY GELSDFEKAA LDGMLETLNS
310
DIQIGVDFVK
Length:310
Mass (Da):32,168
Last modified:March 1, 2003 - v1
Checksum:iA9988AA1FF62927A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016795 Genomic DNA. Translation: AAO09185.1.
RefSeqiWP_011078751.1. NC_004459.3.

Genome annotation databases

EnsemblBacteriaiAAO09185; AAO09185; VV1_0673.
KEGGivvu:VV1_0673.
PATRICi20158170. VBIVibVul94426_0655.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE016795 Genomic DNA. Translation: AAO09185.1.
RefSeqiWP_011078751.1. NC_004459.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4E0BX-ray2.17A/B/C/D1-310[»]
ProteinModelPortaliQ8DEC2.
SMRiQ8DEC2. Positions 1-309.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi216895.VV1_0673.

Proteomic databases

PRIDEiQ8DEC2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAO09185; AAO09185; VV1_0673.
KEGGivvu:VV1_0673.
PATRICi20158170. VBIVibVul94426_0655.

Phylogenomic databases

eggNOGiCOG0039.
HOGENOMiHOG000213792.
KOiK00024.
OMAiVEVKGFA.
OrthoDBiEOG6091FG.

Enzyme and pathway databases

BioCyciVVUL216895:GIYM-626-MONOMER.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
HAMAPiMF_01516. Malate_dehydrog_1.
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.
IPR010097. Malate_DH_type1.
IPR023958. Malate_DH_type1_bac.
IPR016040. NAD(P)-bd_dom.
[Graphical view]
PANTHERiPTHR11540. PTHR11540. 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.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "Complete genome sequence of Vibrio vulnificus CMCP6."
    Rhee J.H., Kim S.Y., Chung S.S., Kim J.J., Moon Y.H., Jeong H., Choy H.E.
    Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: CMCP6.

Entry informationi

Entry nameiMDH_VIBVU
AccessioniPrimary (citable) accession number: Q8DEC2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 7, 2004
Last sequence update: March 1, 2003
Last modified: July 22, 2015
This is version 91 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic 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

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.