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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)DescriptionActionsGraphical viewLength
Binding sitei34NADUniRule annotation1
Binding sitei81SubstrateUniRule annotation1
Binding sitei87SubstrateUniRule annotation1
Binding sitei94NADUniRule annotation1
Binding sitei119SubstrateUniRule annotation1
Binding sitei153SubstrateUniRule annotation1
Active sitei177Proton acceptorUniRule annotation1
Binding sitei227NADUniRule annotation1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi7 – 13NADUniRule annotation7
Nucleotide bindingi117 – 119NADUniRule annotation3

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Tricarboxylic acid cycle

Keywords - Ligandi

NAD

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)DescriptionActionsGraphical viewLength
ChainiPRO_00001133331 – 310Malate dehydrogenaseAdd BLAST310

Proteomic databases

PRIDEiQ8DEC2.

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi216895.VV1_0673.

Structurei

Secondary structure

1310
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi2 – 6Combined sources5
Turni7 – 9Combined sources3
Helixi11 – 23Combined sources13
Beta strandi29 – 36Combined sources8
Helixi39 – 47Combined sources9
Beta strandi54 – 61Combined sources8
Helixi64 – 67Combined sources4
Beta strandi71 – 75Combined sources5
Helixi88 – 108Combined sources21
Beta strandi112 – 116Combined sources5
Helixi121 – 134Combined sources14
Beta strandi142 – 145Combined sources4
Helixi148 – 161Combined sources14
Turni166 – 168Combined sources3
Beta strandi173 – 175Combined sources3
Helixi179 – 181Combined sources3
Beta strandi182 – 184Combined sources3
Helixi186 – 188Combined sources3
Helixi196 – 207Combined sources12
Helixi209 – 216Combined sources8
Turni217 – 219Combined sources3
Helixi225 – 242Combined sources18
Beta strandi247 – 254Combined sources8
Beta strandi261 – 270Combined sources10
Beta strandi273 – 277Combined sources5
Helixi285 – 308Combined sources24

3D structure databases

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

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C80. Bacteria.
COG0039. LUCA.
HOGENOMiHOG000213792.
KOiK00024.
OMAiVEVKGFA.
OrthoDBiPOG091H036H.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
HAMAPiMF_01516. Malate_dehydrog_1. 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.
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.
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. 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
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4E0BX-ray2.17A/B/C/D1-310[»]
ProteinModelPortaliQ8DEC2.
SMRiQ8DEC2.
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

eggNOGiENOG4105C80. Bacteria.
COG0039. LUCA.
HOGENOMiHOG000213792.
KOiK00024.
OMAiVEVKGFA.
OrthoDBiPOG091H036H.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
3.90.110.10. 1 hit.
HAMAPiMF_01516. Malate_dehydrog_1. 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.
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.
SUPFAMiSSF51735. SSF51735. 1 hit.
SSF56327. SSF56327. 1 hit.
TIGRFAMsiTIGR01772. MDH_euk_gproteo. 1 hit.
PROSITEiPS00068. MDH. 1 hit.
[Graphical view]
ProtoNetiSearch...

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: November 2, 2016
This is version 98 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

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 one 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.