C5CSI5 (MDH_VARPS) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Malate dehydrogenase
EC=1.1.1.37

Gene names

Name:	mdh
Ordered Locus Names:	Vapar_1432

Organism

Variovorax paradoxus (strain S110) [Complete proteome] [HAMAP]

Taxonomic identifier

543728 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Betaproteobacteria › Burkholderiales › Comamonadaceae › Variovorax › Variovorax paradoxus

Protein attributes

Sequence length	328 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the reversible oxidation of malate to oxaloacetate By similarity. HAMAP-Rule MF_01517
Catalytic activity	(S)-malate + NAD+ = oxaloacetate + NADH. HAMAP-Rule MF_01517
Subunit structure	Homodimer By similarity.
Sequence similarities	Belongs to the LDH/MDH superfamily. MDH type 2 family.

Ontologies

Keywords
Biological process	Tricarboxylic acid cycle
Ligand	NAD
Molecular function	Oxidoreductase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	cellular carbohydrate metabolic process Inferred from electronic annotation. Source: InterPro malate metabolic process Inferred from electronic annotation. Source: InterPro tricarboxylic acid cycle Inferred from electronic annotation. Source: HAMAP
Molecular_function	L-malate dehydrogenase activity Inferred from electronic annotation. Source: HAMAP nucleotide binding Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 328	328	Malate dehydrogenase HAMAP-Rule MF_01517		PRO_1000215357
Regions
	Nucleotide binding	12 – 18	7	NAD By similarity
	Nucleotide binding	132 – 134	3	NAD By similarity
Sites
	Active site	190	1	Proton acceptor By similarity
	Binding site	95	1	Substrate By similarity
	Binding site	101	1	Substrate By similarity
	Binding site	108	1	NAD By similarity
	Binding site	115	1	NAD By similarity
	Binding site	134	1	Substrate By similarity
	Binding site	165	1	Substrate By similarity

Sequences

	Sequence		Length	Mass (Da)
	C5CSI5 [UniParc]. Last modified July 28, 2009. Version 1. Checksum: 93C6D623C87D9062	FASTA	328	35,144
	10 20 30 40 50 60 MSKKPVRVAV TGAAGQIGYA LLFRIASGEM LGKDQPVILQ LLEIPDEKAQ KALKGVMMEL 70 80 90 100 110 120 DDCAFPLLAG MEAHGDPMTA FKDADYALLV GSRPRGPGME RAELLAVNGA IFTAQGKALN 130 140 150 160 170 180 AVASRNVKVL VVGNPANTNA YIAMKSAPDL PRKNFTAMLR LDHNRAASQI AAKTGKAVAD 190 200 210 220 230 240 IEKLVVWGNH SPTMYADYRF ATIKGESVAK MINDQEWNAN TFLPTVGKRG AAIIEARGLS 250 260 270 280 290 300 SAASAANAAI DHMRDWALGT NGKWVTMGIP SDGQYGIPKD TMFGFPVTCE NGEYKLVEGL 310 320 EIDAFSQERI NKTLEELQGE QAGVAHLI

References

[1]

"Complete genome sequence of the metabolically versatile plant growth-promoting endophyte, Variovorax paradoxus S110." Han J.I., Choi H.K., Lee S.W., Orwin P.M., Kim J., Laroe S.L., Kim T.G., O'Neil J., Leadbetter J.R., Lee S.Y., Hur C.G., Spain J.C., Ovchinnikova G., Goodwin L., Han C. J. Bacteriol. 193:1183-1190(2011) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: S110.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP001635 Genomic DNA. Translation: ACS18083.1.
RefSeq	YP_002943349.1. NC_012791.1.
3D structure databases
ProteinModelPortal	C5CSI5.
ModBase	Search...
Protein-protein interaction databases
STRING	543728.Vapar_1432.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ACS18083; ACS18083; Vapar_1432.
GeneID	7971260.
KEGG	vap:Vapar_1432.
PATRIC	24003292. VBIVarPar36677_1453.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG0039.
HOGENOM	HOG000220953.
KO	K00024.
OMA	AINDHAA.
ProtClustDB	PRK05442.
Family and domain databases
Gene3D	3.40.50.720. 1 hit. 3.90.110.10. 1 hit.
HAMAP	MF_01517. Malate_dehydrog_2.
InterPro	IPR001557. L-lactate/malate_DH. IPR022383. Lactate/malate_DH_C. IPR001236. Lactate/malate_DH_N. IPR015955. Lactate_DH/Glyco_Ohase_4_C. IPR010945. Malate_DH_type2. IPR016040. NAD(P)-bd_dom. [Graphical view]
PANTHER	PTHR23382. PTHR23382. 1 hit.
Pfam	PF02866. Ldh_1_C. 1 hit. PF00056. Ldh_1_N. 1 hit. [Graphical view]
PIRSF	PIRSF000102. Lac_mal_DH. 1 hit.
SUPFAM	SSF56327. Lactate_DH/Glyco_hydro_4_C. 1 hit.
TIGRFAMs	TIGR01759. MalateDH-SF1. 1 hit.
PROSITE	PS00068. MDH. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

MDH_VARPS

Accession

Primary (citable) accession number: C5CSI5

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 22, 2009
Last sequence update:	July 28, 2009
Last modified:	April 3, 2013
This is version 30 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program