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Protein

2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase

Gene

menD

Organism
Corynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the thiamine diphosphate-dependent decarboxylation of 2-oxoglutarate and the subsequent addition of the resulting succinic semialdehyde-thiamine pyrophosphate anion to isochorismate to yield 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate (SEPHCHC).UniRule annotation

Catalytic activityi

Isochorismate + 2-oxoglutarate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO2.UniRule annotation

Cofactori

Protein has several cofactor binding sites:
  • Mg2+UniRule annotation, Mn2+UniRule annotation
  • thiamine diphosphateUniRule annotationNote: Binds 1 thiamine pyrophosphate per subunit.UniRule annotation

Pathwayi

GO - Molecular functioni

  1. 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity Source: UniProtKB-HAMAP
  2. magnesium ion binding Source: UniProtKB-HAMAP
  3. manganese ion binding Source: UniProtKB-HAMAP
  4. thiamine pyrophosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. menaquinone biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Menaquinone biosynthesis

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, Thiamine pyrophosphate

Enzyme and pathway databases

UniPathwayiUPA00079.
UPA01057; UER00164.

Names & Taxonomyi

Protein namesi
Recommended name:
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseUniRule annotation (EC:2.2.1.9UniRule annotation)
Short name:
SEPHCHC synthaseUniRule annotation
Alternative name(s):
Menaquinone biosynthesis protein MenDUniRule annotation
Gene namesi
Name:menDUniRule annotation
Ordered Locus Names:DIP0423
OrganismiCorynebacterium diphtheriae (strain ATCC 700971 / NCTC 13129 / Biotype gravis)
Taxonomic identifieri257309 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeCorynebacteriaceaeCorynebacterium
ProteomesiUP000002198: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 5095092-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthasePRO_0000341726Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi257309.DIP0423.

Structurei

3D structure databases

ProteinModelPortaliQ6NJH8.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the TPP enzyme family. MenD subfamily.UniRule annotation

Phylogenomic databases

eggNOGiCOG1165.
HOGENOMiHOG000218359.
KOiK02551.
OMAiWRSAVCR.
OrthoDBiEOG6NWBQW.

Family and domain databases

Gene3Di3.40.50.970. 2 hits.
HAMAPiMF_01659. MenD.
InterProiIPR004433. MenaQ_synth_MenD.
IPR029061. THDP-binding.
IPR012001. Thiamin_PyroP_enz_TPP-bd_dom.
IPR011766. TPP_enzyme-bd_C.
[Graphical view]
PfamiPF02775. TPP_enzyme_C. 1 hit.
PF02776. TPP_enzyme_N. 1 hit.
[Graphical view]
PIRSFiPIRSF004983. MenD. 1 hit.
SUPFAMiSSF52518. SSF52518. 2 hits.
TIGRFAMsiTIGR00173. menD. 1 hit.

Sequencei

Sequence statusi: Complete.

Q6NJH8-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTSSPELARA VAATLARHVT DVVICPGSRN SPLSLELIAR DDIRVHTRID
60 70 80 90 100
ERSAAFLALG LARSSKRHVA VVTTSGTAVA NCAPAMIEAA YSHTPLIMVS
110 120 130 140 150
ADRPERLHGT GANQTIEQRG IFNVVDTDHV VDITDLNSIS FARNVIHINV
160 170 180 190 200
ALDVPLVDVL PEVGDPVERV REVIEVDHGE VVLNLNERIL VVAGDEAWEV
210 220 230 240 250
PGLEDVPTIA EPSAPAPYHP VHPLAAQIFA HKEIKPEHIV VVGHPTLHRA
260 270 280 290 300
VLSLLADVPV TVLTKTDTIT GNPQAVGSRV KVTGELDKRW LQICEDASTL
310 320 330 340 350
CADRVKEVLE GHGFTGLHVA AAVADTMAVG DTLFLGASNP VRDASLVGMP
360 370 380 390 400
LGGVDIFAAR GAAGIDGTVS QAVGVALDVQ HRDATAIRAD RTVALMGDVT
410 420 430 440 450
FLHDVGGLLG ARPENLTIVV ANDDGCGIFE TLEIGAPEFR PSFEQAFGTP
460 470 480 490 500
HGVHIEAIAQ AYGVNYLRAE TLPELIEALI DTTDSAGFNI IEAVTTRSTR

RDIDKALTL
Length:509
Mass (Da):54,051
Last modified:July 5, 2004 - v1
Checksum:iBDD2B2DD303A2068
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248355 Genomic DNA. Translation: CAE48927.1.
RefSeqiNP_938804.1. NC_002935.2.
WP_010934292.1. NC_002935.2.

Genome annotation databases

EnsemblBacteriaiCAE48927; CAE48927; DIP0423.
GeneIDi2649096.
KEGGicdi:DIP0423.
PATRICi21482003. VBICorDip47633_0406.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX248355 Genomic DNA. Translation: CAE48927.1.
RefSeqiNP_938804.1. NC_002935.2.
WP_010934292.1. NC_002935.2.

3D structure databases

ProteinModelPortaliQ6NJH8.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi257309.DIP0423.

Protocols and materials databases

DNASUi2649096.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiCAE48927; CAE48927; DIP0423.
GeneIDi2649096.
KEGGicdi:DIP0423.
PATRICi21482003. VBICorDip47633_0406.

Phylogenomic databases

eggNOGiCOG1165.
HOGENOMiHOG000218359.
KOiK02551.
OMAiWRSAVCR.
OrthoDBiEOG6NWBQW.

Enzyme and pathway databases

UniPathwayiUPA00079.
UPA01057; UER00164.

Family and domain databases

Gene3Di3.40.50.970. 2 hits.
HAMAPiMF_01659. MenD.
InterProiIPR004433. MenaQ_synth_MenD.
IPR029061. THDP-binding.
IPR012001. Thiamin_PyroP_enz_TPP-bd_dom.
IPR011766. TPP_enzyme-bd_C.
[Graphical view]
PfamiPF02775. TPP_enzyme_C. 1 hit.
PF02776. TPP_enzyme_N. 1 hit.
[Graphical view]
PIRSFiPIRSF004983. MenD. 1 hit.
SUPFAMiSSF52518. SSF52518. 2 hits.
TIGRFAMsiTIGR00173. menD. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 700971 / NCTC 13129 / Biotype gravis.

Entry informationi

Entry nameiMEND_CORDI
AccessioniPrimary (citable) accession number: Q6NJH8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: July 5, 2004
Last modified: February 4, 2015
This is version 79 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

Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  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.