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Protein

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

Gene

menD

Organism
Nocardioides sp. (strain ATCC BAA-499 / JS614)
Status
Reviewed-Annotation score: -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: 1,4-dihydroxy-2-naphthoate biosynthesis

This protein is involved in step 2 of the subpathway that synthesizes 1,4-dihydroxy-2-naphthoate from chorismate.UniRule annotation
Proteins known to be involved in the 7 steps of the subpathway in this organism are:
  1. no protein annotated in this organism
  2. 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (menD)
  3. no protein annotated in this organism
  4. o-succinylbenzoate synthase (menC)
  5. no protein annotated in this organism
  6. 1,4-dihydroxy-2-naphthoyl-CoA synthase (menB), 1,4-dihydroxy-2-naphthoyl-CoA synthase (menB)
  7. no protein annotated in this organism
This subpathway is part of the pathway 1,4-dihydroxy-2-naphthoate biosynthesis, which is itself part of Quinol/quinone metabolism.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes 1,4-dihydroxy-2-naphthoate from chorismate, the pathway 1,4-dihydroxy-2-naphthoate biosynthesis and in Quinol/quinone metabolism.

Pathwayi: menaquinone biosynthesis

This protein is involved in the pathway menaquinone biosynthesis, which is part of Quinol/quinone metabolism.UniRule annotation
View all proteins of this organism that are known to be involved in the pathway menaquinone biosynthesis and in Quinol/quinone metabolism.

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionTransferase
Biological processMenaquinone biosynthesis
LigandMagnesium, 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:Noca_0510
OrganismiNocardioides sp. (strain ATCC BAA-499 / JS614)
Taxonomic identifieri196162 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaPropionibacterialesNocardioidaceaeNocardioides
Proteomesi
  • UP000000640 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003417911 – 5372-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseAdd BLAST537

Proteomic databases

PRIDEiA1SE17

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi196162.Noca_0510

Structurei

3D structure databases

ProteinModelPortaliA1SE17
SMRiA1SE17
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiENOG4105C4A Bacteria
COG1165 LUCA
HOGENOMiHOG000218359
KOiK02551
OMAiIFRILPG
OrthoDBiPOG091H058U

Family and domain databases

HAMAPiMF_01659 MenD, 1 hit
InterProiView protein in InterPro
IPR004433 MenaQ_synth_MenD
IPR029061 THDP-binding
IPR012001 Thiamin_PyroP_enz_TPP-bd_dom
IPR011766 TPP_enzyme-bd_C
PANTHERiPTHR42916 PTHR42916, 1 hit
PfamiView protein in Pfam
PF02775 TPP_enzyme_C, 1 hit
PF02776 TPP_enzyme_N, 1 hit
PIRSFiPIRSF004983 MenD, 1 hit
SUPFAMiSSF52518 SSF52518, 2 hits
TIGRFAMsiTIGR00173 menD, 1 hit

Sequencei

Sequence statusi: Complete.

A1SE17-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTAPEPAPES ATATARRILA ALVEAGVTEI VVAPGSRNAP LSFAAYDAAA
60 70 80 90 100
AGLVRLHTRL DERTAGFLAL GLTRSGRRAA VVCTSGTAVA NLHPAVLEAA
110 120 130 140 150
HAGVDLVVVS ADRPARLRGT GANQTTDQVG IFGPLVPTQD ASGPVELLTA
160 170 180 190 200
GPVHLNVPLE EPLVPDDRWL PDVVPGEPAH RVIPASLTVL ARGPRTVVVA
210 220 230 240 250
GDDAGPRVRV LAEQAGWPLL AEPSSGSRTG DNAIRTYRLL LDGDLGARVE
260 270 280 290 300
RVVVGGHPTL SRPVSRLLAR PDVEVVDLGA WGVWSERPFP VHSRILGGVG
310 320 330 340 350
VDAPVDAADG TADDTDWLEE WRTADRAVSA RLDALLAAEP GLTPHEVAGA
360 370 380 390 400
VARALPAGGL LVVGASSPIR DLDLMVPRYD VGARRKVVAN RGLAGIDGTI
410 420 430 440 450
STAVGAALGR PRSTRALTLM GDVTFLHDAG ALVIGPGEAV PDLTIVVVND
460 470 480 490 500
DGGSIFAMLE QGAAEYADQY DRLFGTPHRV DLASLCAATR TPHWRVDSLA
510 520 530
ELEHALASPA GGIEVVEAVV RRDNRRDLDE RIRALRP
Length:537
Mass (Da):56,034
Last modified:February 6, 2007 - v1
Checksum:iC22AECCB6674FCB4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000509 Genomic DNA Translation: ABL80052.1
RefSeqiWP_011754002.1, NC_008699.1

Genome annotation databases

EnsemblBacteriaiABL80052; ABL80052; Noca_0510
KEGGinca:Noca_0510

Similar proteinsi

Entry informationi

Entry nameiMEND_NOCSJ
AccessioniPrimary (citable) accession number: A1SE17
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: February 6, 2007
Last modified: May 23, 2018
This is version 75 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

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