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Protein

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

Gene

menD

Organism
Rhodococcus opacus (strain B4)
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), 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:ROP_16710
OrganismiRhodococcus opacus (strain B4)
Taxonomic identifieri632772 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaCorynebacterialesNocardiaceaeRhodococcus
Proteomesi
  • UP000002212 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_10001870871 – 5412-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseAdd BLAST541

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi632772.ROP_16710

Structurei

3D structure databases

ProteinModelPortaliC1AYZ0
SMRiC1AYZ0
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, 2 hits
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.

C1AYZ0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNPSTAQATA VVDELVRGGV REVVLCPGSR NAPLAFALQA ADLEGRLRLH
60 70 80 90 100
MRIDERTAGF LALGLAVAGK RPVPIVMTSG TAVANLGPAV LEANYARVPL
110 120 130 140 150
VVLSANRPYE MLGTGANQTI EQLGLFGSQV RATISLGLAE DDAGQNSQWR
160 170 180 190 200
SAVCRVLAAA RGTRSGNAGP VHFDIPLREP LVPDVHAQGP VPQGRPGGAA
210 220 230 240 250
WTTTQHATLD VAMDLDITPD TIVISGHGSA LRPELAGLPT VAEPTAPLHG
260 270 280 290 300
IPVHPMALPQ LKPRQAVITG RPTLHRSVSK VLADPAVAVY ALTTGPRWPD
310 320 330 340 350
VSGNVLATGT RAVVTGAPDR AWINRCRTLS EHTDKAVRAQ LAAHPKATGL
360 370 380 390 400
HVAAAVMDAL TDGDQLLLGA SNPVRDAALV SYPAPKVRVL SNRGVAGIDG
410 420 430 440 450
TVSAAVGAAL AYEEGRTVAL LGDLTFLHDA SGLLIGSGEP RPRDLTIVVA
460 470 480 490 500
NDDGGGIFEL LEQGDPQYAG VFERVFGTPH GMDLAALCAA YRVEHHLVGL
510 520 530 540
GELSTLLSTP DAPGDRGIRV LEVTTERSGL RELHAAVRAQ L
Length:541
Mass (Da):56,359
Last modified:May 26, 2009 - v1
Checksum:i165DC828A11DAAE1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP011115 Genomic DNA Translation: BAH49918.1
RefSeqiWP_012688881.1, NC_012522.1

Genome annotation databases

EnsemblBacteriaiBAH49918; BAH49918; ROP_16710
KEGGirop:ROP_16710
PATRICifig|632772.20.peg.1752

Entry informationi

Entry nameiMEND_RHOOB
AccessioniPrimary (citable) accession number: C1AYZ0
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 28, 2009
Last sequence update: May 26, 2009
Last modified: April 25, 2018
This is version 54 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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