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Protein

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

Gene

menD

Organism
Renibacterium salmoninarum (strain ATCC 33209 / DSM 20767 / JCM 11484 / NBRC 15589 / NCIMB 2235)
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:

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), o-succinylbenzoate synthase (menC)
  5. no protein annotated in this organism
  6. 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

UniPathwayi
UPA00079

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:RSal33209_2643
OrganismiRenibacterium salmoninarum (strain ATCC 33209 / DSM 20767 / JCM 11484 / NBRC 15589 / NCIMB 2235)
Taxonomic identifieri288705 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaMicrococcalesMicrococcaceaeRenibacterium
Proteomesi
  • UP000002007 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003418131 – 5542-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseAdd BLAST554

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi288705.RSal33209_2643

Structurei

3D structure databases

ProteinModelPortaliA9WRT6
SMRiA9WRT6
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
PANTHERiPTHR42916 PTHR42916, 1 hit
PfamiView protein in Pfam
PF02776 TPP_enzyme_N, 1 hit
PIRSFiPIRSF004983 MenD, 1 hit
SUPFAMiSSF52518 SSF52518, 2 hits
TIGRFAMsiTIGR00173 menD, 1 hit

Sequencei

Sequence statusi: Complete.

A9WRT6-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MVNASVTGIG SMESARRVVE ALIRGGVQHV VVSPGSRNAP LVYALAEAQQ
60 70 80 90 100
AIHVVVRIDE RSAGFTALGL AIGSSSPVAV LTTSGTAVGN LLPAVMEADH
110 120 130 140 150
AGVPLLVLSA DRPEELRGTG ANQTTDQIDL FGSHVRFAAD VAAGDLPEPA
160 170 180 190 200
VRTGLDAALG RLDGVATGPV QLNFAFRDPL TPALDGSDFR PLKSSQPVDA
210 220 230 240 250
AIETIIPQHQ ESEHRYQTVV LAGHGAGPQA ELFARRHGLP LLAEPSSNAR
260 270 280 290 300
FGPNAVGPYR LLLEHFEALI ERVVIFGRPT LSRPVAALMN RADLPRALYL
310 320 330 340 350
PRPATWFEEG KRSEQIISDW AALSEFTGSG SASWLEIWLA AQIQAEAALD
360 370 380 390 400
DALGEELSGL RLARELWGSS ENLVIGSSNP IRDADLAGRP RSESPRVHAN
410 420 430 440 450
RGLAGIDGTI STATGIALAT ARPTRLLVGD LTFLHDVGGL LLPRGEQVPD
460 470 480 490 500
LQIVVLNDSG GGIFTLLEHG TLGDEPAYQA AVERYFGTAH DAELASLAAA
510 520 530 540 550
YGLEYQLVSS TEQLVEMLQA PVSGRSVLEI RTERTALRGL HDRVRAAISA

ALTI
Length:554
Mass (Da):58,575
Last modified:February 5, 2008 - v1
Checksum:iA63C9EE52A14E522
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000910 Genomic DNA Translation: ABY24368.1

Genome annotation databases

EnsemblBacteriaiABY24368; ABY24368; RSal33209_2643
KEGGirsa:RSal33209_2643

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000910 Genomic DNA Translation: ABY24368.1

3D structure databases

ProteinModelPortaliA9WRT6
SMRiA9WRT6
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi288705.RSal33209_2643

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABY24368; ABY24368; RSal33209_2643
KEGGirsa:RSal33209_2643

Phylogenomic databases

eggNOGiENOG4105C4A Bacteria
COG1165 LUCA
HOGENOMiHOG000218359
KOiK02551
OMAiIFRILPG
OrthoDBiPOG091H058U

Enzyme and pathway databases

UniPathwayi
UPA00079

UPA01057;UER00164

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
PANTHERiPTHR42916 PTHR42916, 1 hit
PfamiView protein in Pfam
PF02776 TPP_enzyme_N, 1 hit
PIRSFiPIRSF004983 MenD, 1 hit
SUPFAMiSSF52518 SSF52518, 2 hits
TIGRFAMsiTIGR00173 menD, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiMEND_RENSM
AccessioniPrimary (citable) accession number: A9WRT6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: February 5, 2008
Last modified: October 10, 2018
This is version 63 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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Main funding by: National Institutes of Health

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