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Protein

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

Gene

menD

Organism
Paenarthrobacter aurescens (strain TC1)
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: 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)
  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:AAur_3107
OrganismiPaenarthrobacter aurescens (strain TC1)
Taxonomic identifieri290340 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaMicrococcalesMicrococcaceaePaenarthrobacter
Proteomesi
  • UP000000637 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003417011 – 5692-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseAdd BLAST569

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi290340.AAur_3107.

Structurei

3D structure databases

ProteinModelPortaliA1R996.
SMRiA1R996.
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

Gene3Di3.40.50.1220. 1 hit.
HAMAPiMF_01659. MenD. 1 hit.
InterProiView protein in InterPro
IPR029035. DHS-like_NAD/FAD-binding_dom.
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.

A1R996-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTSQDSLTSI GAARIAVTAL LDGGVRHVVV APGSRSAPMA YALAEAEAAG
60 70 80 90 100
RVRLHVRIDE RDAGFTALGL ALSTEAPVAV VTTSGTAVGN LLPAVMEANH
110 120 130 140 150
SAVPVVVISA DRPEELHGTG ANQTTIQLDL FGDHVRFAVD VPAGDHPQKA
160 170 180 190 200
VATALYAATG ALEDTPPGPV QVNLAFRDPL VPADGDALPA AAGHGVFHYD
210 220 230 240 250
AGPQALNLPA ASGELAERRT VVLAGHDAGP VAEAFARAHG LPLLAEPSSN
260 270 280 290 300
ARFGRNAVGP YRVLLAHFGP DSPTPIERVV LFGRATLSRP VASLLARESV
310 320 330 340 350
VSAIYQPVPV AWYEEGRRRE TPIETLPELA DFAGRGSAEW LDSWLLAGAA
360 370 380 390 400
AQHGLDGVLA GEDLANGPSV GATVWEHSRG QLVLGSSNGI RDVDLAGQPH
410 420 430 440 450
PEPIATVYAN RGLAGIDGTI ATATGIALGS GRETTVLLGD VTFLHDAGGL
460 470 480 490 500
LLGHGEPVPD LRIVVLNDSG GAIFSLLEHG AVEDSGAYGT AVERLFGTPH
510 520 530 540 550
SVGIGALAAA YGVGHQTVST TAELAAALKS PLKGRTIVEV RVDRSGLRAL
560
HARIKEAVSA AVGQVLTAG
Length:569
Mass (Da):58,235
Last modified:February 6, 2007 - v1
Checksum:iB8FF5305135CD989
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000474 Genomic DNA. Translation: ABM09847.1.
RefSeqiWP_011775743.1. NC_008711.1.

Genome annotation databases

EnsemblBacteriaiABM09847; ABM09847; AAur_3107.
GeneIDi29624287.
KEGGiaau:AAur_3107.

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 one 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.

Entry informationi

Entry nameiMEND_PAEAT
AccessioniPrimary (citable) accession number: A1R996
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: February 6, 2007
Last modified: June 7, 2017
This is version 74 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. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families