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Q5YPA6

- MEND_NOCFA

UniProt

Q5YPA6 - MEND_NOCFA

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Protein

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

Gene
menD, NFA_51330
Organism
Nocardia farcinica (strain IFM 10152)
Status
Reviewed - 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) By similarity.UniRule annotation

Catalytic activityi

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

Cofactori

Magnesium or manganese By similarity.UniRule annotation
Binds 1 thiamine pyrophosphate per subunit By similarity.

Pathwayi

GO - Molecular functioni

  1. 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity Source: UniProtKB-EC
  2. metal ion binding Source: UniProtKB-KW
  3. thiamine pyrophosphate binding Source: InterPro

GO - Biological processi

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

Keywords - Molecular functioni

Transferase

Keywords - Biological processi

Menaquinone biosynthesis

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, Thiamine pyrophosphate

Enzyme and pathway databases

BioCyciNFAR247156:GJ9T-5204-MONOMER.
UniPathwayiUPA00079; UER00164.

Names & Taxonomyi

Protein namesi
Recommended name:
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase (EC:2.2.1.9)
Short name:
SEPHCHC synthase
Alternative name(s):
Menaquinone biosynthesis protein MenD
Gene namesi
Name:menD
Ordered Locus Names:NFA_51330
OrganismiNocardia farcinica (strain IFM 10152)
Taxonomic identifieri247156 [NCBI]
Taxonomic lineageiBacteriaActinobacteriaActinobacteridaeActinomycetalesCorynebacterineaeNocardiaceaeNocardia
ProteomesiUP000006820: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 5455452-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthaseUniRule annotationPRO_0000341790Add
BLAST

Interactioni

Subunit structurei

Homodimer By similarity.UniRule annotation

Protein-protein interaction databases

STRINGi247156.nfa51330.

Structurei

3D structure databases

ProteinModelPortaliQ5YPA6.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG1165.
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.

Q5YPA6-1 [UniParc]FASTAAdd to Basket

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MNPSTAQARV VVDELVRGGV RDVVLCPGSR NAPLAFALQA ADAAGRLRLH    50
MRIDERTAGF LAIGLAISAG APVPVVMTSG TAVANLGPAV LEANYARVPL 100
IVLSANRPYE MLGTGANQTV EQLGLFGSQV RATISLGLAE ADGAGAGSYD 150
QQNSVWRSAV CRVLAAARGT RSGNAGPVHF DIPLREPLVP DLAEGEAEPA 200
GRAGGAPWTA TQYATLDVPL EIDLTPDTVV VSGHGAGLRP ELAHLPTVAE 250
PTAPMHGPAL HPLALPLLTP RQAIITGRPT LHRQVSRLLA DPAVTVYALT 300
TGPRWPDVSG NVVGTGTRAV TSGGPRPEWL AHCRELDEKA RQVVRAELAG 350
HPKPTGLHVA AVVMDALREG DQLLLGASNP VRDAALVATP RPGVRVLSNR 400
GVAGIDGTVS TAVGAALAHP GRTIALIGDL TFLHDAAGLL IGRGEPRPAD 450
LTIVVANDDG GGIFELLEQG DPQYAGVFER VFGTPHGMDL AALCAAYRIP 500
HRQVDPAELA AELAGDAHGL RVLEVITERS SLRELHATVR AKIAP 545
Length:545
Mass (Da):56,577
Last modified:November 23, 2004 - v1
Checksum:iFB1DA1B4E63A4696
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006618 Genomic DNA. Translation: BAD59985.1.
RefSeqiYP_121349.1. NC_006361.1.

Genome annotation databases

EnsemblBacteriaiBAD59985; BAD59985; NFA_51330.
GeneIDi3111276.
KEGGinfa:nfa51330.
PATRICi22739847. VBINocFar94200_5142.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006618 Genomic DNA. Translation: BAD59985.1 .
RefSeqi YP_121349.1. NC_006361.1.

3D structure databases

ProteinModelPortali Q5YPA6.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 247156.nfa51330.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD59985 ; BAD59985 ; NFA_51330 .
GeneIDi 3111276.
KEGGi nfa:nfa51330.
PATRICi 22739847. VBINocFar94200_5142.

Phylogenomic databases

eggNOGi COG1165.
KOi K02551.
OMAi WRSAVCR.
OrthoDBi EOG6NWBQW.

Enzyme and pathway databases

UniPathwayi UPA00079 ; UER00164 .
BioCyci NFAR247156:GJ9T-5204-MONOMER.

Family and domain databases

Gene3Di 3.40.50.970. 2 hits.
HAMAPi MF_01659. MenD.
InterProi IPR004433. MenaQ_synth_MenD.
IPR029061. THDP-binding.
IPR012001. Thiamin_PyroP_enz_TPP-bd_dom.
IPR011766. TPP_enzyme-bd_C.
[Graphical view ]
Pfami PF02775. TPP_enzyme_C. 1 hit.
PF02776. TPP_enzyme_N. 1 hit.
[Graphical view ]
PIRSFi PIRSF004983. MenD. 1 hit.
SUPFAMi SSF52518. SSF52518. 2 hits.
TIGRFAMsi TIGR00173. menD. 1 hit.
ProtoNeti Search...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: IFM 10152.

Entry informationi

Entry nameiMEND_NOCFA
AccessioniPrimary (citable) accession number: Q5YPA6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: November 23, 2004
Last modified: June 11, 2014
This is version 68 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

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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