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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

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).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.UniRule annotation
Binds 1 thiamine pyrophosphate per subunit.UniRule annotation

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.
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: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 synthasePRO_0000341790Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi247156.nfa51330.

Structurei

3D structure databases

ProteinModelPortaliQ5YPA6.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

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

« Hide

        10         20         30         40         50
MNPSTAQARV VVDELVRGGV RDVVLCPGSR NAPLAFALQA ADAAGRLRLH
60 70 80 90 100
MRIDERTAGF LAIGLAISAG APVPVVMTSG TAVANLGPAV LEANYARVPL
110 120 130 140 150
IVLSANRPYE MLGTGANQTV EQLGLFGSQV RATISLGLAE ADGAGAGSYD
160 170 180 190 200
QQNSVWRSAV CRVLAAARGT RSGNAGPVHF DIPLREPLVP DLAEGEAEPA
210 220 230 240 250
GRAGGAPWTA TQYATLDVPL EIDLTPDTVV VSGHGAGLRP ELAHLPTVAE
260 270 280 290 300
PTAPMHGPAL HPLALPLLTP RQAIITGRPT LHRQVSRLLA DPAVTVYALT
310 320 330 340 350
TGPRWPDVSG NVVGTGTRAV TSGGPRPEWL AHCRELDEKA RQVVRAELAG
360 370 380 390 400
HPKPTGLHVA AVVMDALREG DQLLLGASNP VRDAALVATP RPGVRVLSNR
410 420 430 440 450
GVAGIDGTVS TAVGAALAHP GRTIALIGDL TFLHDAAGLL IGRGEPRPAD
460 470 480 490 500
LTIVVANDDG GGIFELLEQG DPQYAGVFER VFGTPHGMDL AALCAAYRIP
510 520 530 540
HRQVDPAELA AELAGDAHGL RVLEVITERS SLRELHATVR AKIAP
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.
RefSeqiWP_011211667.1. NC_006361.1.
YP_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 WP_011211667.1. NC_006361.1.
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 .
UPA01057 ; 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: October 29, 2014
This is version 70 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, Reference proteome

Documents

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

External Data

Dasty 3