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Protein

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

Gene

menD

Organism
Synechocystis sp. (strain PCC 6803 / Kazusa)
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

GO - Molecular functioni

  1. 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity Source: UniProtKB-HAMAP
  2. magnesium ion binding Source: UniProtKB-HAMAP
  3. manganese ion binding Source: UniProtKB-HAMAP
  4. thiamine pyrophosphate binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. menaquinone biosynthetic process Source: InterPro
  2. phylloquinone biosynthetic process Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Transferase

Keywords - Ligandi

Magnesium, Manganese, Metal-binding, Thiamine pyrophosphate

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-13897.
UniPathwayiUPA00995.
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
Gene namesi
Name:menDUniRule annotation
Ordered Locus Names:sll0603
OrganismiSynechocystis sp. (strain PCC 6803 / Kazusa)
Taxonomic identifieri1111708 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechocystis
ProteomesiUP000001425: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 5955952-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthasePRO_0000341878Add
BLAST

Interactioni

Subunit structurei

Homodimer.UniRule annotation

Protein-protein interaction databases

STRINGi1148.sll0603.

Structurei

3D structure databases

ProteinModelPortaliQ55725.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG1165.
HOGENOMiHOG000218359.
InParanoidiQ55725.
KOiK02551.
OMAiQKPWLLE.
OrthoDBiEOG6NWBQW.
PhylomeDBiQ55725.

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.

Q55725-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MVDFTNPNTL AASVLVETLF RLGLQQAVIC PGSRSSPLTV ALARHGGIDC
60 70 80 90 100
VVSLDERSAS FFALGHGKRT GQPVALVCTS GTAAANFLPA IIEAHYSQVP
110 120 130 140 150
LLVLTGDRPP RLRHCRAGQT IDQTKLYGHY PQWQTELALP EPNMDYCHYL
160 170 180 190 200
RQTALHSWQK CFWPGLGVVH LNCPFDEPLV PLEHARESLQ HLAEEFSKEH
210 220 230 240 250
FYRGLTTFTT MNRGEAISLP VNFSIFSFPS PQLDFSPLGL ILVGVMPGGE
260 270 280 290 300
TPSLLTDILA IARGLGYPVL CDALCSLRNY DDGQTALITN YDFLIRCPRW
310 320 330 340 350
AEQLVPEQII QIGELPTSKA LRHWLGTIDC PRYILNFHGE NLDPLQGQTI
360 370 380 390 400
YLSASVAQVA EYIHNQGFIP DAEQKNYAHS WLEKQRQSQT IIISALADAH
410 420 430 440 450
TPLMVAQLAH CLPPQTNLFV ANSLPVRWLE FFWPANGDHH RIFVNRGANG
460 470 480 490 500
IDGTLSTAMG IAHRSRGETV LLTGDLSLLH DSNGFLNQSQ MRGNLTIILL
510 520 530 540 550
NNNGGGIFQT LPIAQCEDVF ETYFATPQGV DFGQLCRTYG VEHKIITNLW
560 570 580 590
DLKEQWPSNN SSPIRVLEII GDRHQEAQWL KSLQAQFCCA DSLIQ
Length:595
Mass (Da):66,133
Last modified:November 1, 1996 - v1
Checksum:i62CF0EA48B20D87E
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10366.1.
PIRiS76520.
RefSeqiNP_442296.1. NC_000911.1.
YP_005652356.1. NC_017277.1.
YP_007452172.1. NC_020286.1.

Genome annotation databases

EnsemblBacteriaiBAA10366; BAA10366; BAA10366.
GeneIDi952514.
KEGGisyn:sll0603.
PATRICi23842248. VBISynSp132158_2664.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000022 Genomic DNA. Translation: BAA10366.1.
PIRiS76520.
RefSeqiNP_442296.1. NC_000911.1.
YP_005652356.1. NC_017277.1.
YP_007452172.1. NC_020286.1.

3D structure databases

ProteinModelPortaliQ55725.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi1148.sll0603.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAA10366; BAA10366; BAA10366.
GeneIDi952514.
KEGGisyn:sll0603.
PATRICi23842248. VBISynSp132158_2664.

Phylogenomic databases

eggNOGiCOG1165.
HOGENOMiHOG000218359.
InParanoidiQ55725.
KOiK02551.
OMAiQKPWLLE.
OrthoDBiEOG6NWBQW.
PhylomeDBiQ55725.

Enzyme and pathway databases

UniPathwayiUPA00995.
UPA01057; UER00164.
BioCyciMetaCyc:MONOMER-13897.

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.
ProtoNetiSearch...

Publicationsi

  1. "Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. strain PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions."
    Kaneko T., Sato S., Kotani H., Tanaka A., Asamizu E., Nakamura Y., Miyajima N., Hirosawa M., Sugiura M., Sasamoto S., Kimura T., Hosouchi T., Matsuno A., Muraki A., Nakazaki N., Naruo K., Okumura S., Shimpo S.
    , Takeuchi C., Wada T., Watanabe A., Yamada M., Yasuda M., Tabata S.
    DNA Res. 3:109-136(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 6803 / Kazusa.

Entry informationi

Entry nameiMEND_SYNY3
AccessioniPrimary (citable) accession number: Q55725
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: November 1, 1996
Last modified: February 4, 2015
This is version 101 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
  3. Synechocystis PCC 6803
    Synechocystis (strain PCC 6803): entries and gene names

External Data

Dasty 3

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 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.