A1T3R3 (MEND_MYCVP) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase
Short name=SEPHCHC synthase
EC=2.2.1.9

Alternative name(s):
Menaquinone biosynthesis protein MenD

Gene names

Name:	menD
Ordered Locus Names:	Mvan_0975

Organism

Mycobacterium vanbaalenii (strain DSM 7251 / PYR-1) [Complete proteome] [HAMAP]

Taxonomic identifier

350058 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Actinobacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium › Mycobacterium vanbaalenii

Protein attributes

Sequence length	548 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	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. HAMAP-Rule MF_01659
Catalytic activity	Isochorismate + 2-oxoglutarate = 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1-carboxylate + CO2. HAMAP-Rule MF_01659
Cofactor	Magnesium or manganese By similarity. Binds 1 thiamine pyrophosphate per subunit By similarity.
Pathway	Cofactor biosynthesis; menaquinone biosynthesis; menaquinone-2 from chorismate: step 2/8. HAMAP-Rule MF_01659
Subunit structure	Homodimer By similarity.
Sequence similarities	Belongs to the TPP enzyme family. MenD subfamily.
Sequence caution	The sequence ABM11813.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	Menaquinone biosynthesis
Ligand	Magnesium Manganese Metal-binding Thiamine pyrophosphate
Molecular function	Transferase
Technical term	Complete proteome
Gene Ontology (GO)
Biological_process	menaquinone biosynthetic process Inferred from electronic annotation. Source: HAMAP
Molecular_function	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylic-acid synthase activity Inferred from electronic annotation. Source: EC magnesium ion binding Inferred from electronic annotation. Source: HAMAP manganese ion binding Inferred from electronic annotation. Source: HAMAP thiamine pyrophosphate binding Inferred from electronic annotation. Source: HAMAP
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 548	548	2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-carboxylate synthase HAMAP-Rule MF_01659		PRO_0000341788

Sequences

	Sequence		Length	Mass (Da)
	A1T3R3 [UniParc]. Last modified July 1, 2008. Version 2. Checksum: 0076891DD4286656	FASTA	548	57,366
	10 20 30 40 50 60 MNPSTAQARV VVDELIRGGV RDVVLCPGSR NAPLAFALHD ADRAGRLRLH VRIDERTAGF 70 80 90 100 110 120 LAIGLAVAER APVCVAMTSG TAVANLGPAV VEANYARVPL IVLSANRPYE LLGTGANQTF 130 140 150 160 170 180 EQLGYFGTQV RANISLGLAP ESGASALNFS ALNGQWRSAT CRVVVAATGA RSANAGPVQF 190 200 210 220 230 240 DIPLREPLVP DAQEPAVPYA PDGRPDGRPW TYTPPVTFDQ PLDIDLTPDT VVIAGHGAGV 250 260 270 280 290 300 HPNLAHLPTV AEPTAPAAQT PLHPLALRMI RPEQVIMLGR PTLHRPVSAL LADPAVPVFA 310 320 330 340 350 360 LTTGPRWPDV SGNSQATGTR AVTAGAPAQA WLRRCAEANR HAVDAVRGQL AAHPLTTGLH 370 380 390 400 410 420 VAAAVADALR PGDQLVLGAS NPVRDIALVG FHTADVKVRS NRGVAGIDGT VSTAIGAALA 430 440 450 460 470 480 HERSGGRTVA LIGDLTFVHD SSGLLIGPTE PTPRKLTIVV SNDNGGGIFE LLEQGDPRFS 490 500 510 520 530 540 DVSSRIFGTP HDVDVGALCR AYHVESRQIE VGELAGALDE DFDGMRVLEV KADRSSLRAL HASIRANL

References

[1]

"Complete sequence of Mycobacterium vanbaalenii PYR-1." US DOE Joint Genome Institute Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Singan V., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Anderson I.J., Miller C., Richardson P. Submitted (DEC-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: DSM 7251 / PYR-1.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000511 Genomic DNA. Translation: ABM11813.1. Different initiation.
RefSeq	YP_951819.1. NC_008726.1.
3D structure databases
ProteinModelPortal	A1T3R3.
ModBase	Search...
Protein-protein interaction databases
STRING	350058.Mvan_0975.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABM11813; ABM11813; Mvan_0975.
GeneID	4647954.
KEGG	mva:Mvan_0975.
PATRIC	18180143. VBIMycVan31953_1005.
Organism-specific databases
CMR	Search...
Phylogenomic databases
eggNOG	COG1165.
HOGENOM	HOG000218359.
KO	K02551.
ProtClustDB	PRK07449.
Enzyme and pathway databases
BioCyc	MVAN350058:GIWR-980-MONOMER.
UniPathway	UPA00079; UER00164.
Family and domain databases
HAMAP	MF_01659. MenD.
InterPro	IPR004433. MenaQ_synth_MenD. IPR012001. Thiamin_PyroP_enz_TPP-bd_dom. [Graphical view]
PANTHER	PTHR18968:SF3. PTHR18968:SF3. 1 hit.
Pfam	PF02776. TPP_enzyme_N. 1 hit. [Graphical view]
PIRSF	PIRSF004983. MenD. 1 hit.
TIGRFAMs	TIGR00173. menD. 1 hit.
ProtoNet	Search...

Entry information

Entry name

MEND_MYCVP

Accession

Primary (citable) accession number: A1T3R3

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 2008
Last sequence update:	July 1, 2008
Last modified:	May 1, 2013
This is version 47 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program