P38051 (MENF_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Menaquinone-specific isochorismate synthase
EC=5.4.4.2

Alternative name(s):
Isochorismate mutase

Gene names

Name:	menF
Synonyms:	yfbA
Ordered Locus Names:	b2265, JW2260

Organism

Escherichia coli (strain K12)

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	431 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Catalytic activity	Chorismate = isochorismate.
Pathway	Cofactor biosynthesis; menaquinone biosynthesis; menaquinone-2 from chorismate: step 1/8.
Sequence similarities	Belongs to the isochorismate synthase family.
Sequence caution	The sequence M21787 differs from that shown. Reason: Frameshift at positions 270, 310 and 341.

Ontologies

Keywords
Biological process	Menaquinone biosynthesis
Molecular function	Isomerase
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	menaquinone biosynthetic process Inferred from mutant phenotype. Source: EcoCyc
Molecular function	isochorismate synthase activity Inferred from direct assay. Source: EcoCyc magnesium ion binding Inferred from direct assay. Source: EcoCyc
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 431

431

Menaquinone-specific isochorismate synthase

PRO_0000154147

Experimental info

Sequence conflict

310 – 312

3

VLR → YC in AAC44303. Ref.3

Secondary structure

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431

Helix Strand Turn

Details...

Helix

2 – 15

14

Beta strand

21 – 32

12

Helix

40 – 45

6

Beta strand

52 – 56

5

Beta strand

60 – 75

16

Helix

76 – 84

9

Beta strand

94 – 98

5

Beta strand

105 – 117

13

Beta strand

120 – 131

12

Helix

133 – 146

14

Beta strand

160 – 167

8

Helix

169 – 185

17

Beta strand

190 – 203

14

Helix

207 – 217

11

Beta strand

221 – 227

7

Beta strand

229 – 238

10

Beta strand

241 – 246

6

Beta strand

249 – 260

12

Helix

265 – 275

11

Helix

281 – 296

16

Helix

297 – 299

3

Beta strand

309 – 312

4

Beta strand

314 – 329

16

Helix

332 – 339

8

Turn

343 – 345

3

Beta strand

346 – 349

4

Helix

350 – 360

11

Turn

366 – 369

4

Beta strand

370 – 375

6

Beta strand

377 – 384

8

Beta strand

387 – 392

6

Beta strand

395 – 404

10

Helix

410 – 425

16

Turn

426 – 428

3

Sequences

	Sequence		Length	Mass (Da)
	P38051 [UniParc]. Last modified November 1, 1997. Version 4. Checksum: D081724F3329FE47	FASTA	431	48,765
	10 20 30 40 50 60 MQSLTTALEN LLRHLSQEIP ATPGIRVIDI PFPLKDAFDA LSWLASQQTY PQFYWQQRNG 70 80 90 100 110 120 DEEAVVLGAI TRFTSLDQAQ RFLRQHPEHA DLRIWGLNAF DPSQGNLLLP RLEWRRCGGK 130 140 150 160 170 180 ATLRLTLFSE SSLQHDAIQA KEFIATLVSI KPLPGLHLTT TREQHWPDKT GWTQLIELAT 190 200 210 220 230 240 KTIAEGELDK VVLARATDLH FASPVNAAAM MAASRRLNLN CYHFYMAFDG ENAFLGSSPE 250 260 270 280 290 300 RLWRRRDKAL RTEALAGTVA NNPDDKQAQQ LGEWLMADDK NQRENMLVVE DICQRLQADT 310 320 330 340 350 360 QTLDVLPPQV LRLRKVQHLR RCIWTSLNKA DDVICLHQLQ PTAAVAGLPR DLARQFIARH 370 380 390 400 410 420 EPFTREWYAG SAGYLSLQQS EFCVSLRSAK ISGNVVRLYA GAGIVRGSDP EQEWQEIDNK 430 AAGLRTLLQM E

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"An isochorismate hydroxymutase isogene in Escherichia coli." Mueller R., Dahm C., Schulte G., Leistner E. FEBS Lett. 378:131-134(1996) [PubMed: 8549818] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12 / MC4100 / ATCC 35695 / DSM 6574.
[2]	Mueller R. Submitted (FEB-1998) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION.
[3]	"A new isochorismate synthase specifically involved in menaquinone (vitamin K2) biosynthesis encoded by the menF gene." Daruwala R., Kwon O., Meganathan R., Hudspeth M.E.S. FEMS Microbiol. Lett. 140:159-163(1996) [PubMed: 8764478] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12 / PL2024.
[4]	"Construction of a contiguous 874-kb sequence of the Escherichia coli-K12 genome corresponding to 50.0-68.8 min on the linkage map and analysis of its sequence features." Yamamoto Y., Aiba H., Baba T., Hayashi K., Inada T., Isono K., Itoh T., Kimura S., Kitagawa M., Makino K., Miki T., Mitsuhashi N., Mizobuchi K., Mori H., Nakade S., Nakamura Y., Nashimoto H., Oshima T. , Oyama S., Saito N., Sampei G., Satoh Y., Sivasundaram S., Tagami H., Takahashi H., Takeda J., Takemoto K., Uehara K., Wada C., Yamagata S., Horiuchi T. DNA Res. 4:91-113(1997) [PubMed: 9205837] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed: 9278503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[6]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed: 16738553] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[7]	Huisman G.W. Submitted (JUN-1996) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-216. Strain: K12.
[8]	"Sequence and overexpression of the menD gene from Escherichia coli." Popp J.L. J. Bacteriol. 171:4349-4354(1989) [PubMed: 2666397] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 216-431.
[9]	"Intrinsic and extrinsic approaches for detecting genes in a bacterial genome." Borodovsky M., Rudd K.E., Koonin E.V. Nucleic Acids Res. 22:4756-4767(1994) [PubMed: 7984428] [Abstract] Cited for: IDENTIFICATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

Z50849 Genomic DNA. Translation: CAA90702.1.
U54790 Genomic DNA. Translation: AAC44303.1.
U00096 Genomic DNA. Translation: AAC75325.2.
AP009048 Genomic DNA. Translation: BAA16092.1.
U58768 Genomic DNA. Translation: AAB02729.1.
M21787 Genomic DNA. No translation available.

PIR

G64997.

RefSeq

NP_416768.4. NC_000913.2.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2EUA	X-ray	2.50	A/B	1-431	[»]
3BZM	X-ray	1.95	A	1-431	[»]
3BZN	X-ray	2.00	A	1-431	[»]

ProteinModelPortal

P38051.

SMR

P38051. Positions 1-429.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-10187N.

IntAct

P38051. 7 interactions.

MINT

MINT-1275996.

PTM databases

PhosSite

P38051.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

EBESCT00000004604; EBESCP00000004604; EBESCG00000003753.
EBESCT00000018312; EBESCP00000017603; EBESCG00000017366.

GeneID

946712.

GenomeReviews

Gene locus JW2260 in contig AP009048_GR.
Gene locus b2265 in contig U00096_GR.

KEGG

ecj:JW2260.
eco:b2265.

PATRIC

32119897. VBIEscCol129921_2358.

Organism-specific databases

EchoBASE

EB2265.

EcoGene

EG12362. menF.

Phylogenomic databases

eggNOG

COG1169.

GeneTree

EBGT00050000009519.

HOGENOM

HBG405459.

OMA

WYAGTLG.

PhylomeDB

P38051.

ProtClustDB

PRK15012.

Enzyme and pathway databases

BioCyc

EcoCyc:MENF-MONOMER.
MetaCyc:MENF-MONOMER.

Gene expression databases

Genevestigator

P38051.

Family and domain databases

InterPro

IPR005801. ADC_synthase.
IPR015890. Chorismate-bd_C.
IPR004561. IsoChor_synthase.
[Graphical view]

Gene3D

G3DSA:3.60.120.10. TRPE_1_chor_bd. 1 hit.

KO

K02552.

PANTHER

PTHR11236:SF3. Isochor_synth. 1 hit.

Pfam

PF00425. Chorismate_bind. 1 hit.
[Graphical view]

SUPFAM

SSF56322. TRPE_1_chor_bd. 1 hit.

TIGRFAMs

TIGR00543. Isochor_syn. 1 hit.

ProtoNet

Search...

Entry information

Entry name

MENF_ECOLI

Accession

Primary (citable) accession number: P38051
Secondary accession number(s): P76479 , P78297, Q47009, Q47704

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1994
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 113 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program