RegulonDB

Gene
Name:	fabD
Synonym(s):	ECK1078, EG11317, b1092, tfpA
Genome position(nucleotides):	1149728 --> 1150657 Genome Browser
Strand:	forward
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	55.16
External database links:

ASAP:	ABE-0003698
ECHOBASE:	EB1293
OU-MICROARRAY:	b1092
PortEco:	fabD
STRING:	511145.b1092
COLOMBOS:	fabD

Product

Name:

[acyl-carrier-protein] S-malonyltransferase

Synonym(s):

FabD, TfpA

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

32.417

Isoelectric point:

4.673

Motif(s):

Type	Positions	Sequence
	2 -> 309	TQFAFVFPGQGSQTVGMLADMAASYPIVEETFAEASAALGYDLWALTQQGPAEELNKTWQTQPALLTASVALYRVWQQQGGKAPAMMAGHSLGEYSALVCAGVIDFADAVRLVEMRGKFMQEAVPEGTGAMAAIIGLDDASIAKACEEAAEGQVVSPVNFNSPGQVVIAGHKEAVERAGAACKAAGAKRALPLPVSVPSHCALMKPAADKLAVELAKITFNAPTVPVVNNVDVKCETNGDAIRDALVRQLYNPVQWTKSVEYMAAQGVEHLYEVGPGKVLTGLTKRIVDTLTASALNEPSAMAAALEL
	6 -> 283	FVFPGQGSQTVGMLADMAASYPIVEETFAEASAALGYDLWALTQQGPAEELNKTWQTQPALLTASVALYRVWQQQGGKAPAMMAGHSLGEYSALVCAGVIDFADAVRLVEMRGKFMQEAVPEGTGAMAAIIGLDDASIAKACEEAAEGQVVSPVNFNSPGQVVIAGHKEAVERAGAACKAAGAKRALPLPVSVPSHCALMKPAADKLAVELAKITFNAPTVPVVNNVDVKCETNGDAIRDALVRQLYNPVQWTKSVEYMAAQGVEHLYEVGPGKVLTG

Classification:

Multifun Terms (GenProtEC)
Multifun Terms (GenProtEC)		1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.4 - fatty acids and phosphatidic acid
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0016740 - transferase activity GO:0016746 - transferase activity, transferring acyl groups GO:0004314 - [acyl-carrier-protein] S-malonyltransferase activity GO:0016419 - S-malonyltransferase activity
	biological_process	GO:0006629 - lipid metabolic process GO:0006631 - fatty acid metabolic process GO:0006633 - fatty acid biosynthetic process

Note(s):

Note(s): ...[more].

Reference(s):

[1] Heath RJ., et al., 1995
[2] Jeon E., et al., 2011
[3] Liang JL., et al., 2016
[4] Marcella AM., et al., 2016
[5] Marcella AM., et al., 2015
[6] Park SY., et al., 2012
[7] Semple KS., et al., 1975
[8] Subrahmanyam S., et al., 1998
[9] Villa F., et al., 2012
[10] Walenga RW., et al., 1980
[11] Xu HH., et al., 2006
[12] Yang Y., et al., 2015
[13] Yu X., et al., 2011
[14] Zhang X., et al., 2012

External database links:

DIP:

DIP-47923N

ECOCYC:

MALONYL-COA-ACP-TRANSACYL-MONOMER

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

PDB:

PDB:

PDB:

PDB:

PDB:

PFAM:

PRIDE:

PRODB:

REFSEQ:

SMART:

SMR:

UNIPROT:

Operon

Name:

yceD-rpmF-plsX-fabHDG-acpP-fabF

Operon arrangement:

Transcription unit	Promoter
yceD-rpmF	yceDp1
yceD-rpmF	yceDp2
rpmF-plsX-fabHDG	rpmFp
plsX-fabHDG	plsXp
fabHDG	fabHp
acpP	acpPp
acpP-fabF	acpPp
fabDG-acpP
fabF
fabG-acpP

Transcriptional Regulation
	Display Regulation
Activated by:	FadR

Elements in the selected gene context region unrelated to any object in RegulonDB

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_1389	1149153	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1390	1149156	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1391	1149172	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1392	1149706	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1393	1150045	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1394	1150372	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1395	1150404	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1396	1150416	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1397	1150443	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1398	1150491	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1399	1150589	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1400	1150957	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1401	1151080	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1402	1151229	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1403 (cluster)	1151352	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1151352 to 1151353, where the highest frequency is at position 1150576. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[15]
promoter	TSS_1404	1151355	forward	nd	[RS-EPT-CBR]	[15]
promoter	TSS_1405 (cluster)	1151357	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1151357 to 1151358, where the highest frequency is at position 1150581. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[15]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Heath RJ., Rock CO., 1995, Enoyl-acyl carrier protein reductase (fabI) plays a determinant role in completing cycles of fatty acid elongation in Escherichia coli., J Biol Chem 270(44):26538-42
[2] Jeon E., Lee S., Won JI., Han SO., Kim J., Lee J., 2011, Development of Escherichia coli MG1655 strains to produce long chain fatty acids by engineering fatty acid synthesis (FAS) metabolism., Enzyme Microb Technol 49(1):44-51
[3] Liang JL., Guo LQ., Lin JF., He ZQ., Cai FJ., Chen JF., 2016, A novel process for obtaining pinosylvin using combinatorial bioengineering in Escherichia coli., World J Microbiol Biotechnol 32(6):102
[4] Marcella AM., Barb AW., 2016, A rapid fluorometric assay for the S-malonyltransacylase FabD and other sulfhydryl utilizing enzymes., J Biol Methods 3(4)
[5] Marcella AM., Jing F., Barb AW., 2015, Preparation of holo- and malonyl-[acyl-carrier-protein] in a manner suitable for analog development., Protein Expr Purif 115:39-45
[6] Park SY., Jeon E., Lee S., Lee J., Lee T., Won JI., 2012, An analysis of the concentration change of intermediate metabolites by gene manipulation in fatty acid biosynthesis., Enzyme Microb Technol 51(2):95-9
[7] Semple KS., Silbert DF., 1975, Mapping of the fabD locus for fatty acid biosynthesis in Escherichia coli., J Bacteriol 121(3):1036-46
[8] Subrahmanyam S., Cronan JE., 1998, Overproduction of a functional fatty acid biosynthetic enzyme blocks fatty acid synthesis in Escherichia coli., J Bacteriol 180(17):4596-602
[9] Villa F., Remelli W., Forlani F., Vitali A., Cappitelli F., 2012, Altered expression level of Escherichia coli proteins in response to treatment with the antifouling agent zosteric acid sodium salt., Environ Microbiol 14(7):1753-61
[10] Walenga RW., Osborn MJ., 1980, Biosynthesis of lipid A. Formation of acyl-deficient lipopolysaccharides in Salmonella typhimurium and Escherichia coli., J Biol Chem 255(9):4257-63
[11] Xu HH., Real L., Bailey MW., 2006, An array of Escherichia coli clones over-expressing essential proteins: a new strategy of identifying cellular targets of potent antibacterial compounds., Biochem Biophys Res Commun 349(4):1250-7
[12] Yang Y., Lin Y., Li L., Linhardt RJ., Yan Y., 2015, Regulating malonyl-CoA metabolism via synthetic antisense RNAs for enhanced biosynthesis of natural products., Metab Eng 29:217-26
[13] Yu X., Liu T., Zhu F., Khosla C., 2011, In vitro reconstitution and steady-state analysis of the fatty acid synthase from Escherichia coli., Proc Natl Acad Sci U S A 108(46):18643-8
[14] Zhang X., Agrawal A., San KY., 2012, Improving fatty acid production in Escherichia coli through the overexpression of malonyl coA-acyl carrier protein transacylase., Biotechnol Prog 28(1):60-5
[15] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.