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Escherichia coli K-12 substr. MG1655 Polypeptide: branched chain amino acid ABC transporter - periplasmic binding protein



Gene: livJ Accession Numbers: EG10539 (EcoCyc), b3460, ECK3444

Synonyms: hrbD, hrbC, hrbB

Regulation Summary Diagram: ?

Component of: branched chain amino acid ABC transporter (extended summary available)

Gene Citations: [Adams90, Haney92]

Locations: periplasmic space

Map Position: [3,596,578 <- 3,597,681] (77.52 centisomes)
Length: 1104 bp / 367 aa

Molecular Weight of Polypeptide: 39.076 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0011299 , CGSC:551 , EchoBASE:EB0534 , EcoGene:EG10539 , EcoliWiki:b3460 , ModBase:P0AD96 , OU-Microarray:b3460 , PortEco:livJ , PR:PRO_000023097 , Pride:P0AD96 , Protein Model Portal:P0AD96 , RefSeq:YP_026223 , RegulonDB:EG10539 , SMR:P0AD96 , String:511145.b3460 , Swiss-Model:P0AD96 , UniProt:P0AD96

Relationship Links: InterPro:IN-FAMILY:IPR000709 , InterPro:IN-FAMILY:IPR028081 , InterPro:IN-FAMILY:IPR028082 , Panther:IN-FAMILY:PTHR30483 , PDB:Structure:1Z15 , PDB:Structure:1Z16 , PDB:Structure:1Z17 , PDB:Structure:1Z18 , PDB:Structure:2LIV , Pfam:IN-FAMILY:PF01094 , Pfam:IN-FAMILY:PF13458 , Prints:IN-FAMILY:PR00337

Gene-Reaction Schematic: ?

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0015803 - branched-chain amino acid transport Inferred from experiment [Adams90]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
GO:0006865 - amino acid transport Inferred by computational analysis [UniProtGOA11a, GOA01a]
Molecular Function: GO:0015658 - branched-chain amino acid transmembrane transporter activity Inferred from experiment [Adams90]
Cellular Component: GO:0030288 - outer membrane-bounded periplasmic space Inferred from experiment Inferred by computational analysis [GOA01a, DiazMejia09, LopezCampistrou05]
GO:0042597 - periplasmic space Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]

MultiFun Terms: metabolism biosynthesis of building blocks amino acids isoleucine/valine
metabolism biosynthesis of building blocks amino acids leucine
transport Channel-type Transporters Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases ABC superfamily, periplasmic binding component

Essentiality data for livJ knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]
Yes [Feist07, Comment 4]

Subunit of: branched chain amino acid ABC transporter

Subunit composition of branched chain amino acid ABC transporter = [LivF][LivG][LivH][LivM][LivJ]
         branched chain amino acid ABC transporter - ATP binding subunit = LivF
         branched chain amino acid transporter - ATP binding subunit = LivG
         branched chain amino acid transporter - membrane subunit = LivH
         branched chain amino acid transporter - membrane subunit = LivM
         branched chain amino acid ABC transporter - periplasmic binding protein = LivJ

Summary:
LivFGHMJ and LivFGHMK are two ATP-dependent high-affinity branched-chain amino acid transport systems and are members of the ATP Binding Cassette (ABC) Superfamily of transporters [Igarashi99].

The two systems are responsible for the high affinity transport of branched-chain amino acids in E. coli. They have shared membrane and ATP-binding components but have distinctive periplasmic binding proteins. Due to the different periplasmic binding components, the two complexes differ in their binding specificity: LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine and valine [Nazos85].

Based on sequence similarity and hydrophobicity analysis, LivJ and LivK are the two periplasmic animo acid-binding proteins, LivH and LivM are the membrane components, and LivG and LivF are the ATP-binding component of the ABC transport complexes [Adams90].

Deletion of each of the liv genes resulted in the inability to transport leucine [Adams90]. In addition, a deletion strain that does not express any of the liv genes was unable to carry out high-affinity transport of leucine unless one of the binding protein genes and all of the membrane complex genes were provided on a plasmid [Adams90]. In a separate experiment, liv gene mutants were found to be resistant to a toxic analog of leucine, azaleucine, due to its inability in branched-chain amino acid transport [Nazos85]. This system has also been shown [Koyanagi04] to serve as a third (along with the AroP and PheP systems) complex for transport of phenylanine across the inner membrane.


Enzymatic reaction of: transport of L-leucine (branched chain amino acid ABC transporter)

Synonyms: Transport of L-leucine

Alternative Products for L-leucine: L-threonine [Landick85 ] , L-alanine [Landick85 ]


Enzymatic reaction of: transport of L-valine (branched chain amino acid ABC transporter)

Synonyms: Transport of L-valine


Enzymatic reaction of: transport of L-isoleucine (branched chain amino acid ABC transporter)

Synonyms: Transport of L-isoleucine


Sequence Features

Feature Class Location Citations Comment
Signal-Sequence 1 -> 23
[Frutiger96, Ovchinnikov77, Link97, Urbanowski00]
 
Sequence-Conflict 3
[Adams90, Antonucci85, Landick85, UniProt10]
Alternate sequence: I → T; UniProt: (in Ref. 1, 2 and 3);
Sequence-Conflict 12
[Adams90, Antonucci85, Landick85, UniProt10]
Alternate sequence: C → L; UniProt: (in Ref. 1, 2 and 3);
Sequence-Conflict 16
[Landick85, UniProt10]
Alternate sequence: A → G; UniProt: (in Ref. 1);
Chain 24 -> 367
[UniProt09]
UniProt: Leu/Ile/Val-binding protein;
Sequence-Conflict 70
[Ovchinnikov77, Adams90, Antonucci85, Landick85, UniProt10]
Alternate sequence: V → A; UniProt: (in Ref. 1, 2, 3 and 7);
Disulfide-Bond-Site 101, 76
[UniProt10]


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b3460 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG10539; confirmed by SwissProt match.


References

Adams90: Adams MD, Wagner LM, Graddis TJ, Landick R, Antonucci TK, Gibson AL, Oxender DL (1990). "Nucleotide sequence and genetic characterization reveal six essential genes for the LIV-I and LS transport systems of Escherichia coli." J Biol Chem 1990;265(20);11436-43. PMID: 2195019

Antonucci85: Antonucci TK, Landick R, Oxender DL (1985). "The leucine binding proteins of Escherichia coli as models for studying the relationships between protein structure and function." J Cell Biochem 29(3);209-16. PMID: 4077929

Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Feist07: Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson BO (2007). "A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information." Mol Syst Biol 3;121. PMID: 17593909

Frutiger96: Frutiger S., Hughes G.J., Pasquali C., Hochstrasser D.F. (1996). Data submission to UniProtKB on 1996-02.

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Haney92: Haney SA, Platko JV, Oxender DL, Calvo JM (1992). "Lrp, a leucine-responsive protein, regulates branched-chain amino acid transport genes in Escherichia coli." J Bacteriol 1992;174(1);108-15. PMID: 1729203

Igarashi99: Igarashi K, Kashiwagi K (1999). "Polyamine transport in bacteria and yeast." Biochem J 1999;344 Pt 3;633-42. PMID: 10585849

Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394

Koyanagi04: Koyanagi T, Katayama T, Suzuki H, Kumagai H (2004). "Identification of the LIV-I/LS system as the third phenylalanine transporter in Escherichia coli K-12." J Bacteriol 186(2);343-50. PMID: 14702302

Landick85: Landick R, Oxender DL (1985). "The complete nucleotide sequences of the Escherichia coli LIV-BP and LS-BP genes. Implications for the mechanism of high-affinity branched-chain amino acid transport." J Biol Chem 260(14);8257-61. PMID: 3891753

Link97: Link AJ, Robison K, Church GM (1997). "Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12." Electrophoresis 18(8);1259-313. PMID: 9298646

LopezCampistrou05: Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ (2005). "Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth." Mol Cell Proteomics 4(8);1205-9. PMID: 15911532

Nazos85: Nazos PM, Mayo MM, Su TZ, Anderson JJ, Oxender DL (1985). "Identification of livG, a membrane-associated component of the branched-chain amino acid transport in Escherichia coli." J Bacteriol 1985;163(3);1196-202. PMID: 2993238

Ovchinnikov77: Ovchinnikov YA, Aldanova NA, Grinkevich VA, Arzamazova NM, Moroz IN (1977). "The primary structure of a Leu, Ile and Val (LIV)-binding protein from Escherichia coli." FEBS Lett 78(2);313-6. PMID: 328304

Penrose68: Penrose WR, Nichoalds GE, Piperno JR, Oxender DL (1968). "Purification and properties of a leucine-binding protein from Escherichia coli." J Biol Chem 243(22);5921-8. PMID: 4972226

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt10: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Urbanowski00: Urbanowski ML, Stauffer LT, Stauffer GV (2000). "The gcvB gene encodes a small untranslated RNA involved in expression of the dipeptide and oligopeptide transport systems in Escherichia coli." Mol Microbiol 37(4);856-68. PMID: 10972807

Wood75: Wood JM (1975). "Leucine transport in Escherichia coli. The resolution of multiple transport systems and their coupling to metabolic energy." J Biol Chem 250(12);4477-85. PMID: 1095572

Other References Related to Gene Regulation

Barker01: Barker MM, Gaal T, Josaitis CA, Gourse RL (2001). "Mechanism of regulation of transcription initiation by ppGpp. I. Effects of ppGpp on transcription initiation in vivo and in vitro." J Mol Biol 305(4);673-88. PMID: 11162084

Fraenkel95: Fraenkel YM, Mandel Y, Friedberg D, Margalit H (1995). "Identification of common motifs in unaligned DNA sequences: application to Escherichia coli Lrp regulon." Comput Appl Biosci 1995;11(4);379-87. PMID: 8521047

Lee12: Lee JH, Lennon CW, Ross W, Gourse RL (2012). "Role of the coiled-coil tip of Escherichia coli DksA in promoter control." J Mol Biol 416(4);503-17. PMID: 22200485

Lin92: Lin R, D'Ari R, Newman EB (1992). "Lambda placMu insertions in genes of the leucine regulon: extension of the regulon to genes not regulated by leucine." J Bacteriol 1992;174(6);1948-55. PMID: 1532173

Paul05: Paul BJ, Berkmen MB, Gourse RL (2005). "DksA potentiates direct activation of amino acid promoters by ppGpp." Proc Natl Acad Sci U S A 102(22);7823-8. PMID: 15899978

Tchetina95: Tchetina E, Newman EB (1995). "Identification of Lrp-regulated genes by inverse PCR and sequencing: regulation of two mal operons of Escherichia coli by leucine-responsive regulatory protein." J Bacteriol 1995;177(10);2679-83. PMID: 7751276


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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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