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Escherichia coli K-12 substr. MG1655 Polypeptide: D-allose ABC transporter - periplasmic binding protein

Gene: alsB Accession Numbers: EG12458 (EcoCyc), b4088, ECK4081

Synonyms: yjcX

Regulation Summary Diagram: ?

Regulation summary diagram for alsB

Component of: D-allose ABC transporter (extended summary available)

AlsB is the periplasmic substrate-binding component of the allose ABC transporter.

Gene Citations: [Kim97e, Poulsen99]

Locations: periplasmic space, membrane

Map Position: [4,309,130 <- 4,310,065] (92.88 centisomes, 334°)
Length: 936 bp / 311 aa

Molecular Weight of Polypeptide: 32.91 kD (from nucleotide sequence)

pI: 6.45 [Han14]

Unification Links: ASAP:ABE-0013398 , EchoBASE:EB2352 , EcoGene:EG12458 , EcoliWiki:b4088 , ModBase:P39265 , OU-Microarray:b4088 , PortEco:alsB , PR:PRO_000022088 , Pride:P39265 , Protein Model Portal:P39265 , RefSeq:NP_418512 , RegulonDB:EG12458 , SMR:P39265 , String:511145.b4088 , UniProt:P39265

Relationship Links: InterPro:IN-FAMILY:IPR025997 , InterPro:IN-FAMILY:IPR028082 , PDB:Structure:1GUB , PDB:Structure:1GUD , PDB:Structure:1RPJ , Pfam:IN-FAMILY:PF13407

In Paralogous Gene Group: 30 (25 members)

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for alsB

GO Terms:

Biological Process: GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
GO:0008643 - carbohydrate transport Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0016020 - membrane Inferred from experiment [Lasserre06]
GO:0030288 - outer membrane-bounded periplasmic space Inferred from experiment Inferred by computational analysis [DiazMejia09, Han14]
GO:0042597 - periplasmic space Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]

MultiFun Terms: metabolism carbon utilization carbon compounds
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 alsB 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: D-allose ABC transporter

Subunit composition of D-allose ABC transporter = [AlsA]2[AlsC]2[AlsB]
         D-allose ABC transporter - ATP binding subunit = AlsA (summary available)
         D-allose ABC transporter - membrane subunit = AlsC (summary available)
         D-allose ABC transporter - periplasmic binding protein = AlsB (summary available)

The AlsBAC transporter belongs to the ATP-binding Cassette (ABC) Superfamily [Saurin94]. It is responsible for the uptake of D-allose, an all-cis hexose that can be used by E. coli as a sole carbon source [Kim97e]. Deletion of the als genes resulted in an inability to grow on D-allose [Kim97e]. AlsB is a periplasmic protein that binds D-allose with a Kd of 0.33μM, as determined by fluorescence spectroscopy [Kim97e]. Based on sequence similarity, AlsA is the ATP-binding component, and AlsC is the membrane component of the ABC transporter [Chaudhuri99]. The AlsBAC system also transports ribose at low affinity [Kim97e]. Complementation analysis of als mutants showed that the cloned als genes could restore growth on ribose minimal media [Kim97e]. Analysis of β-galactosidase transcriptional fusions suggest that AlsR is a negative regulator of alsABC, and transcription of alsR is regulated by allose [Kim97e].

Enzymatic reaction of: D-allose ABC transporter

Synonyms: Transport of D-allose

Transport reaction diagram for D-allose ABC transporter

Alternative Products for D-allose: β-D-ribopyranose [Kim97e ]

Sequence Features

Protein sequence of D-allose ABC transporter - periplasmic binding protein with features indicated

Feature Class Location Citations Comment
Signal-Sequence 1 -> 23
Sequence-Conflict 16
[Sorensen96, UniProt10a]
UniProt: (in Ref. 4; CAA57686);
Chain 24 -> 311
UniProt: D-allose-binding periplasmic protein;
Sequence-Conflict 125 -> 130
[Sorensen96, UniProt10a]
UniProt: (in Ref. 4; CAA57686);

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

Transcription-unit diagram


10/20/97 Gene b4088 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12458; confirmed by SwissProt match.


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

Chaudhuri99: Chaudhuri BN, Ko J, Park C, Jones TA, Mowbray SL (1999). "Structure of D-allose binding protein from Escherichia coli bound to D-allose at 1.8 A resolution." J Mol Biol 1999;286(5);1519-31. PMID: 10064713

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

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

Han14: Han MJ, Kim JY, Kim JA (2014). "Comparison of the large-scale periplasmic proteomes of the Escherichia coli K-12 and B strains." J Biosci Bioeng 117(4);437-42. PMID: 24140104

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

Kim97e: Kim C, Song S, Park C (1997). "The D-allose operon of Escherichia coli K-12." J Bacteriol 1997;179(24);7631-7. PMID: 9401019

Lasserre06: Lasserre JP, Beyne E, Pyndiah S, Lapaillerie D, Claverol S, Bonneu M (2006). "A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis." Electrophoresis 27(16);3306-21. PMID: 16858726

Poulsen99: Poulsen TS, Chang YY, Hove-Jensen B (1999). "D-Allose catabolism of Escherichia coli: involvement of alsI and regulation of als regulon expression by allose and ribose." J Bacteriol 1999;181(22);7126-30. PMID: 10559180

Saurin94: Saurin W, Dassa E (1994). "Sequence relationships between integral inner membrane proteins of binding protein-dependent transport systems: evolution by recurrent gene duplications." Protein Sci 1994;3(2);325-44. PMID: 8003968

Sorensen96: Sorensen KI, Hove-Jensen B (1996). "Ribose catabolism of Escherichia coli: characterization of the rpiB gene encoding ribose phosphate isomerase B and of the rpiR gene, which is involved in regulation of rpiB expression." J Bacteriol 1996;178(4);1003-11. PMID: 8576032

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

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProt15: UniProt Consortium (2015). "UniProt version 2015-01 released on 2015-01-16 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."

Other References Related to Gene Regulation

Bennik00: Bennik MH, Pomposiello PJ, Thorne DF, Demple B (2000). "Defining a rob regulon in Escherichia coli by using transposon mutagenesis." J Bacteriol 182(13);3794-801. PMID: 10850996

Zaslaver06: Zaslaver A, Bren A, Ronen M, Itzkovitz S, Kikoin I, Shavit S, Liebermeister W, Surette MG, Alon U (2006). "A comprehensive library of fluorescent transcriptional reporters for Escherichia coli." Nat Methods 3(8);623-8. PMID: 16862137

Report Errors or Provide Feedback
Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 19.0 on Sat Aug 29, 2015, biocyc12.