STEPdb: Sub-cellular Topologies of E.coli Polypeptides.

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First Author
Publication Title
Pubmed ID
Referring Protein(s)
Hemm MR, Paul BJ, Schneider TD, Storz G, Rudd KE
Small membrane proteins found by comparative genomics and ribosome binding site models.
Mol Microbiol. 2008 Dec;70(6):1487-501. doi: 10.1111/j.1365-2958.2008.06495.x.
Henderson IR, Navarro-Garcia F, Desvaux M, Fernandez RC, Ala'Aldeen D
Type V protein secretion pathway: the autotransporter story.
Microbiol Mol Biol Rev. 2004 Dec;68(4):692-744.
Hengge R
The two-component network and the general stress sigma factor RpoS (sigma S) in Escherichia coli.
Adv Exp Med Biol. 2008;631:40-53. doi: 10.1007/978-0-387-78885-2_4.
Heuck A, Schleiffer A, Clausen T
Augmenting beta-augmentation: structural basis of how BamB binds BamA and may support folding of outer membrane proteins.
J Mol Biol. 2011 Mar 11;406(5):659-66. doi: 10.1016/j.jmb.2011.01.002. Epub 2011 Jan 12.
Higgs PI, Larsen RA, Postle K
Quantification of known components of the Escherichia coli TonB energy transduction system: TonB, ExbB, ExbD and FepA.
Mol Microbiol. 2002 Apr;44(1):271-81.
Hiniker A, Bardwell JC
In vivo substrate specificity of periplasmic disulfide oxidoreductases.
J Biol Chem. 2004 Mar 26;279(13):12967-73. Epub 2004 Jan 15.
Hirano T, Minamino T, Macnab RM
The role in flagellar rod assembly of the N-terminal domain of Salmonella FlgJ, a flagellum-specific muramidase.
J Mol Biol. 2001 Sep 14;312(2):359-69.
Hizukuri Y, Morton JF, Yakushi T, Kojima S, Homma M
The peptidoglycan-binding (PGB) domain of the Escherichia coli pal protein can also function as the PGB domain in E. coli flagellar motor protein MotB.
J Biochem. 2009 Aug;146(2):219-29. doi: 10.1093/jb/mvp061
Hong H, Patel DR, Tamm LK, van den Berg B
The outer membrane protein OmpW forms an eight-stranded beta-barrel with a hydrophobic channel.
J Biol Chem. 2006 Mar 17;281(11):7568-77
Hsieh CW, Lin TY, Lai HM, Lin CC, Hsieh TS, Shih YL
Direct MinE-membrane interaction contributes to the proper localization of MinDE in E. coli.
Mol Microbiol. 2010 Jan;75(2):499-512. doi: 10.1111/j.1365-2958.2009.07006.x. Epub 2009 Dec 16.
Huang J, Shi J, Liu Q, Xu Q, Xie X, Wen T, Chen N
Effects of gene pta disruption on L-tryptophan fermentation.
Wei Sheng Wu Xue Bao. 2011 Apr;51(4):480-7
Huang WL, Wang YR, Ko TP, Chia CY, Huang KF, Wang AH
Crystal structure and functional analysis of the glutaminyl cyclase from Xanthomonas campestris.
J Mol Biol. 2010 Aug 20;401(3):374-88. doi: 10.1016/j.jmb.2010.06.012. Epub 2010 Jun 15.
Huber D, Boyd D, Xia Y, Olma MH, Gerstein M, Beckwith J
Use of thioredoxin as a reporter to identify a subset of Escherichia coli signal sequences that promote signal recognition particle-dependent translocation.
J Bacteriol. 2005 May;187(9):2983-91
Hübner S, Declerck N, Diethmaier C, Le Coq D, Aymerich S, Stülke J
Prevention of cross-talk in conserved regulatory systems: identification of specificity determinants in RNA-binding anti-termination proteins of the BglG family.
Nucleic Acids Res. 2011 May;39(10):4360-72. doi: 10.1093/nar/gkr021
Hunte C, Screpanti E, Venturi M, Rimon A, Padan E, Michel H
Structure of a Na+/H+ antiporter and insights into mechanism of action and regulation by pH.
Nature. 2005 Jun 30;435(7046):1197-202
Huxley L, Quirk PG, Cotton NP, White SA, Jackson JB
The specificity of proton-translocating transhydrogenase for nicotinamide nucleotides.
Biochim Biophys Acta. 2011 Jan;1807(1):85-94. doi: 10.1016/j.bbabio.2010.08.005. Epub 2010 Aug 21.
Hwang J, Inouye M
An essential GTPase, der, containing double GTP-binding domains from Escherichia coli and Thermotoga maritima.
J Biol Chem. 2001 Aug 17;276(33):31415-21. Epub 2001 May 31.
Hwang J, Inouye M
The tandem GTPase, Der, is essential for the biogenesis of 50S ribosomal subunits in Escherichia coli.
Mol Microbiol. 2006 Sep;61(6):1660-72. Epub 2006 Aug 23.
Hwang J, Inouye M
Interaction of an essential Escherichia coli GTPase, Der, with the 50S ribosome via the KH-like domain.
J Bacteriol. 2010 Apr;192(8):2277-83. doi: 10.1128/JB.00045-10. Epub 2010 Feb 19.
Hwang PM, Choy WY, Lo EI, Chen L, Forman-Kay JD, Raetz CR, Privé GG, Bishop RE, Kay LE
Solution structure and dynamics of the outer membrane enzyme PagP by NMR.
Proc Natl Acad Sci U S A. 2002 Oct 15;99(21):13560-5
Icho T
Membrane-bound phosphatases in Escherichia coli: sequence of the pgpB gene and dual subcellular localization of the pgpB product.
J Bacteriol. 1988 Nov;170(11):5117-24
Inaba K, Murakami S, Suzuki M, Nakagawa A, Yamashita E, Okada K, Ito K
Crystal structure of the DsbB-DsbA complex reveals a mechanism of disulfide bond generation.
Cell. 2006 Nov 17;127(4):789-801
Ingerson-Mahar M, Briegel A, Werner JN, Jensen GJ, Gitai Z
The metabolic enzyme CTP synthase forms cytoskeletal filaments.
Nat Cell Biol. 2010 Aug;12(8):739-46. doi: 10.1038/ncb2087. Epub 2010 Jul 18.
Iobbi-Nivol C, Palmer T, Whitty PW, McNairn E, Boxer DH
The mob locus of Escherichia coli K12 required for molybdenum cofactor biosynthesis is expressed at very low levels.
Microbiology. 1995 Jul;141 ( Pt 7):1663-71
Ishihama A
Prokaryotic genome regulation: a revolutionary paradigm.
Proc Jpn Acad Ser B Phys Biol Sci. 2012;88(9):485-508.
Ito K
The disulfide bond formation (Dsb) system.
Curr Opin Struct Biol. 2008 Aug;18(4):450-8. doi: 10.1016/ Epub
Iverson TM, Luna-Chavez C, Cecchini G, Rees DC
Structure of the Escherichia coli fumarate reductase respiratory complex.
Science. 1999 Jun 18;284(5422):1961-6
Izutsu K, Wada C, Komine Y, Sako T, Ueguchi C, Nakura S, Wada A
Escherichia coli ribosome-associated protein SRA, whose copy number increases during stationary phase.
J Bacteriol. 2001 May;183(9):2765-73.
Jasiecki J, Wegrzyn G
Localization of Escherichia coli poly(A) polymerase I in cellular membrane.
Biochem Biophys Res Commun. 2005 Apr 8;329(2):598-602.
Jayasinghe S, Hristova K, White SH
MPtopo: A database of membrane protein topology.
Protein Sci. 2001 Feb;10(2):455-8
Jormakka M, Tornroth S, Byrne B, Iwata S
Molecular basis of proton motive force generation: structure of formate dehydrogenase-N.
Science. 2002 Mar 8;295(5561):1863-8.
Kahaleh MB, Yin TG
Enhanced expression of high-affinity interleukin-2 receptors in scleroderma: possible role for IL-6.
Clin Immunol Immunopathol. 1992 Jan;62(1 Pt 1):97-102.
Kakuda H, Shiroishi K, Hosono K, Ichihara S
Construction of Pta-Ack pathway deletion mutants of Escherichia coli and characteristic growth profiles of the mutants in a rich medium.
Biosci Biotechnol Biochem. 1994 Dec;58(12):2232-5
Kato J, Suzuki H, Ikeda H
Purification and characterization of DNA topoisomerase IV in Escherichia coli.
J Biol Chem. 1992 Dec 25;267(36):25676-84.
Kawamoto H, Morita T, Shimizu A, Inada T, Aiba H
Implication of membrane localization of target mRNA in the action of a small RNA: mechanism of post-transcriptional regulation of glucose transporter in Escherichia coli.
Genes Dev. 2005 Feb 1;19(3):328-38. Epub 2005 Jan 13.
Kawasaki T, Miyata I, Esaki K, Nose Y
Thiamine uptake in Escherichia coli. I. General properties of thiamine uptake system in Escherichia coli.
Arch Biochem Biophys. 1969 Apr;131(1):223-30.
Keyhani N, Rodgers ME, Demeler B, Hansen JC, Roseman S
Analytical sedimentation of the IIAChb and IIBChb proteins of the Escherichia coli N,N'-diacetylchitobiose phosphotransferase system. Demonstration of a model phosphotransfer transition state complex.
J Biol Chem. 2000 Oct 20;275(42):33110-5.
Khademi S, O'Connell J 3rd, Remis J, Robles-Colmenares Y, Miercke LJ, Stroud RM
Mechanism of ammonia transport by Amt/MEP/Rh: structure of AmtB at 1.35 A.
Science. 2004 Sep 10;305(5690):1587-94
Khemici V, Poljak L, Luisi BF, Carpousis AJ
The RNase E of Escherichia coli is a membrane-binding protein.
Mol Microbiol. 2008 Nov;70(4):799-813. doi: 10.1111/j.1365-2958.2008.06454.x. Epub 2008 Oct 2.
Kim SK, Wang JC
Localization of F plasmid SopB protein to positions near the poles of Escherichia coli cells.
Proc Natl Acad Sci U S A. 1998 Feb 17;95(4):1523-7.
King GF, Rowland SL, Pan B, Mackay JP, Mullen GP, Rothfield LI
The dimerization and topological specificity functions of MinE reside in a structurally autonomous C-terminal domain.
Mol Microbiol. 1999 Feb;31(4):1161-9.
Klemm P
The fimA gene encoding the type-1 fimbrial subunit of Escherichia coli. Nucleotide sequence and primary structure of the protein.
Eur J Biochem. 1984 Sep 3;143(2):395-9.
Klemm P, Christiansen G
Three fim genes required for the regulation of length and mediation of adhesion of Escherichia coli type 1 fimbriae.
Mol Gen Genet. 1987 Jul;208(3):439-45.
Kobayashi N, Nishino K, Yamaguchi A
Novel macrolide-specific ABC-type efflux transporter in Escherichia coli.
J Bacteriol. 2001 Oct;183(19):5639-44.
Kobayashi R, Suzuki T, Yoshida M
Escherichia coli phage-shock protein A (PspA) binds to membrane phospholipids and repairs proton leakage of the damaged membranes.
Mol Microbiol. 2007 Oct;66(1):100-9. Epub 2007 Aug 28.
Kobayashi T, Kudo I, Karasawa K, Mizushima H, Inoue K, Nojima S
Nucleotide sequence of the pldB gene and characteristics of deduced amino acid sequence of lysophospholipase L2 in Escherichia coli.
J Biochem. 1985 Oct;98(4):1017-25.
Koch HG, Moser M, Schimz KL, Muller M
The integration of YidC into the cytoplasmic membrane of Escherichia coli requires the signal recognition particle, SecA and SecYEG.
J Biol Chem. 2002 Feb 22;277(8):5715-8
Korea CG, Badouraly R, Prevost MC, Ghigo JM, Beloin C
Escherichia coli K-12 possesses multiple cryptic but functional chaperone-usher fimbriae with distinct surface specificities.
Environ Microbiol. 2010 Jul;12(7):1957-77. doi: 10.1111/j.1462-2920.2010.02202.x. Epub 2010 Mar 23.
Koronakis V, Sharff A, Koronakis E, Luisi B, Hughes C
Crystal structure of the bacterial membrane protein TolC central to multidrug efflux and protein export.
Nature. 2000 Jun 22;405(6789):914-9
Kosinski J, Feder M, Bujnicki JM
The PD-(D/E)XK superfamily revisited: identification of new members among proteins involved in DNA metabolism and functional predictions for domains of (hitherto) unknown function.
BMC Bioinformatics. 2005 Jul 12;6:172.
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