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

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Protein with experimentally verified sub-cellular topologies

Pubmed ID
First Author
Publication Title
Relevant Protein
Tanaka Y, Itoh F, Kimata K, Aiba H
Mol Microbiol. 2004 Aug;53(3):941-51.
Membrane localization itself but not binding to IICB is directly responsible for the inactivation of the global repressor Mlc in Escherichia coli.
Khademi S, O'Connell J 3rd, Remis J, Robles-Colmenares Y, Miercke LJ, Stroud RM
Science. 2004 Sep 10;305(5690):1587-94
Mechanism of ammonia transport by Amt/MEP/Rh: structure of AmtB at 1.35 A.
Prud'homme-Genereux A, Beran RK, Iost I, Ramey CS, Mackie GA, Simons RW
Mol Microbiol. 2004 Dec;54(5):1409-21.
Physical and functional interactions among RNase E, polynucleotide phosphorylase and the cold-shock protein, CsdA: evidence for a 'cold shock degradosome'.
Gonnet P, Rudd KE, Lisacek F
Proteomics. 2004 Jun;4(6):1597-613.
Fine-tuning the prediction of sequences cleaved by signal peptidase II: a curated set of proven and predicted lipoproteins of Escherichia coli K-12.
Henderson IR, Navarro-Garcia F, Desvaux M, Fernandez RC, Ala'Aldeen D
Microbiol Mol Biol Rev. 2004 Dec;68(4):692-744.
Type V protein secretion pathway: the autotransporter story.
Kawamoto H, Morita T, Shimizu A, Inada T, Aiba H
Genes Dev. 2005 Feb 1;19(3):328-38. Epub 2005 Jan 13.
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.
Villa E, Balaeff A, Schulten K
Proc Natl Acad Sci U S A. 2005 May 10;102(19):6783-8. Epub 2005 Apr 29.
Structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation.
Lopez-Campistrous A, Semchuk P, Burke L, Palmer-Stone T, Brokx SJ, Broderick G, Bottorff D, Bolch S, Weiner JH, Ellison MJ
Mol Cell Proteomics. 2005 Aug;4(8):1205-9. Epub 2005 May 19.
Localization, annotation, and comparison of the Escherichia coli K-12 proteome under two states of growth.
Spelbrink RE, Kolkman A, Slijper M, Killian JA, de Kruijff B.
J Biol Chem. 2005
Detection and identification of stable oligomeric protein complexes in Escherichi coli inner membranes: a proteomics approach.
Coles M, Djuranovic S, Soding J, Frickey T, Koretke K, Truffault V, Martin J, Lupas AN
Structure. 2005 Jun;13(6):919-28.
AbrB-like transcription factors assume a swapped hairpin fold that is evolutionarily related to double-psi beta barrels.
Amarneh B, Vik SB
Cell Biochem Biophys. 2005;42(3):251-61.
Direct transfer of NADH from malate dehydrogenase to complex I in Escherichia coli.
Engels S, Ludwig C, Schweitzer JE, Mack C, Bott M, Schaffer S
Mol Microbiol. 2005 Jul;57(2):576-91.
The transcriptional activator ClgR controls transcription of genes involved in proteolysis and DNA repair in Corynebacterium glutamicum.
Hunte C, Screpanti E, Venturi M, Rimon A, Padan E, Michel H
Nature. 2005 Jun 30;435(7046):1197-202
Structure of a Na+/H+ antiporter and insights into mechanism of action and regulation by pH.
Kosinski J, Feder M, Bujnicki JM
BMC Bioinformatics. 2005 Jul 12;6:172.
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.
Stenberg F, Chovanec P, Maslen SL, Robinson CV, Ilag LL, von Heijne G, Daley DO
J Biol Chem. 2005 Oct 14;280(41):34409-19. Epub 2005 Aug 3.
Protein complexes of the Escherichia coli cell envelope.
Sauter M, Bohm R, Bock A
Mol Microbiol. 1992 Jun;6(11):1523-32.
Mutational analysis of the operon (hyc) determining hydrogenase 3 formation in Escherichia coli.
Xu C, Lin X, Ren H, Zhang Y, Wang S, Peng X
Proteomics. 2006 Jan;6(2):462-73.
Analysis of outer membrane proteome of Escherichia coli related to resistance to ampicillin and tetracycline.
Kruse T, Blagoev B, Løbner-Olesen A, Wachi M, Sasaki K, Iwai N, Mann M, Gerdes K
Genes Dev. 2006 Jan 1;20(1):113-24
Actin homolog MreB and RNA polymerase interact and are both required for chromosome segregation in Escherichia coli.
Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G 3rd, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL
Nucleic Acids Res. 2006 Jan 5;34(1):1-9. Print 2006.
Escherichia coli K-12: a cooperatively developed annotation snapshot--2005.
Brombacher E, Baratto A, Dorel C, Landini P
J Bacteriol. 2006 Mar;188(6):2027-37.
Gene expression regulation by the Curli activator CsgD protein: modulation of cellulose biosynthesis and control of negative determinants for microbial adhesion.
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