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Items: 37

1.

Structural Basis of Transcription Inhibition by Fidaxomicin (Lipiarmycin A3).

Lin W, Das K, Degen D, Mazumder A, Duchi D, Wang D, Ebright YW, Ebright RY, Sineva E, Gigliotti M, Srivastava A, Mandal S, Jiang Y, Liu Y, Yin R, Zhang Z, Eng ET, Thomas D, Donadio S, Zhang H, Zhang C, Kapanidis AN, Ebright RH.

Mol Cell. 2018 Apr 5;70(1):60-71.e15. doi: 10.1016/j.molcel.2018.02.026. Epub 2018 Mar 29.

PMID:
29606590
2.

Structural Basis of Mycobacterium tuberculosis Transcription and Transcription Inhibition.

Lin W, Mandal S, Degen D, Liu Y, Ebright YW, Li S, Feng Y, Zhang Y, Mandal S, Jiang Y, Liu S, Gigliotti M, Talaue M, Connell N, Das K, Arnold E, Ebright RH.

Mol Cell. 2017 Apr 20;66(2):169-179.e8. doi: 10.1016/j.molcel.2017.03.001. Epub 2017 Apr 6.

3.

Structural Basis of Transcription Inhibition by CBR Hydroxamidines and CBR Pyrazoles.

Feng Y, Degen D, Wang X, Gigliotti M, Liu S, Zhang Y, Das D, Michalchuk T, Ebright YW, Talaue M, Connell N, Ebright RH.

Structure. 2015 Aug 4;23(8):1470-1481. doi: 10.1016/j.str.2015.06.009. Epub 2015 Jul 16.

4.

Site-specific incorporation of probes into RNA polymerase by unnatural-amino-acid mutagenesis and Staudinger-Bertozzi ligation.

Chakraborty A, Mazumder A, Lin M, Hasemeyer A, Xu Q, Wang D, Ebright YW, Ebright RH.

Methods Mol Biol. 2015;1276:101-31. doi: 10.1007/978-1-4939-2392-2_6.

5.

Transcription inhibition by the depsipeptide antibiotic salinamide A.

Degen D, Feng Y, Zhang Y, Ebright KY, Ebright YW, Gigliotti M, Vahedian-Movahed H, Mandal S, Talaue M, Connell N, Arnold E, Fenical W, Ebright RH.

Elife. 2014 Apr 30;3:e02451. doi: 10.7554/eLife.02451.

6.

GE23077 binds to the RNA polymerase 'i' and 'i+1' sites and prevents the binding of initiating nucleotides.

Zhang Y, Degen D, Ho MX, Sineva E, Ebright KY, Ebright YW, Mekler V, Vahedian-Movahed H, Feng Y, Yin R, Tuske S, Irschik H, Jansen R, Maffioli S, Donadio S, Arnold E, Ebright RH.

Elife. 2014 Apr 22;3:e02450. doi: 10.7554/eLife.02450.

7.

Frequency, spectrum, and nonzero fitness costs of resistance to myxopyronin in Staphylococcus aureus.

Srivastava A, Degen D, Ebright YW, Ebright RH.

Antimicrob Agents Chemother. 2012 Dec;56(12):6250-5. doi: 10.1128/AAC.01060-12. Epub 2012 Sep 24.

8.

Opening and closing of the bacterial RNA polymerase clamp.

Chakraborty A, Wang D, Ebright YW, Korlann Y, Kortkhonjia E, Kim T, Chowdhury S, Wigneshweraraj S, Irschik H, Jansen R, Nixon BT, Knight J, Weiss S, Ebright RH.

Science. 2012 Aug 3;337(6094):591-5. doi: 10.1126/science.1218716.

9.

New target for inhibition of bacterial RNA polymerase: 'switch region'.

Srivastava A, Talaue M, Liu S, Degen D, Ebright RY, Sineva E, Chakraborty A, Druzhinin SY, Chatterjee S, Mukhopadhyay J, Ebright YW, Zozula A, Shen J, Sengupta S, Niedfeldt RR, Xin C, Kaneko T, Irschik H, Jansen R, Donadio S, Connell N, Ebright RH.

Curr Opin Microbiol. 2011 Oct;14(5):532-43. doi: 10.1016/j.mib.2011.07.030. Epub 2011 Aug 19. Review.

10.
11.
12.

HEN1 recognizes 21-24 nt small RNA duplexes and deposits a methyl group onto the 2' OH of the 3' terminal nucleotide.

Yang Z, Ebright YW, Yu B, Chen X.

Nucleic Acids Res. 2006 Jan 30;34(2):667-75. Print 2006.

13.

Fluorescence resonance energy transfer (FRET) in analysis of transcription-complex structure and function.

Mukhopadhyay J, Mekler V, Kortkhonjia E, Kapanidis AN, Ebright YW, Ebright RH.

Methods Enzymol. 2003;371:144-59. No abstract available.

PMID:
14712697
14.

Structural basis of transcription activation: the CAP-alpha CTD-DNA complex.

Benoff B, Yang H, Lawson CL, Parkinson G, Liu J, Blatter E, Ebright YW, Berman HM, Ebright RH.

Science. 2002 Aug 30;297(5586):1562-6.

15.

Structural organization of bacterial RNA polymerase holoenzyme and the RNA polymerase-promoter open complex.

Mekler V, Kortkhonjia E, Mukhopadhyay J, Knight J, Revyakin A, Kapanidis AN, Niu W, Ebright YW, Levy R, Ebright RH.

Cell. 2002 Mar 8;108(5):599-614.

16.
17.

Mean DNA bend angle and distribution of DNA bend angles in the CAP-DNA complex in solution.

Kapanidis AN, Ebright YW, Ludescher RD, Chan S, Ebright RH.

J Mol Biol. 2001 Sep 21;312(3):453-68.

PMID:
11563909
18.

Translocation of sigma(70) with RNA polymerase during transcription: fluorescence resonance energy transfer assay for movement relative to DNA.

Mukhopadhyay J, Kapanidis AN, Mekler V, Kortkhonjia E, Ebright YW, Ebright RH.

Cell. 2001 Aug 24;106(4):453-63.

19.

High-resolution mapping of nucleoprotein complexes by site-specific protein-DNA photocrosslinking: organization of the human TBP-TFIIA-TFIIB-DNA quaternary complex.

Lagrange T, Kim TK, Orphanides G, Ebright YW, Ebright RH, Reinberg D.

Proc Natl Acad Sci U S A. 1996 Oct 1;93(20):10620-5.

20.

Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface.

Parkinson G, Wilson C, Gunasekera A, Ebright YW, Ebright RH, Berman HM.

J Mol Biol. 1996 Jul 19;260(3):395-408. Erratum in: J Mol Biol. 2011 Nov 18;414(1):163. Ebright, R E [corrected to Ebright, R H].

PMID:
8757802
21.

S-[2-(4-azidosalicylamido)ethylthio]-2-thiopyridine: radioiodinatable, cleavable, photoactivatible cross-linking agent.

Ebright YW, Chen Y, Kim Y, Ebright RH.

Bioconjug Chem. 1996 May-Jun;7(3):380-4.

PMID:
8816963
22.
23.

High-specificity DNA cleavage agent: design and application to kilobase and megabase DNA substrates.

Pendergrast PS, Ebright YW, Ebright RH.

Science. 1994 Aug 12;265(5174):959-62.

PMID:
8052855
24.

Identification of the target of a transcription activator protein by protein-protein photocrosslinking.

Chen Y, Ebright YW, Ebright RH.

Science. 1994 Jul 1;265(5168):90-2.

PMID:
8016656
25.

DNA affinity cleaving analysis of homeodomain-DNA interaction: identification of homeodomain consensus sites in genomic DNA.

Shang Z, Ebright YW, Iler N, Pendergrast PS, Echelard Y, McMahon AP, Ebright RH, Abate C.

Proc Natl Acad Sci U S A. 1994 Jan 4;91(1):118-22.

26.
27.

CAP interacts with RNA polymerase in solution in the absence of promoter DNA.

Heyduk T, Lee JC, Ebright YW, Blatter EE, Zhou Y, Ebright RH.

Nature. 1993 Aug 5;364(6437):548-9.

PMID:
8393148
28.
30.

Determination of the orientation of a DNA binding motif in a protein-DNA complex by photocrosslinking.

Pendergrast PS, Chen Y, Ebright YW, Ebright RH.

Proc Natl Acad Sci U S A. 1992 Nov 1;89(21):10287-91.

31.

Identification of an amino acid-base contact in the GCN4-DNA complex by bromouracil-mediated photocrosslinking.

Blatter EE, Ebright YW, Ebright RH.

Nature. 1992 Oct 15;359(6396):650-2.

PMID:
1406998
32.

DNA sequence determinants for binding of the Escherichia coli catabolite gene activator protein.

Gunasekera A, Ebright YW, Ebright RH.

J Biol Chem. 1992 Jul 25;267(21):14713-20.

34.
35.

DNA-sequence recognition by CAP: role of the adenine N6 atom of base pair 6 of the DNA site.

Gunasekera A, Ebright YW, Ebright RH.

Nucleic Acids Res. 1990 Dec 11;18(23):6853-6.

36.

Conversion of a helix-turn-helix motif sequence-specific DNA binding protein into a site-specific DNA cleavage agent.

Ebright RH, Ebright YW, Pendergrast PS, Gunasekera A.

Proc Natl Acad Sci U S A. 1990 Apr;87(8):2882-6.

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