46338 Search Results


t thermophilus strain h8  (DSMZ)
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DSMZ t thermophilus strain h8
A, RNAP open (red), partly closed (yellow), and closed (green) clamp conformational states. Mtb RNAP-Lpm main mass (view as in Figs. 1-​-2)2) and, superimposed, RNAP clamps from crystal structures of T. <t>thermophilus</t> RNAP in different crystal lattices [T. thermophilus RNAP with open clamp (red; structure determined in this work to enable comparison of open-clamp, partly-closed-clamp, and closed-clamp states of RNAP from a single bacterial species; Table 2), T. thermophilus RNAP with partly open clamp (yellow; PDB: 5TMC), and T. thermophilus RPo (green; PDB: 4G7H)]. B, RNAP open-clamp state in Mtb RNAP-Lpm. Red, clamp in Mtb RNAP-Lpm. Other colors as in A. C, Comparisons of RNAP clamp conformation in Mtb RNAP-Lpm to RNAP clamp conformations in crystal structures of Tth RNAP with open clamp (left; Table 2), Tth RNAP with partly closed clamp (center; PDB: 5TMC), and Tth RPo with closed clamp (right; PDB: 4G7H). Each image shows Mtb RNAP-Lpm (clamp in red; view orientation and other colors as in Figs. 1-​-2)2) and, superimposed, the RNAP clamp of the comparator structure (gray). D, Stereodiagram of Lpm binding site showing conformations of RNAP structural elements SW1, SW2, SW3, SW4, βa16α1, and β'a4α1, in open-clamp (red; Mtb RNAP-Lpm), partly-closed clamp (yellow; PDB: 5TMC), and closed-clamp (green; PDB: 4G7H) states. RNAP switches. SW1, SW2, SW3, and SW4 are shown with ends that connect to the RNAP clamp as numbered circles, and ends that connect to the RNAP main mass as numbered squares. Cyan, Lpm.
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A, RNAP open (red), partly closed (yellow), and closed (green) clamp conformational states. Mtb RNAP-Lpm main mass (view as in Figs. 1-​-2)2) and, superimposed, RNAP clamps from crystal structures of T. thermophilus RNAP in different crystal lattices [T. thermophilus RNAP with open clamp (red; structure determined in this work to enable comparison of open-clamp, partly-closed-clamp, and closed-clamp states of RNAP from a single bacterial species; Table 2), T. thermophilus RNAP with partly open clamp (yellow; PDB: 5TMC), and T. thermophilus RPo (green; PDB: 4G7H)]. B, RNAP open-clamp state in Mtb RNAP-Lpm. Red, clamp in Mtb RNAP-Lpm. Other colors as in A. C, Comparisons of RNAP clamp conformation in Mtb RNAP-Lpm to RNAP clamp conformations in crystal structures of Tth RNAP with open clamp (left; Table 2), Tth RNAP with partly closed clamp (center; PDB: 5TMC), and Tth RPo with closed clamp (right; PDB: 4G7H). Each image shows Mtb RNAP-Lpm (clamp in red; view orientation and other colors as in Figs. 1-​-2)2) and, superimposed, the RNAP clamp of the comparator structure (gray). D, Stereodiagram of Lpm binding site showing conformations of RNAP structural elements SW1, SW2, SW3, SW4, βa16α1, and β'a4α1, in open-clamp (red; Mtb RNAP-Lpm), partly-closed clamp (yellow; PDB: 5TMC), and closed-clamp (green; PDB: 4G7H) states. RNAP switches. SW1, SW2, SW3, and SW4 are shown with ends that connect to the RNAP clamp as numbered circles, and ends that connect to the RNAP main mass as numbered squares. Cyan, Lpm.

Journal: Molecular cell

Article Title: STRUCTURAL BASIS OF TRANSCRIPTION INHIBITION BY FIDAXOMICIN (LIPIARMYCIN A3)

doi: 10.1016/j.molcel.2018.02.026

Figure Lengend Snippet: A, RNAP open (red), partly closed (yellow), and closed (green) clamp conformational states. Mtb RNAP-Lpm main mass (view as in Figs. 1-​-2)2) and, superimposed, RNAP clamps from crystal structures of T. thermophilus RNAP in different crystal lattices [T. thermophilus RNAP with open clamp (red; structure determined in this work to enable comparison of open-clamp, partly-closed-clamp, and closed-clamp states of RNAP from a single bacterial species; Table 2), T. thermophilus RNAP with partly open clamp (yellow; PDB: 5TMC), and T. thermophilus RPo (green; PDB: 4G7H)]. B, RNAP open-clamp state in Mtb RNAP-Lpm. Red, clamp in Mtb RNAP-Lpm. Other colors as in A. C, Comparisons of RNAP clamp conformation in Mtb RNAP-Lpm to RNAP clamp conformations in crystal structures of Tth RNAP with open clamp (left; Table 2), Tth RNAP with partly closed clamp (center; PDB: 5TMC), and Tth RPo with closed clamp (right; PDB: 4G7H). Each image shows Mtb RNAP-Lpm (clamp in red; view orientation and other colors as in Figs. 1-​-2)2) and, superimposed, the RNAP clamp of the comparator structure (gray). D, Stereodiagram of Lpm binding site showing conformations of RNAP structural elements SW1, SW2, SW3, SW4, βa16α1, and β'a4α1, in open-clamp (red; Mtb RNAP-Lpm), partly-closed clamp (yellow; PDB: 5TMC), and closed-clamp (green; PDB: 4G7H) states. RNAP switches. SW1, SW2, SW3, and SW4 are shown with ends that connect to the RNAP clamp as numbered circles, and ends that connect to the RNAP main mass as numbered squares. Cyan, Lpm.

Article Snippet: T. thermophilus RNAP core enzyme was prepared from T. thermophilus strain H8 (DSM 579; DSMZ), using cell lysis, polyethylenimine precipitation, ammonium sulfate precipitation, cation-exchange chromatography on SP Sepharose FF (GE Healthcare), anion-exchange chromatography on Mono Q 10/100 GL (GE Healthcare), and cation-exchange chromatography on Mono S HR (GE Healthcare), as in Zhang et al., 2012 and Maffioli et al., 2017 .

Techniques: Comparison, Binding Assay