6f6w

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(Difference between revisions)

Revision as of 06:45, 31 July 2019

Structure of Mycobacterium smegmatis RNA polymerase core

Structural highlights

6f6w is a 5 chain structure with sequence from Mycs2. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Related:	6eyd
Gene:	rpoA, MSMEG_1524, MSMEI_1488 (MYCS2), rpoB, MSMEG_1367, MSMEI_1328 (MYCS2), rpoC, MSMEG_1368, MSMEI_1329 (MYCS2), rpoZ, MSMEG_3053, MSMEI_2977 (MYCS2)
Activity:	DNA-directed RNA polymerase, with EC number 2.7.7.6
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RPOZ_MYCS2] Promotes RNA polymerase assembly. Latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits.[HAMAP-Rule:MF_00366]^[1] [RPOA_MYCS2] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_00059]^[2] [RPOC_MYCS2] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.[HAMAP-Rule:MF_01322]^[3] [RPOB_MYCS2] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. This subunit often mutates to generate rifampicin (Rif) resistance. Interaction with RbpA partially restores Rif-inhibited transcription; once the subunit is Rif-resistant however RbpA no longer stimulates transcription.[HAMAP-Rule:MF_01321]^[4]

Publication Abstract from PubMed

Bacterial RNA polymerase (RNAP) is essential for gene expression and as such is a valid drug target. Hence, it is imperative to know its structure and dynamics. Here, we present two so far unreported forms of Mycobacteium smegmatis RNAP: core, and holoenzyme containing sigma(A) but no other factors. Each form was detected by cryo-EM in two major conformations. Comparisons of these structures with known structures of other RNAPs reveal a high degree of conformational flexibility of the mycobacterial enzyme, and confirm that region 1.1 of sigma(A) is directed into the primary channel of RNAP. Taken together, the presented study illuminates the conformational changes of unrestrained mycobacterial RNAP.IMPORTANCE We describe here 3D structures of core and holoenzyme forms of mycobacterial RNA polymerase (RNAP) solved by cryo-EM. These structures fill the so far empty spots in the gallery of the pivotal forms of mycobacterial RNAP and illuminate the extent of conformational dynamics of this enzyme. The presented findings may facilitate future designs of antimycobacterial drugs targeting RNAP.

The Core and Holoenzyme forms of RNA Polymerase from Mycobacterium smegmatis.,Kouba T, Pospisil J, Hnilicova J, Sanderova H, Barvik I, Krasny L J Bacteriol. 2018 Nov 26. pii: JB.00583-18. doi: 10.1128/JB.00583-18. PMID:30478083^[5]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Dey A, Verma AK, Chatterji D. Role of an RNA polymerase interacting protein, MsRbpA, from Mycobacterium smegmatis in phenotypic tolerance to rifampicin. Microbiology. 2010 Mar;156(Pt 3):873-83. doi: 10.1099/mic.0.033670-0. Epub 2009, Nov 19. PMID:19926651 doi:http://dx.doi.org/10.1099/mic.0.033670-0
↑ Dey A, Verma AK, Chatterji D. Role of an RNA polymerase interacting protein, MsRbpA, from Mycobacterium smegmatis in phenotypic tolerance to rifampicin. Microbiology. 2010 Mar;156(Pt 3):873-83. doi: 10.1099/mic.0.033670-0. Epub 2009, Nov 19. PMID:19926651 doi:http://dx.doi.org/10.1099/mic.0.033670-0
↑ Dey A, Verma AK, Chatterji D. Role of an RNA polymerase interacting protein, MsRbpA, from Mycobacterium smegmatis in phenotypic tolerance to rifampicin. Microbiology. 2010 Mar;156(Pt 3):873-83. doi: 10.1099/mic.0.033670-0. Epub 2009, Nov 19. PMID:19926651 doi:http://dx.doi.org/10.1099/mic.0.033670-0
↑ Dey A, Verma AK, Chatterji D. Role of an RNA polymerase interacting protein, MsRbpA, from Mycobacterium smegmatis in phenotypic tolerance to rifampicin. Microbiology. 2010 Mar;156(Pt 3):873-83. doi: 10.1099/mic.0.033670-0. Epub 2009, Nov 19. PMID:19926651 doi:http://dx.doi.org/10.1099/mic.0.033670-0
↑ Kouba T, Pospisil J, Hnilicova J, Sanderova H, Barvik I, Krasny L. The Core and Holoenzyme forms of RNA Polymerase from Mycobacterium smegmatis. J Bacteriol. 2018 Nov 26. pii: JB.00583-18. doi: 10.1128/JB.00583-18. PMID:30478083 doi:http://dx.doi.org/10.1128/JB.00583-18

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/6f6w"

@@ Line 1: / Line 1: @@
 ==Structure of Mycobacterium smegmatis RNA polymerase core==
-<StructureSection load='6f6w' size='340' side='right' caption='[[6f6w]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
+<StructureSection load='6f6w' size='340' side='right'caption='[[6f6w]], [[Resolution|resolution]] 3.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[6f6w]] is a 5 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F6W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F6W FirstGlance]. <br>
+<table><tr><td colspan='2'>[[6f6w]] is a 5 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycs2 Mycs2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6F6W OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6F6W FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[6eyd|6eyd]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rpoA, MSMEG_1524, MSMEI_1488 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=246196 MYCS2]), rpoB, MSMEG_1367, MSMEI_1328 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=246196 MYCS2]), rpoC, MSMEG_1368, MSMEI_1329 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=246196 MYCS2]), rpoZ, MSMEG_3053, MSMEI_2977 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=246196 MYCS2])</td></tr>
 <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] </span></td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6f6w FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6f6w OCA], [http://pdbe.org/6f6w PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6f6w RCSB], [http://www.ebi.ac.uk/pdbsum/6f6w PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6f6w ProSAT]</span></td></tr>
@@ Line 25: / Line 26: @@
 </StructureSection>
 [[Category: DNA-directed RNA polymerase]]
+[[Category: Large Structures]]
+[[Category: Mycs2]]
 [[Category: Barvik, I]]
 [[Category: Kouba, T]]

6f6w

From Proteopedia

Revision as of 06:45, 31 July 2019

Structure of Mycobacterium smegmatis RNA polymerase core

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

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