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4nc7

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Revision as of 08:48, 10 April 2019

N-terminal domain of delta-subunit of RNA polymerase complexed with I3C and nickel ions

Structural highlights

4nc7 is a 2 chain structure with sequence from Bacsu. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Related:	2krc, 4nc8
Gene:	rpoE, BSU37160 (BACSU)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RPOE_BACSU] Participates in both the initiation and recycling phases of transcription. In the presence of the delta subunit, RNAP displays an increased specificity of transcription, a decreased affinity for nucleic acids, and an increased efficiency of RNA synthesis because of enhanced recycling. May function in sigma factor switching. It displaces RNA bound to RNA polymerase in a binary complex.

Publication Abstract from PubMed

The crystal structure of the N-terminal domain of the RNA polymerase delta subunit (Ndelta) from Bacillus subtilis solved at a resolution of 2.0A is compared with the NMR structure determined previously. The molecule crystallizes in the space group C222(1) with a dimer in the asymmetric unit. Importantly, the X-ray structure exhibits significant differences from the lowest energy NMR structure. In addition to the overall structure differences, structurally important beta sheets found in the NMR structure are not present in the crystal structure. We systematically investigated the cause of the discrepancies between the NMR and X-ray structures of Ndelta, addressing the pH dependence, presence of metal ions, and crystal packing forces. We convincingly showed that the crystal packing forces, together with the presence of Ni2+ ions, are the main reason for such a difference. In summary, the study illustrates that the two structural approaches may give unequal results, which need to be interpreted with care to obtain reliable structural information in terms of biological relevance.

X-ray vs. NMR structure of N-terminal domain of delta-subunit of RNA polymerase.,Demo G, Papouskova V, Komarek J, Kaderavek P, Otrusinova O, Srb P, Rabatinova A, Krasny L, Zidek L, Sklenar V, Wimmerova M J Struct Biol. 2014 Jun 14. pii: S1047-8477(14)00137-3. doi:, 10.1016/j.jsb.2014.06.001. PMID:24937760^[1]

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

References

↑ Demo G, Papouskova V, Komarek J, Kaderavek P, Otrusinova O, Srb P, Rabatinova A, Krasny L, Zidek L, Sklenar V, Wimmerova M. X-ray vs. NMR structure of N-terminal domain of delta-subunit of RNA polymerase. J Struct Biol. 2014 Jun 14. pii: S1047-8477(14)00137-3. doi:, 10.1016/j.jsb.2014.06.001. PMID:24937760 doi:http://dx.doi.org/10.1016/j.jsb.2014.06.001

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4nc7"

@@ Line 1: / Line 1: @@
 ==N-terminal domain of delta-subunit of RNA polymerase complexed with I3C and nickel ions==
-<StructureSection load='4nc7' size='340' side='right' caption='[[4nc7]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='4nc7' size='340' side='right'caption='[[4nc7]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4nc7]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NC7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NC7 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4nc7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bacsu Bacsu]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4NC7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4NC7 FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=I3C:5-AMINO-2,4,6-TRIIODOBENZENE-1,3-DICARBOXYLIC+ACID'>I3C</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2krc|2krc]], [[4nc8|4nc8]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">rpoE, BSU37160 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=224308 BACSU])</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=4nc7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4nc7 OCA], [http://pdbe.org/4nc7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4nc7 RCSB], [http://www.ebi.ac.uk/pdbsum/4nc7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4nc7 ProSAT]</span></td></tr>
 </table>
@@ Line 26: / Line 27: @@
 __TOC__
 </StructureSection>
+[[Category: Bacsu]]
+[[Category: Large Structures]]
 [[Category: Demo, G]]
 [[Category: Komarek, J]]

4nc7

From Proteopedia

Revision as of 08:48, 10 April 2019

N-terminal domain of delta-subunit of RNA polymerase complexed with I3C and nickel ions

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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