5v30: Difference between revisions

(4 intermediate revisions by the same user not shown)

Line 1:

~~'''Unreleased structure'''~~

The ~~entry 5v30~~ is ~~ON HOLD until Mar 06 2019~~

==Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis==

== Structural highlights ==

<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V30 FirstGlance]. <br>

</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.15Å</td></tr>

<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>

<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [https://pdbe.org/5v30 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [https://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>

</table>

== Function ==

[https://www.uniprot.org/uniprot/Q7MVK4_PORGI Q7MVK4_PORGI]

== Publication Abstract from PubMed ==

Although the HcpR regulator plays a vital step in initiation of the nitrosative stress response in many Gram-negative anaerobic bacteria, the molecular mechanisms that it uses to mediate gas sensing are not well understood. Here, a 2.6 A resolution crystal structure of the N-terminal sensing domain of the anaerobic periodontopathogen Porphyromonas gingivalis HcpR is presented. The protein has classical features of the regulators belonging to the FNR-CRP family and contains a hydrophobic pocket in its N-terminal sensing domain. It is shown that heme bound to HcpR exhibits heme iron as a hexacoordinate system in the absence of nitric oxide (NO) and that upon nitrosylation it transitions to a pentacoordinate system. Finally, small-angle X-ray scattering experiments on full-length HcpR reveal that the C-terminal DNA-binding domain of HcpR has a high degree of interdomain flexibility.

~~Authors~~: ~~Musayev, F.N~~., Belvin, ~~B.R.~~, Escalante, C.R., ~~Turner, J~~.~~, Lewis, J~~.P.

Nitrosative stress sensing in Porphyromonas gingivalis: structure of and heme binding by the transcriptional regulator HcpR.,Belvin BR, Musayev FN, Burgner J, Scarsdale JN, Escalante CR, Lewis JP Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):437-450. doi:, 10.1107/S205979831900264X. Epub 2019 Apr 5. PMID:30988260<ref>PMID:30988260</ref>

~~Description: Crystal structure~~ of the ~~sensor domain~~ of ~~the transcriptional regulator HcpR from Porphyromonas Gingivalis~~

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

[[Category: ~~Unreleased~~ Structures]]

</div>

[[Category: ~~Turner, J~~]]

[[Category: ~~Musayev, F.N~~]]

== References ==

[[Category: ~~Belvin, B.R~~]]

[[Category: Lewis~~, J.P~~]]

__TOC__

[[Category: ~~Escalante, C.R~~]]

</StructureSection>

[[Category: Large Structures]]

[[Category: Porphyromonas gingivalis]]

[[Category: Belvin BR]]

[[Category: Escalante CR]]

[[Category: Lewis JP]]

[[Category: Musayev FN]]

[[Category: Turner J]]

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5v30 is ON HOLD  until Mar 06 2019
+==Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis==
+<StructureSection load='5v30' size='340' side='right'caption='[[5v30]], [[Resolution|resolution]] 3.15&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5v30]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porphyromonas_gingivalis Porphyromonas gingivalis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5V30 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5V30 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.15&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5v30 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5v30 OCA], [https://pdbe.org/5v30 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5v30 RCSB], [https://www.ebi.ac.uk/pdbsum/5v30 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5v30 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q7MVK4_PORGI Q7MVK4_PORGI]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Although the HcpR regulator plays a vital step in initiation of the nitrosative stress response in many Gram-negative anaerobic bacteria, the molecular mechanisms that it uses to mediate gas sensing are not well understood. Here, a 2.6 A resolution crystal structure of the N-terminal sensing domain of the anaerobic periodontopathogen Porphyromonas gingivalis HcpR is presented. The protein has classical features of the regulators belonging to the FNR-CRP family and contains a hydrophobic pocket in its N-terminal sensing domain. It is shown that heme bound to HcpR exhibits heme iron as a hexacoordinate system in the absence of nitric oxide (NO) and that upon nitrosylation it transitions to a pentacoordinate system. Finally, small-angle X-ray scattering experiments on full-length HcpR reveal that the C-terminal DNA-binding domain of HcpR has a high degree of interdomain flexibility.
-Authors: Musayev, F.N., Belvin, B.R., Escalante, C.R., Turner, J., Lewis, J.P.
+Nitrosative stress sensing in Porphyromonas gingivalis: structure of and heme binding by the transcriptional regulator HcpR.,Belvin BR, Musayev FN, Burgner J, Scarsdale JN, Escalante CR, Lewis JP Acta Crystallogr D Struct Biol. 2019 Apr 1;75(Pt 4):437-450. doi:, 10.1107/S205979831900264X. Epub 2019 Apr 5. PMID:30988260<ref>PMID:30988260</ref>
-Description: Crystal structure of the sensor domain of the transcriptional regulator HcpR from Porphyromonas Gingivalis
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Turner, J]]
+<div class="pdbe-citations 5v30" style="background-color:#fffaf0;"></div>
-[[Category: Musayev, F.N]]
+== References ==
-[[Category: Belvin, B.R]]
+<references/>
-[[Category: Lewis, J.P]]
+__TOC__
-[[Category: Escalante, C.R]]
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Porphyromonas gingivalis]]
+[[Category: Belvin BR]]
+[[Category: Escalante CR]]
+[[Category: Lewis JP]]
+[[Category: Musayev FN]]
+[[Category: Turner J]]