This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.
Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.
5mg0
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
==Structure of PAS-GAF fragment of Deinococcus phytochrome by serial femtosecond crystallography== | ==Structure of PAS-GAF fragment of Deinococcus phytochrome by serial femtosecond crystallography== | ||
| - | <StructureSection load='5mg0' size='340' side='right' caption='[[5mg0]], [[Resolution|resolution]] 1.65Å' scene=''> | + | <StructureSection load='5mg0' size='340' side='right'caption='[[5mg0]], [[Resolution|resolution]] 1.65Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[5mg0]] is a 1 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[5mg0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinococcus_radiodurans_R1 Deinococcus radiodurans R1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MG0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MG0 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LBV:3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3-METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4-METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3-ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2-YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC+ACID'>LBV</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65Å</td></tr> |
| - | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=LBV:3-[2-[(Z)-[3-(2-CARBOXYETHYL)-5-[(Z)-(4-ETHENYL-3-METHYL-5-OXIDANYLIDENE-PYRROL-2-YLIDENE)METHYL]-4-METHYL-PYRROL-1-IUM-2-YLIDENE]METHYL]-5-[(Z)-[(3E)-3-ETHYLIDENE-4-METHYL-5-OXIDANYLIDENE-PYRROLIDIN-2-YLIDENE]METHYL]-4-METHYL-1H-PYRROL-3-YL]PROPANOIC+ACID'>LBV</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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=5mg0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5mg0 OCA], [https://pdbe.org/5mg0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5mg0 RCSB], [https://www.ebi.ac.uk/pdbsum/5mg0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5mg0 ProSAT]</span></td></tr> | |
| - | + | ||
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | |
</table> | </table> | ||
== Function == | == Function == | ||
| - | [ | + | [https://www.uniprot.org/uniprot/BPHY_DEIRA BPHY_DEIRA] Photoreceptor which exists in two forms that are reversibly interconvertible by light: the R form that absorbs maximally in the red region of the spectrum and the FR form that absorbs maximally in the far-red region. Has also a slight blue shift for the far-red maximum. Could also absorb green light. May participate in regulating pigment synthesis like the carotenoid deinoxanthin which could protect the bacterium from intense visible light. |
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
| Line 25: | Line 23: | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
| - | [[Category: | + | [[Category: Deinococcus radiodurans R1]] |
| - | [[Category: | + | [[Category: Large Structures]] |
| - | [[Category: Aller | + | [[Category: Aller P]] |
| - | [[Category: Alonso-Mori | + | [[Category: Alonso-Mori R]] |
| - | [[Category: Braeuer | + | [[Category: Braeuer P]] |
| - | [[Category: Brewster | + | [[Category: Brewster AS]] |
| - | [[Category: Burgie | + | [[Category: Burgie ES]] |
| - | [[Category: Clinger | + | [[Category: Clinger J]] |
| - | [[Category: Fuller | + | [[Category: Fuller FD]] |
| - | [[Category: Gul | + | [[Category: Gul S]] |
| - | [[Category: Hutchison | + | [[Category: Hutchison C]] |
| - | [[Category: Kern | + | [[Category: Kern J]] |
| - | [[Category: Miller | + | [[Category: Miller MD]] |
| - | [[Category: Orville | + | [[Category: Orville AM]] |
| - | [[Category: Phillips | + | [[Category: Phillips Jr GN]] |
| - | [[Category: Sauter | + | [[Category: Sauter NK]] |
| - | [[Category: Vierstra | + | [[Category: Vierstra RD]] |
| - | [[Category: Yachandra | + | [[Category: Yachandra VK]] |
| - | [[Category: Yano | + | [[Category: Yano J]] |
| - | [[Category: Young | + | [[Category: Young ID]] |
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
| - | + | ||
Current revision
Structure of PAS-GAF fragment of Deinococcus phytochrome by serial femtosecond crystallography
| |||||||||||
Categories: Deinococcus radiodurans R1 | Large Structures | Aller P | Alonso-Mori R | Braeuer P | Brewster AS | Burgie ES | Clinger J | Fuller FD | Gul S | Hutchison C | Kern J | Miller MD | Orville AM | Phillips Jr GN | Sauter NK | Vierstra RD | Yachandra VK | Yano J | Young ID
