View source for 5aqd


==Crystal structure of Phormidium Phycoerythrin at pH 8.5==
<StructureSection load='5aqd' size='340' side='right'caption='[[5aqd]], [[Resolution|resolution]] 2.12&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5aqd]] is a 24 chain structure with sequence from [https://en.wikipedia.org/wiki/Phormidium_rubidum_A09DM Phormidium rubidum A09DM]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AQD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5AQD 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]] 2.121&#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=MEN:N-METHYL+ASPARAGINE'>MEN</scene>, <scene name='pdbligand=PEB:PHYCOERYTHROBILIN'>PEB</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=5aqd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5aqd OCA], [https://pdbe.org/5aqd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5aqd RCSB], [https://www.ebi.ac.uk/pdbsum/5aqd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5aqd ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/A0A0E3W010_9CYAN A0A0E3W010_9CYAN] 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The role of unique sequence features of C-phycoerythrin, isolated from Phormidium sp. A09DM, has been investigated by crystallographic studies. Two conserved indels (i.e. inserts or deletions) are found in the beta-subunit of Phormidium phycoerythrin that are distinctive characteristics of large number of cyanobacterial sequences. The identified signatures are a two-residue deletion from position 21 and a nine-residue insertion at position 146. Crystals of Phormidium phycoerythrin were obtained at pH values of 5 and 8.5, and structures have been resolved to high precision at 1.95 and 2.1 A resolution, respectively. In both the structures, heterodimers of alpha- and beta- subunits assemble as hexamers. The 7-residue insertion at position 146 significantly reduces solvent exposure of pi-conjugated A-C rings of a phycoerythrobilin (PEB) chromophore, and can influence energy absorption and energy transfer characteristics. The structural analyses (with 12-fold redundancy) suggest that protein micro-environment alone dictates the conformation of bound chromophores. The low- and high-energy absorbing chromophores are identified based on A-B ring coplanarity. The spatial distribution of these is found to be similar to that observed in R-phycoerythrin, suggesting the direction of energy transfer from outer-surface of hexamer to inner-hollow cavity in the Phormidium protein. The crystal structures also reveal that a commonly observed Hydrogen-bonding network in phycobiliproteins, involving chromophore bound to alpha-subunit and amino acid at position 73 of beta-subunit, may not be essential for structural and functional integrity of C-phycoerythrin orthologs. In solution, the protein displays slight red shift and decrease in fluorescence emission at acidic pH. The mechanism for which may be static and correlates with the proximity of +ve electric field of Arg148 to the C-ring of a PEB chromophore.

Crystal structure analysis of C-phycoerythrin from marine cyanobacterium Phormidium sp. A09DM.,Kumar V, Sonani RR, Sharma M, Gupta GD, Madamwar D Photosynth Res. 2016 Jul;129(1):17-28. doi: 10.1007/s11120-016-0259-5. Epub 2016 , Apr 11. PMID:27068646<ref>PMID:27068646</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5aqd" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Phormidium rubidum A09DM]]
[[Category: Gupta GD]]
[[Category: Kumar V]]
[[Category: Madamwar D]]
[[Category: Sharma M]]
[[Category: Sonani RR]]