1t1b: Difference between revisions

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<StructureSection load='1t1b' size='340' side='right'caption='[[1t1b]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
<StructureSection load='1t1b' size='340' side='right'caption='[[1t1b]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[1t1b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dsm_244 Dsm 244]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T1B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T1B FirstGlance]. <br>
<table><tr><td colspan='2'>[[1t1b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halorhodospira_halophila Halorhodospira halophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1T1B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1T1B FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.6&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1t18|1t18]], [[1t19|1t19]], [[1t1a|1t1a]], [[1t1c|1t1c]]</div></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HC4:4-HYDROXYCINNAMIC+ACID'>HC4</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PYP ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1053 DSM 244])</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=1t1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t1b OCA], [https://pdbe.org/1t1b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t1b RCSB], [https://www.ebi.ac.uk/pdbsum/1t1b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t1b ProSAT]</span></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=1t1b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1t1b OCA], [https://pdbe.org/1t1b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1t1b RCSB], [https://www.ebi.ac.uk/pdbsum/1t1b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1t1b ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA]] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.  
[https://www.uniprot.org/uniprot/PYP_HALHA PYP_HALHA] Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1t1b ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1t1b ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In the bacterial photoreceptor photoactive yellow protein (PYP), absorption of blue light by its chromophore leads to a conformational change in the protein associated with differential signaling activity, as it executes a reversible photocycle. Time-resolved Laue crystallography allows structural snapshots (as short as 150 ps) of high crystallographic resolution (approximately 1.6 A) to be taken of a protein as it functions. Here, we analyze by singular value decomposition a comprehensive time-resolved crystallographic data set of the E46Q mutant of PYP throughout the photocycle spanning 10 ns-100 ms. We identify and refine the structures of five distinct intermediates and provide a plausible chemical kinetic mechanism for their inter conversion. A clear structural progression is visible in these intermediates, in which a signal generated at the chromophore propagates through a distinct structural pathway of conserved residues and results in structural changes near the N terminus, over 20 A distant from the chromophore.
A structural pathway for signaling in the E46Q mutant of photoactive yellow protein.,Rajagopal S, Anderson S, Srajer V, Schmidt M, Pahl R, Moffat K Structure. 2005 Jan;13(1):55-63. PMID:15642261<ref>PMID:15642261</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1t1b" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Dsm 244]]
[[Category: Halorhodospira halophila]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Anderson, S]]
[[Category: Anderson S]]
[[Category: Moffat, K]]
[[Category: Moffat K]]
[[Category: Pahl, R]]
[[Category: Pahl R]]
[[Category: Rajagopal, S]]
[[Category: Rajagopal S]]
[[Category: Schmidt, M]]
[[Category: Schmidt M]]
[[Category: Srajer, V]]
[[Category: Srajer V]]
[[Category: Pas domain]]
[[Category: Photoactive yellow protein]]
[[Category: Photoreceptor]]

Latest revision as of 11:37, 1 May 2024

Late intermediate IL2 from time-resolved crystallography of the E46Q mutant of PYPLate intermediate IL2 from time-resolved crystallography of the E46Q mutant of PYP

Structural highlights

1t1b is a 1 chain structure with sequence from Halorhodospira halophila. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.6Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

PYP_HALHA Photoactive blue light protein. Probably functions as a photoreceptor for a negative phototaxis response.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

1t1b, resolution 1.60Å

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OCA
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