6i7f

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: '''Unreleased structure''' The entry 6i7f is ON HOLD Authors: Moreno-Chicano, T., Ebrahim, A.E., Worrall, J.A.R., Strange, R.W., Axford, D., Sherrell, D.A., Sugimoto, H., Tono, K., Owad...)
Current revision (06:27, 15 January 2025) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
-
'''Unreleased structure'''
 
-
The entry 6i7f is ON HOLD
+
==Dehaloperoxidase B from Amphitrite ornata - complex with 2,4-dichlorophenol==
 +
<StructureSection load='6i7f' size='340' side='right'caption='[[6i7f]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[6i7f]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Amphitrite_ornata Amphitrite ornata]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6I7F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6I7F 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]] 1.85&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5JC:2,4-DICHLOROPHENOL'>5JC</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</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=6i7f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6i7f OCA], [https://pdbe.org/6i7f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6i7f RCSB], [https://www.ebi.ac.uk/pdbsum/6i7f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6i7f ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9NAV7_9ANNE Q9NAV7_9ANNE]
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
High-throughput X-ray crystal structures of protein-ligand complexes are critical to pharmaceutical drug development. However, cryocooling of crystals and X-ray radiation damage may distort the observed ligand binding. Serial femtosecond crystallography (SFX) using X-ray free-electron lasers (XFELs) can produce radiation-damage-free room-temperature structures. Ligand-binding studies using SFX have received only modest attention, partly owing to limited beamtime availability and the large quantity of sample that is required per structure determination. Here, a high-throughput approach to determine room-temperature damage-free structures with excellent sample and time efficiency is demonstrated, allowing complexes to be characterized rapidly and without prohibitive sample requirements. This yields high-quality difference density maps allowing unambiguous ligand placement. Crucially, it is demonstrated that ligands similar in size or smaller than those used in fragment-based drug design may be clearly identified in data sets obtained from &lt;1000 diffraction images. This efficiency in both sample and XFEL beamtime opens the door to true high-throughput screening of protein-ligand complexes using SFX.
-
Authors: Moreno-Chicano, T., Ebrahim, A.E., Worrall, J.A.R., Strange, R.W., Axford, D., Sherrell, D.A., Sugimoto, H., Tono, K., Owada, S., Duyvesteyn, H.
+
High-throughput structures of protein-ligand complexes at room temperature using serial femtosecond crystallography.,Moreno-Chicano T, Ebrahim A, Axford D, Appleby MV, Beale JH, Chaplin AK, Duyvesteyn HME, Ghiladi RA, Owada S, Sherrell DA, Strange RW, Sugimoto H, Tono K, Worrall JAR, Owen RL, Hough MA IUCrJ. 2019 Oct 10;6(Pt 6):1074-1085. doi: 10.1107/S2052252519011655. eCollection, 2019 Nov 1. PMID:31709063<ref>PMID:31709063</ref>
-
Description: Dehaloperoxidase B from Amphitrite ornata -complex with 5-bromoindole
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
[[Category: Unreleased Structures]]
+
</div>
-
[[Category: Sugimoto, H]]
+
<div class="pdbe-citations 6i7f" style="background-color:#fffaf0;"></div>
-
[[Category: Worrall, J.A.R]]
+
 
-
[[Category: Duyvesteyn, H]]
+
==See Also==
-
[[Category: Sherrell, D.A]]
+
*[[Dehaloperoxidase 3D structures|Dehaloperoxidase 3D structures]]
-
[[Category: Tono, K]]
+
== References ==
-
[[Category: Ebrahim, A.E]]
+
<references/>
-
[[Category: Owada, S]]
+
__TOC__
-
[[Category: Moreno-Chicano, T]]
+
</StructureSection>
-
[[Category: Strange, R.W]]
+
[[Category: Amphitrite ornata]]
-
[[Category: Axford, D]]
+
[[Category: Large Structures]]
 +
[[Category: Axford D]]
 +
[[Category: Duyvesteyn H]]
 +
[[Category: Ebrahim A]]
 +
[[Category: Moreno-Chicano T]]
 +
[[Category: Owada S]]
 +
[[Category: Sherrell DA]]
 +
[[Category: Strange RW]]
 +
[[Category: Sugimoto H]]
 +
[[Category: Tono K]]
 +
[[Category: Worrall JAR]]

Current revision

Dehaloperoxidase B from Amphitrite ornata - complex with 2,4-dichlorophenol

PDB ID 6i7f

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools