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.


3bis

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="3bis" size="350" color="white" frame="true" align="right" spinBox="true" caption="3bis, resolution 2.64&Aring;" /> '''Crystal Structure of...)
Current revision (10:43, 12 January 2022) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3bis.jpg|left|200px]]<br /><applet load="3bis" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="3bis, resolution 2.64&Aring;" />
 
-
'''Crystal Structure of the PD-L1'''<br />
 
-
==About this Structure==
+
==Crystal Structure of the PD-L1==
-
3BIS is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIS OCA].
+
<StructureSection load='3bis' size='340' side='right'caption='[[3bis]], [[Resolution|resolution]] 2.64&Aring;' scene=''>
-
[[Category: Homo sapiens]]
+
== Structural highlights ==
-
[[Category: Single protein]]
+
<table><tr><td colspan='2'>[[3bis]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIS OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIS FirstGlance]. <br>
-
[[Category: Garboczi, D N.]]
+
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3bik|3bik]]</div></td></tr>
-
[[Category: Gittis, A G.]]
+
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CD274, B7H1, PDCD1L1, PDCD1LG1, PDL1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
-
[[Category: Honjo, T.]]
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3bis FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bis OCA], [https://pdbe.org/3bis PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bis RCSB], [https://www.ebi.ac.uk/pdbsum/3bis PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bis ProSAT]</span></td></tr>
-
[[Category: Iwasaki, M.]]
+
</table>
-
[[Category: Lin, D Y.]]
+
== Function ==
-
[[Category: Mikami, B.]]
+
[[https://www.uniprot.org/uniprot/PD1L1_HUMAN PD1L1_HUMAN]] Involved in the costimulatory signal, essential for T-cell proliferation and production of IL10 and IFNG, in an IL2-dependent and a PDCD1-independent manner. Interaction with PDCD1 inhibits T-cell proliferation and cytokine production.<ref>PMID:10581077</ref> <ref>PMID:11015443</ref>
-
[[Category: Minato, N.]]
+
== Evolutionary Conservation ==
-
[[Category: Okazaki, T.]]
+
[[Image:Consurf_key_small.gif|200px|right]]
-
[[Category: Su, H P.]]
+
Check<jmol>
-
[[Category: Tanaka, Y.]]
+
<jmolCheckbox>
-
[[Category: alternative splicing]]
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/3bis_consurf.spt"</scriptWhenChecked>
-
[[Category: b cell]]
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
[[Category: co-stimulation]]
+
<text>to colour the structure by Evolutionary Conservation</text>
-
[[Category: glycoprotein]]
+
</jmolCheckbox>
-
[[Category: immune system]]
+
</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=3bis ConSurf].
-
[[Category: immunoglobulin domain]]
+
<div style="clear:both"></div>
-
[[Category: immunoglobulin-like beta-sandwich]]
+
<div style="background-color:#fffaf0;">
-
[[Category: inhibitory receptor]]
+
== Publication Abstract from PubMed ==
-
[[Category: programmed death]]
+
Signaling through the programmed death 1 (PD-1) inhibitory receptor upon binding its ligand, PD-L1, suppresses immune responses against autoantigens and tumors and plays an important role in the maintenance of peripheral immune tolerance. Release from PD-1 inhibitory signaling revives "exhausted" virus-specific T cells in chronic viral infections. Here we present the crystal structure of murine PD-1 in complex with human PD-L1. PD-1 and PD-L1 interact through the conserved front and side of their Ig variable (IgV) domains, as do the IgV domains of antibodies and T cell receptors. This places the loops at the ends of the IgV domains on the same side of the PD-1/PD-L1 complex, forming a surface that is similar to the antigen-binding surface of antibodies and T cell receptors. Mapping conserved residues allowed the identification of residues that are important in forming the PD-1/PD-L1 interface. Based on the structure, we show that some reported loss-of-binding mutations involve the PD-1/PD-L1 interaction but that others compromise protein folding. The PD-1/PD-L1 interaction described here may be blocked by antibodies or by designed small-molecule drugs to lower inhibitory signaling that results in a stronger immune response. The immune receptor-like loops offer a new surface for further study and potentially the design of molecules that would affect PD-1/PD-L1 complex formation and thereby modulate the immune response.
-
[[Category: t cell]]
+
-
[[Category: transmembrane]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 27 08:00:12 2008''
+
The PD-1/PD-L1 complex resembles the antigen-binding Fv domains of antibodies and T cell receptors.,Lin DY, Tanaka Y, Iwasaki M, Gittis AG, Su HP, Mikami B, Okazaki T, Honjo T, Minato N, Garboczi DN Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):3011-6. Epub 2008 Feb 14. PMID:18287011<ref>PMID:18287011</ref>
 +
 
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 3bis" style="background-color:#fffaf0;"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Human]]
 +
[[Category: Large Structures]]
 +
[[Category: Garboczi, D N]]
 +
[[Category: Gittis, A G]]
 +
[[Category: Honjo, T]]
 +
[[Category: Iwasaki, M]]
 +
[[Category: Lin, D Y]]
 +
[[Category: Mikami, B]]
 +
[[Category: Minato, N]]
 +
[[Category: Okazaki, T]]
 +
[[Category: Su, H P]]
 +
[[Category: Tanaka, Y]]
 +
[[Category: B cell]]
 +
[[Category: Co-stimulation]]
 +
[[Category: Glycoprotein]]
 +
[[Category: Immune system]]
 +
[[Category: Immunoglobulin domain]]
 +
[[Category: Immunoglobulin-like beta-sandwich]]
 +
[[Category: Inhibitory receptor]]
 +
[[Category: Programmed death]]
 +
[[Category: T cell]]
 +
[[Category: Transmembrane]]

Current revision

Crystal Structure of the PD-L1

PDB ID 3bis

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools