3bik

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:53, 9 October 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3bik.jpg|left|200px]]
 
-
{{Structure
+
==Crystal Structure of the PD-1/PD-L1 Complex==
-
|PDB= 3bik |SIZE=350|CAPTION= <scene name='initialview01'>3bik</scene>, resolution 2.65&Aring;
+
<StructureSection load='3bik' size='340' side='right'caption='[[3bik]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
-
|SITE= <scene name='pdbsite=AC1:Gol+Binding+Site+For+Residue+C+301'>AC1</scene>
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
+
<table><tr><td colspan='2'>[[3bik]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3BIK FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.65&#8491;</td></tr>
-
|GENE= CD274, B7H1, PDCD1L1, PDCD1LG1, PDL1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens]), Pdcd1, Pd1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=3bik FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3bik OCA], [https://pdbe.org/3bik PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3bik RCSB], [https://www.ebi.ac.uk/pdbsum/3bik PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3bik ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[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>
 +
== Evolutionary Conservation ==
 +
[[Image:Consurf_key_small.gif|200px|right]]
 +
Check<jmol>
 +
<jmolCheckbox>
 +
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bi/3bik_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
 +
<text>to colour the structure by Evolutionary Conservation</text>
 +
</jmolCheckbox>
 +
</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=3bik ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
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.
-
'''Crystal Structure of the PD-1/PD-L1 Complex'''
+
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 3bik" style="background-color:#fffaf0;"></div>
-
==About this Structure==
+
==See Also==
-
3BIK is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3BIK OCA].
+
*[[Cell death protein|Cell death protein]]
 +
*[[Cell death protein 3D structures|Cell death protein 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
 +
[[Category: Large Structures]]
[[Category: Mus musculus]]
[[Category: Mus musculus]]
-
[[Category: Protein complex]]
+
[[Category: Garboczi DN]]
-
[[Category: Garboczi, D N.]]
+
[[Category: Gittis AG]]
-
[[Category: Gittis, A G.]]
+
[[Category: Honjo T]]
-
[[Category: Honjo, T.]]
+
[[Category: Iwasaki M]]
-
[[Category: Iwasaki, M.]]
+
[[Category: Lin DY]]
-
[[Category: Lin, D Y.]]
+
[[Category: Mikami B]]
-
[[Category: Mikami, B.]]
+
[[Category: Minato N]]
-
[[Category: Minato, N.]]
+
[[Category: Okazaki T]]
-
[[Category: Okazaki, T.]]
+
[[Category: Su HP]]
-
[[Category: Su, H P.]]
+
[[Category: Tanaka Y]]
-
[[Category: Tanaka, Y.]]
+
-
[[Category: GOL]]
+
-
[[Category: alternative splicing]]
+
-
[[Category: apoptosis]]
+
-
[[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: receptor-ligand complex]]
+
-
[[Category: t cell]]
+
-
[[Category: transmembrane]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:59:13 2008''
+

Current revision

Crystal Structure of the PD-1/PD-L1 Complex

PDB ID 3bik

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools