3maz: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:3maz.jpg|left|200px]]
-<!--
+==Crystal Structure of the Human BRDG1/STAP-1 SH2 Domain in Complex with the NTAL pTyr136 Peptide==
-The line below this paragraph, containing "STRUCTURE_3maz", creates the "Structure Box" on the page.
+<StructureSection load='3maz' size='340' side='right'caption='[[3maz]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[3maz]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3MAZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3MAZ FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MLI:MALONATE+ION'>MLI</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene>, <scene name='pdbligand=PTR:O-PHOSPHOTYROSINE'>PTR</scene></td></tr>
-{{STRUCTURE_3maz|  PDB=3maz  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3maz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3maz OCA], [https://pdbe.org/3maz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3maz RCSB], [https://www.ebi.ac.uk/pdbsum/3maz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3maz ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/STAP1_HUMAN STAP1_HUMAN] In BCR signaling, appears to function as a docking protein acting downstream of TEC and participates in a positive feedback loop by increasing the activity of TEC.<ref>PMID:10518561</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/ma/3maz_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=3maz ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cellular functions require specific protein-protein interactions that are often mediated by modular domains that use binding pockets to engage particular sequence motifs in their partners. Yet, how different members of a domain family select for distinct sequence motifs is not fully understood. The human genome encodes 120 Src homology 2 (SH2) domains (in 110 proteins), which mediate protein-protein interactions by binding to proteins with diverse phosphotyrosine (pTyr)-containing sequences. The structure of the SH2 domain of BRDG1 bound to a peptide revealed a binding pocket that was blocked by a loop residue in most other SH2 domains. Analysis of 63 SH2 domain structures suggested that the SH2 domains contain three binding pockets, which exhibit selectivity for the three positions after the pTyr in a peptide, and that SH2 domain loops defined the accessibility and shape of these pockets. Despite sequence variability in the loops, we identified conserved structural features in the loops of SH2 domains responsible for controlling access to these surface pockets. We engineered new loops in an SH2 domain that altered specificity as predicted. Thus, selective blockage of binding subsites or pockets by surface loops provides a molecular basis by which the diverse modes of ligand recognition by the SH2 domain may have evolved and provides a framework for engineering SH2 domains and designing SH2-specific inhibitors.
-===Crystal Structure of the Human BRDG1/STAP-1 SH2 Domain in Complex with the NTAL pTyr136 Peptide===
+Loops govern SH2 domain specificity by controlling access to binding pockets.,Kaneko T, Huang H, Zhao B, Li L, Liu H, Voss CK, Wu C, Schiller MR, Li SS Sci Signal. 2010 May 4;3(120):ra34. PMID:20442417<ref>PMID:20442417</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_20442417}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3maz" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 20442417 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_20442417}}
+__TOC__
+</StructureSection>
-==About this Structure==
-MAZ is a 2 chains structure with sequences 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=3MAZ OCA].
-==Reference==
-<ref group="xtra">PMID:20442417</ref><references group="xtra"/>
 [[Category: Homo sapiens]]
-[[Category: Huang, H.]]
+[[Category: Large Structures]]
-[[Category: Kaneko, T.]]
+[[Category: Huang H]]
-[[Category: Li, L.]]
+[[Category: Kaneko T]]
-[[Category: Li, S S.]]
+[[Category: Li L]]
-[[Category: Liu, H.]]
+[[Category: Li SS]]
-[[Category: Schiller, M R.]]
+[[Category: Liu H]]
-[[Category: Voss, C K.]]
+[[Category: Schiller MR]]
-[[Category: Wu, C.]]
+[[Category: Voss CK]]
-[[Category: Zhao, B.]]
+[[Category: Wu C]]
-[[Category: Cytoplasm]]
+[[Category: Zhao B]]
-[[Category: Modular domain]]
-[[Category: Phosphoprotein]]
-[[Category: Phosphotyrosine]]
-[[Category: Sh2 domain]]
-[[Category: Signaling protein]]
-[[Category: Specificity]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed May 12 11:02:51 2010''