3cd4

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (05:40, 5 June 2024) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:3cd4.png|left|200px]]
 
-
<!--
+
==REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4==
-
The line below this paragraph, containing "STRUCTURE_3cd4", creates the "Structure Box" on the page.
+
<StructureSection load='3cd4' size='340' side='right'caption='[[3cd4]], [[Resolution|resolution]] 2.20&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'>[[3cd4]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2cd4 2cd4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CD4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3CD4 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]] 2.2&#8491;</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=3cd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cd4 OCA], [https://pdbe.org/3cd4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3cd4 RCSB], [https://www.ebi.ac.uk/pdbsum/3cd4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3cd4 ProSAT]</span></td></tr>
-
{{STRUCTURE_3cd4| PDB=3cd4 | SCENE= }}
+
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/CD4_HUMAN CD4_HUMAN] Accessory protein for MHC class-II antigen/T-cell receptor interaction. May regulate T-cell activation. Induces the aggregation of lipid rafts.
 +
== 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/cd/3cd4_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3cd4 ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The structure of a fragment of human CD4 containing two immunoglobulin (Ig)-like domains has been determined by X-ray crystallography and refined at 2.2 A resolution. The structure determination involved iterative building and simulated-annealing refinement, beginning with a partial model. Comparison of domain 1 with an Ig variable domain shows that CD4 has a long and prominent CDR2-like loop (the C"C" corner) and shortened CC' and FG loops (which mediate dimerization in IgV modules). Comparison of domain 2 with Ig modules and domain 1 shows that it can be described as a truncated Ig V domain, in which strands C" and D are deleted. The intersheet disulfide in domain 2 is absent, and there is an altered packing of the two beta-sheets together with a remodeling of the hydrophobic core. The interface between domains 1 and 2 is a lap joint with an extensive hydrophobic surface. The key features of domain 1 that contribute to the interface are found at corresponding positions in domain 2, leading us to propose that the contact between domains 2 and 3 will resemble the one between domains 1 and 2.
-
===REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4===
+
Refinement and analysis of the structure of the first two domains of human CD4.,Garrett TP, Wang J, Yan Y, Liu J, Harrison SC J Mol Biol. 1993 Dec 5;234(3):763-78. PMID:8254672<ref>PMID:8254672</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 3cd4" style="background-color:#fffaf0;"></div>
-
<!--
+
==See Also==
-
The line below this paragraph, {{ABSTRACT_PUBMED_8254672}}, adds the Publication Abstract to the page
+
*[[CD4 3D structures|CD4 3D structures]]
-
(as it appears on PubMed at http://www.pubmed.gov), where 8254672 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_8254672}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
-
3CD4 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2cd4 2cd4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3CD4 OCA].
+
-
 
+
-
==Reference==
+
-
<ref group="xtra">PMID:8254672</ref><references group="xtra"/>
+
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Garrett, T P.J.]]
+
[[Category: Large Structures]]
-
[[Category: Harrison, S C.]]
+
[[Category: Garrett TPJ]]
-
[[Category: Wang, J.]]
+
[[Category: Harrison SC]]
-
[[Category: Yan, Y.]]
+
[[Category: Wang J]]
-
[[Category: T-cell surface glycoprotein]]
+
[[Category: Yan Y]]
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 16:28:31 2009''
+

Current revision

REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4

PDB ID 3cd4

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3cd4"
Personal tools