3cd4

From Proteopedia

(Difference between revisions)

Current revision

REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4

Structural highlights

3cd4 is a 1 chain structure with sequence from Homo sapiens. This structure supersedes the now removed PDB entry 2cd4. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.2Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

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

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

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 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^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Garrett TP, Wang J, Yan Y, Liu J, Harrison SC. Refinement and analysis of the structure of the first two domains of human CD4. J Mol Biol. 1993 Dec 5;234(3):763-78. PMID:8254672 doi:http://dx.doi.org/10.1006/jmbi.1993.1625

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

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

@@ Line 1: / Line 1: @@
 ==REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4==
-<StructureSection load='3cd4' size='340' side='right' caption='[[3cd4]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
+<StructureSection load='3cd4' size='340' side='right'caption='[[3cd4]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3cd4]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. 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 [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3CD4 FirstGlance]. <br>
+<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>
-</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3cd4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3cd4 OCA], [http://pdbe.org/3cd4 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3cd4 RCSB], [http://www.ebi.ac.uk/pdbsum/3cd4 PDBsum]</span></td></tr>
+</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>
 </table>
 == Function ==
-[[http://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.
+[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>
+    <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>
@@ Line 28: / Line 30: @@
 ==See Also==
-*[[CD4|CD4]]
+*[[CD4 3D structures|CD4 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[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]]

3cd4

From Proteopedia

Current revision

REFINEMENT AND ANALYSIS OF THE FIRST TWO DOMAINS OF HUMAN CD4

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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