2jop

From Proteopedia

(Difference between revisions)

Current revision

Solution structure of the N-terminal extracellular domain of the lymphocyte receptor CD5 (CD5 domain 1)

Structural highlights

2jop is a 1 chain structure with sequence from Homo sapiens. Full experimental information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	Solution NMR, 50 models
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CD5_HUMAN May act as a receptor in regulating T-cell proliferation.

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 lymphocyte receptor CD5 influences cell activation by modifying the strength of the intracellular response initiated by antigen engagement. Regulation through CD5 involves the interaction of one or more of its three scavenger receptor cysteine-rich domains present in the extracellular region. Here, we present the 3D solution structure of a non-glycosylated double mutant of the N-terminal domain of human CD5 expressed in Escherichia coli (eCD5d1m), which has enhanced solubility compared to the non-glycosylated wild-type (eCD5d1). In common with a glycosylated form expressed in Pichia pastoris, the [(15)N,(1)H]-correlation spectra of both eCD5d1 and eCD5d1m exhibit non-uniform temperature-dependent signal intensities, indicating extensive conformational fluctuations on the micro-millisecond timescale. Although approximately one half of the signals expected for the domain are absent at 298 K, essentially complete resonance assignments and a solution structure could be obtained at 318 K. Because of the sparse nature of the experimental restraint data and the potentially important contribution of conformational exchange to the nuclear Overhauser effect peak intensity, we applied inferential structure determination to calculate the eCD5d1m structure. The inferential structure determination ensemble has similar features to that obtained by traditional simulated annealing methods, but displays superior definition and structural quality. The eCD5d1m structure is similar to other members of the scavenger receptor cysteine-rich superfamily, but the position of the lone alpha helix differs due to interactions with the unique N-terminal region of the domain. The availability of an experimentally tractable form of CD5d1, together with its 3D structure, provides new tools for further investigation of its function within intact CD5.

Three-dimensional solution structure and conformational plasticity of the N-terminal scavenger receptor cysteine-rich domain of human CD5.,Garza-Garcia A, Esposito D, Rieping W, Harris R, Briggs C, Brown MH, Driscoll PC J Mol Biol. 2008 Apr 18;378(1):129-44. Epub 2008 Feb 12. PMID:18339402^[1]

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

References

↑ Garza-Garcia A, Esposito D, Rieping W, Harris R, Briggs C, Brown MH, Driscoll PC. Three-dimensional solution structure and conformational plasticity of the N-terminal scavenger receptor cysteine-rich domain of human CD5. J Mol Biol. 2008 Apr 18;378(1):129-44. Epub 2008 Feb 12. PMID:18339402 doi:10.1016/j.jmb.2008.02.006

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2jop"

@@ Line 1: / Line 1: @@
 ==Solution structure of the N-terminal extracellular domain of the lymphocyte receptor CD5 (CD5 domain 1)==
-<StructureSection load='2jop' size='340' side='right'caption='[[2jop]], [[NMR_Ensembles_of_Models | 50 NMR models]]' scene=''>
+<StructureSection load='2jop' size='340' side='right'caption='[[2jop]]' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2jop]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOP FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2jop]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOP FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CD5, LEU1 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 50 models</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=2jop FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jop OCA], [https://pdbe.org/2jop PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jop RCSB], [https://www.ebi.ac.uk/pdbsum/2jop PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jop ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/CD5_HUMAN CD5_HUMAN]] May act as a receptor in regulating T-cell proliferation.
+[https://www.uniprot.org/uniprot/CD5_HUMAN CD5_HUMAN] May act as a receptor in regulating T-cell proliferation.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 14: / Line 14: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jo/2jop_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 32: / Line 32: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Driscoll, P C]]
+[[Category: Driscoll PC]]
-[[Category: Esposito, D]]
+[[Category: Esposito D]]
-[[Category: Garza-Garcia, A]]
+[[Category: Garza-Garcia A]]
-[[Category: Harris, R]]
+[[Category: Harris R]]
-[[Category: Cd5]]
-[[Category: Domain 1]]
-[[Category: Immune system]]
-[[Category: Scavenger receptor cysteine rich]]
-[[Category: Srcr]]

2jop

From Proteopedia

Current revision

Solution structure of the N-terminal extracellular domain of the lymphocyte receptor CD5 (CD5 domain 1)

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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