8a4f - Revision history

OCA at 09:25, 17 October 2024

2024-10-17T09:25:58Z

← Older revision		Revision as of 09:25, 17 October 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8a4f]] 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=8A4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A4F FirstGlance]. <br>		<table><tr><td colspan='2'>[[8a4f]] 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=8A4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A4F FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR, 2 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=8a4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a4f OCA], [https://pdbe.org/8a4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a4f RCSB], [https://www.ebi.ac.uk/pdbsum/8a4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a4f ProSAT]</span></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=8a4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a4f OCA], [https://pdbe.org/8a4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a4f RCSB], [https://www.ebi.ac.uk/pdbsum/8a4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a4f ProSAT]</span></td></tr>
	</table>		</table>
Line 15:		Line 15:
	Interleukin-4 (IL-4) is a hematopoietic cytokine composed by a four-helix bundle stabilized by an antiparallel beta-sheet and three disulfide bonds: Cys3-Cys127, Cys24-Cys65, and Cys46-Cys99. IL-4 is involved in several immune responses associated to infection, allergy, autoimmunity, and cancer. Besides its physiological relevance, IL-4 is often used as a "model" for protein design and engineering. Hence, to understand the role of each disulfide in the structure and dynamics of IL-4, we carried out several spectroscopic analyses (circular dichroism [CD], fluorescence, nuclear magnetic resonance [NMR]), and molecular dynamics (MD) simulations on wild-type IL-4 and four IL-4 disulfide mutants. All disulfide mutants showed loss of structure, altered interhelical angles, and looser core packings, showing that all disulfides are relevant for maintaining the overall fold and stability of the four-helix bundle motif, even at very low pH. In the absence of the disulfide connecting both protein termini Cys3-Cys127, C3T-IL4 showed a less packed protein core, loss of secondary structure (~9%) and fast motions on the sub-nanosecond time scale (lower S(2) order parameters and larger tau(c) correlation time), especially at the two protein termini, loops, beginning of helix A and end of helix D. In the absence of Cys24-Cys65, C24T-IL4 presented shorter alpha-helices (14% loss in helical content), altered interhelical angles, less propensity to form the small anti-parallel beta-sheet and increased dynamics. Simultaneously deprived of two disulfides (Cys3-Cys127 and Cys24-Cys65), IL-4 formed a partially folded "molten globule" with high 8-anilino-1-naphtalenesulphonic acid-binding affinity and considerable loss of secondary structure (~50%decrease), as shown by the far UV-CD, NMR, and MD data.		Interleukin-4 (IL-4) is a hematopoietic cytokine composed by a four-helix bundle stabilized by an antiparallel beta-sheet and three disulfide bonds: Cys3-Cys127, Cys24-Cys65, and Cys46-Cys99. IL-4 is involved in several immune responses associated to infection, allergy, autoimmunity, and cancer. Besides its physiological relevance, IL-4 is often used as a "model" for protein design and engineering. Hence, to understand the role of each disulfide in the structure and dynamics of IL-4, we carried out several spectroscopic analyses (circular dichroism [CD], fluorescence, nuclear magnetic resonance [NMR]), and molecular dynamics (MD) simulations on wild-type IL-4 and four IL-4 disulfide mutants. All disulfide mutants showed loss of structure, altered interhelical angles, and looser core packings, showing that all disulfides are relevant for maintaining the overall fold and stability of the four-helix bundle motif, even at very low pH. In the absence of the disulfide connecting both protein termini Cys3-Cys127, C3T-IL4 showed a less packed protein core, loss of secondary structure (~9%) and fast motions on the sub-nanosecond time scale (lower S(2) order parameters and larger tau(c) correlation time), especially at the two protein termini, loops, beginning of helix A and end of helix D. In the absence of Cys24-Cys65, C24T-IL4 presented shorter alpha-helices (14% loss in helical content), altered interhelical angles, less propensity to form the small anti-parallel beta-sheet and increased dynamics. Simultaneously deprived of two disulfides (Cys3-Cys127 and Cys24-Cys65), IL-4 formed a partially folded "molten globule" with high 8-anilino-1-naphtalenesulphonic acid-binding affinity and considerable loss of secondary structure (~50%decrease), as shown by the far UV-CD, NMR, and MD data.

	Lessons on protein structure from interleukin-4: All disulfides are not created equal.,Vaz DC, Rodrigues JR, Loureiro-Ferreira N, Muller TD, Sebald W, Redfield C, Brito RMM Proteins. ~~2023 Oct 10~~. doi: 10.1002/prot.26611. PMID:37814578<ref>PMID:37814578</ref>		Lessons on protein structure from interleukin-4: All disulfides are not created equal.,Vaz DC, Rodrigues JR, Loureiro-Ferreira N, Muller TD, Sebald W, Redfield C, Brito RMM Proteins. 2024 Feb;92(2):219-235. doi: 10.1002/prot.26611. Epub 2023 Oct 10. PMID:37814578<ref>PMID:37814578</ref>

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

OCA at 14:03, 18 October 2023

2023-10-18T14:03:59Z

← Older revision		Revision as of 14:03, 18 October 2023
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	~~'''Unreleased structure'''~~

	~~The~~ entry ~~8a4f~~ is ~~ON HOLD until Paper~~ Publication		==Human Interleukin-4 mutant - C3T-IL4==
			<StructureSection load='8a4f' size='340' side='right'caption='[[8a4f]]' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[8a4f]] 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=8A4F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8A4F FirstGlance]. <br>
			</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=8a4f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8a4f OCA], [https://pdbe.org/8a4f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8a4f RCSB], [https://www.ebi.ac.uk/pdbsum/8a4f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8a4f ProSAT]</span></td></tr>
			</table>
			== Disease ==
			[https://www.uniprot.org/uniprot/IL4_HUMAN IL4_HUMAN] Genetic variations in IL4 may be a cause of susceptibility to ischemic stroke (ISCHSTR) [MIM:[https://omim.org/entry/601367 601367]; also known as cerebrovascular accident or cerebral infarction. A stroke is an acute neurologic event leading to death of neural tissue of the brain and resulting in loss of motor, sensory and/or cognitive function. Ischemic strokes, resulting from vascular occlusion, is considered to be a highly complex disease consisting of a group of heterogeneous disorders with multiple genetic and environmental risk factors.<ref>PMID:14681304</ref>
			== Function ==
			[https://www.uniprot.org/uniprot/IL4_HUMAN IL4_HUMAN] Participates in at least several B-cell activation processes as well as of other cell types. It is a costimulator of DNA-synthesis. It induces the expression of class II MHC molecules on resting B-cells. It enhances both secretion and cell surface expression of IgE and IgG1. It also regulates the expression of the low affinity Fc receptor for IgE (CD23) on both lymphocytes and monocytes.
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Interleukin-4 (IL-4) is a hematopoietic cytokine composed by a four-helix bundle stabilized by an antiparallel beta-sheet and three disulfide bonds: Cys3-Cys127, Cys24-Cys65, and Cys46-Cys99. IL-4 is involved in several immune responses associated to infection, allergy, autoimmunity, and cancer. Besides its physiological relevance, IL-4 is often used as a "model" for protein design and engineering. Hence, to understand the role of each disulfide in the structure and dynamics of IL-4, we carried out several spectroscopic analyses (circular dichroism [CD], fluorescence, nuclear magnetic resonance [NMR]), and molecular dynamics (MD) simulations on wild-type IL-4 and four IL-4 disulfide mutants. All disulfide mutants showed loss of structure, altered interhelical angles, and looser core packings, showing that all disulfides are relevant for maintaining the overall fold and stability of the four-helix bundle motif, even at very low pH. In the absence of the disulfide connecting both protein termini Cys3-Cys127, C3T-IL4 showed a less packed protein core, loss of secondary structure (~9%) and fast motions on the sub-nanosecond time scale (lower S(2) order parameters and larger tau(c) correlation time), especially at the two protein termini, loops, beginning of helix A and end of helix D. In the absence of Cys24-Cys65, C24T-IL4 presented shorter alpha-helices (14% loss in helical content), altered interhelical angles, less propensity to form the small anti-parallel beta-sheet and increased dynamics. Simultaneously deprived of two disulfides (Cys3-Cys127 and Cys24-Cys65), IL-4 formed a partially folded "molten globule" with high 8-anilino-1-naphtalenesulphonic acid-binding affinity and considerable loss of secondary structure (~50%decrease), as shown by the far UV-CD, NMR, and MD data.

	~~Authors~~: Vaz~~, D.C.~~, Rodrigues, ~~J.R.~~, ~~Mueller, T.D.~~, Sebald, W., Redfield, C., Brito~~, R~~.M.M.		Lessons on protein structure from interleukin-4: All disulfides are not created equal.,Vaz DC, Rodrigues JR, Loureiro-Ferreira N, Muller TD, Sebald W, Redfield C, Brito RMM Proteins. 2023 Oct 10. doi: 10.1002/prot.26611. PMID:37814578<ref>PMID:37814578</ref>

	~~Description: Human Interleukin~~-~~4 mutant~~ -~~C3T-IL4~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	[[Category: ~~Unreleased~~ Structures]]		</div>
	[[Category: ~~Redfield, C~~]]		<div class="pdbe-citations 8a4f" style="background-color:#fffaf0;"></div>
	[[Category: ~~Vaz, D.C~~]]		== References ==
	[[Category: ~~Rodrigues, J.R~~]]		<references/>
	[[Category: ~~Sebald, W~~]]		__TOC__
	[[Category: ~~Mueller, T.D~~]]		</StructureSection>
	[[Category: ~~Brito, R.M.M~~]]		[[Category: Homo sapiens]]
			[[Category: Large Structures]]
			[[Category: Brito RMM]]
			[[Category: Mueller TD]]
			[[Category: Redfield C]]
			[[Category: Rodrigues JR]]
			[[Category: Sebald W]]
			[[Category: Vaz DC]]

OCA at 04:06, 13 July 2022

2022-07-13T04:06:38Z

← Older revision		Revision as of 04:06, 13 July 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8a4f is ON HOLD		The entry 8a4f is ON HOLD until Paper Publication

	Authors: Vaz, D.C., Rodrigues, J.R., Mueller, T.D., Sebald, W., Redfield, C., Brito, R.M.M.		Authors: Vaz, D.C., Rodrigues, J.R., Mueller, T.D., Sebald, W., Redfield, C., Brito, R.M.M.

OCA: Protected "8a4f" [edit=sysop:move=sysop]

2022-06-22T07:18:39Z

Protected "8a4f" [edit=sysop:move=sysop]

← Older revision	Revision as of 07:18, 22 June 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8a4f is ON HOLD Authors: Vaz, D.C., Rodrigues, J.R., Mueller, T.D., Sebald, W., Redfield, C., Brito, R.M.M. Description: Human Interleukin-4 mutant...

2022-06-22T07:18:38Z

New page: '''Unreleased structure''' The entry 8a4f is ON HOLD Authors: Vaz, D.C., Rodrigues, J.R., Mueller, T.D., Sebald, W., Redfield, C., Brito, R.M.M. Description: Human Interleukin-4 mutant...

New page

'''Unreleased structure'''

The entry 8a4f is ON HOLD

Authors: Vaz, D.C., Rodrigues, J.R., Mueller, T.D., Sebald, W., Redfield, C., Brito, R.M.M.

Description: Human Interleukin-4 mutant -C3T-IL4
[[Category: Unreleased Structures]]
[[Category: Redfield, C]]
[[Category: Vaz, D.C]]
[[Category: Rodrigues, J.R]]
[[Category: Sebald, W]]
[[Category: Mueller, T.D]]
[[Category: Brito, R.M.M]]