This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

2bvp

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 06:24, 16 May 2018

Structures of Three HIV-1 HLA-B5703-Peptide Complexes and Identification of Related HLAs Potentially Associated with Long-Term Non-Progression

Structural highlights

2bvp is a 3 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	1a1m, 1a1n, 1a1o, 1a6z, 1a9b, 1a9e, 1agb, 1agc, 1agd, 1age, 1agf, 1akj, 1ao7, 1b0g, 1b0r, 1bd2, 1c16, 1ce6, 1cg9, 1de4, 1duy, 1duz, 1e27, 1e28, 1eey, 1eez, 1efx, 1exu, 1gzp, 1gzq, 1hhg, 1hhh, 1hhi, 1hhj, 1hhk, 1hla, 1hsa, 1hsb, 1i1f, 1i1y, 1i4f, 1i7r, 1i7t, 1i7u, 1im3, 1im9, 1jf1, 1jgd, 1jge, 1jht, 1jnj, 1k5n, 1kpr, 1ktl, 1lds, 1lp9, 1m05, 1m6o, 1mhe, 1mi5, 1n2r, 1of2, 1oga, 1ogt, 1onq, 1p7q, 1py4, 1q94, 1qew, 1qlf, 1qqd, 1qr1, 1qrn, 1qse, 1qsf, 1qvo, 1r3h, 1s9w, 1s9x, 1s9y, 1sys, 1syv, 1tmc, 1tvb, 1tvh, 1uqs, 1ur7, 1uxs, 1uxw, 1w0v, 1w0w, 1w72, 1x7q, 1xh3, 1xr8, 1xr9, 1xz0, 1ydp, 1ypz, 1zs8, 1zsd, 1zt4, 2bnq, 2bnr, 2bsr, 2bss, 2bst, 2bsu, 2bsv, 2bvo, 2bvq, 2clr, 2hla, 3hla
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[1B57_HUMAN] Involved in the presentation of foreign antigens to the immune system.

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

Long-term nonprogression during acute HIV infection has been strongly associated with HLA-B*5701 or HLA-B*5703. In this study, we present the high resolution crystal structures of HLA-B*5703 complexes with three HIV-1 epitopes: ISPRTLNAW (ISP), KAFSPEVIPMF (KAF-11), and KAFSPEVI (KAF-8). These reveal peptide anchoring at position 2 and their C termini. The different peptide lengths and primary sequences are accommodated by variation in the specific contacts made to the HLA-B*5703, flexibility in water structure, and conformational adjustment of side chains within the peptide-binding groove. The peptides adopt markedly different conformations, and trap variable numbers of water molecules, near a cluster of tyrosine side chains located in the central region of the peptide-binding groove. The KAF-11 epitope completely encompasses the shorter KAF-8 epitope but the peptides are presented in different conformations; the KAF-11 peptide arches out of the peptide-binding groove, exposing a significant main chain surface area. Bioinformatic analysis of the MHC side chains observed to contribute to the peptide anchor specificity, and other specific peptide contacts, reveals HLA alleles associated with long-term nonprogression and a number of related HLA alleles that may share overlapping peptide repertoires with HLA-B*5703 and thus may display a similar capacity for efficient immune control of HIV-1 infection.

Structures of three HIV-1 HLA-B*5703-peptide complexes and identification of related HLAs potentially associated with long-term nonprogression.,Stewart-Jones GB, Gillespie G, Overton IM, Kaul R, Roche P, McMichael AJ, Rowland-Jones S, Jones EY J Immunol. 2005 Aug 15;175(4):2459-68. PMID:16081817^[1]

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

References

↑ Stewart-Jones GB, Gillespie G, Overton IM, Kaul R, Roche P, McMichael AJ, Rowland-Jones S, Jones EY. Structures of three HIV-1 HLA-B*5703-peptide complexes and identification of related HLAs potentially associated with long-term nonprogression. J Immunol. 2005 Aug 15;175(4):2459-68. PMID:16081817

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/2bvp"

@@ Line 1: / Line 1: @@
-==STRUCTURES OF THREE HIV-1 HLA-B5703-PEPTIDE COMPLEXES AND IDENTIFICATION OF RELATED HLAS POTENTIALLY ASSOCIATED WITH LONG-TERM NON-PROGRESSION==
+==Structures of Three HIV-1 HLA-B5703-Peptide Complexes and Identification of Related HLAs Potentially Associated with Long-Term Non-Progression==
 <StructureSection load='2bvp' size='340' side='right' caption='[[2bvp]], [[Resolution|resolution]] 1.35&Aring;' scene=''>
 == Structural highlights ==
 <table><tr><td colspan='2'>[[2bvp]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BVP OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2BVP FirstGlance]. <br>
 </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1a1m|1a1m]], [[1a1n|1a1n]], [[1a1o|1a1o]], [[1a6z|1a6z]], [[1a9b|1a9b]], [[1a9e|1a9e]], [[1agb|1agb]], [[1agc|1agc]], [[1agd|1agd]], [[1age|1age]], [[1agf|1agf]], [[1akj|1akj]], [[1ao7|1ao7]], [[1b0g|1b0g]], [[1b0r|1b0r]], [[1bd2|1bd2]], [[1c16|1c16]], [[1ce6|1ce6]], [[1cg9|1cg9]], [[1de4|1de4]], [[1duy|1duy]], [[1duz|1duz]], [[1e27|1e27]], [[1e28|1e28]], [[1eey|1eey]], [[1eez|1eez]], [[1efx|1efx]], [[1exu|1exu]], [[1gzp|1gzp]], [[1gzq|1gzq]], [[1hhg|1hhg]], [[1hhh|1hhh]], [[1hhi|1hhi]], [[1hhj|1hhj]], [[1hhk|1hhk]], [[1hla|1hla]], [[1hsa|1hsa]], [[1hsb|1hsb]], [[1i1f|1i1f]], [[1i1y|1i1y]], [[1i4f|1i4f]], [[1i7r|1i7r]], [[1i7t|1i7t]], [[1i7u|1i7u]], [[1im3|1im3]], [[1im9|1im9]], [[1jf1|1jf1]], [[1jgd|1jgd]], [[1jge|1jge]], [[1jht|1jht]], [[1jnj|1jnj]], [[1k5n|1k5n]], [[1kpr|1kpr]], [[1ktl|1ktl]], [[1lds|1lds]], [[1lp9|1lp9]], [[1m05|1m05]], [[1m6o|1m6o]], [[1mhe|1mhe]], [[1mi5|1mi5]], [[1n2r|1n2r]], [[1of2|1of2]], [[1oga|1oga]], [[1ogt|1ogt]], [[1onq|1onq]], [[1p7q|1p7q]], [[1py4|1py4]], [[1q94|1q94]], [[1qew|1qew]], [[1qlf|1qlf]], [[1qqd|1qqd]], [[1qr1|1qr1]], [[1qrn|1qrn]], [[1qse|1qse]], [[1qsf|1qsf]], [[1qvo|1qvo]], [[1r3h|1r3h]], [[1s9w|1s9w]], [[1s9x|1s9x]], [[1s9y|1s9y]], [[1sys|1sys]], [[1syv|1syv]], [[1tmc|1tmc]], [[1tvb|1tvb]], [[1tvh|1tvh]], [[1uqs|1uqs]], [[1ur7|1ur7]], [[1uxs|1uxs]], [[1uxw|1uxw]], [[1w0v|1w0v]], [[1w0w|1w0w]], [[1w72|1w72]], [[1x7q|1x7q]], [[1xh3|1xh3]], [[1xr8|1xr8]], [[1xr9|1xr9]], [[1xz0|1xz0]], [[1ydp|1ydp]], [[1ypz|1ypz]], [[1zs8|1zs8]], [[1zsd|1zsd]], [[1zt4|1zt4]], [[2bnq|2bnq]], [[2bnr|2bnr]], [[2bsr|2bsr]], [[2bss|2bss]], [[2bst|2bst]], [[2bsu|2bsu]], [[2bsv|2bsv]], [[2bvo|2bvo]], [[2bvq|2bvq]], [[2clr|2clr]], [[2hla|2hla]], [[3hla|3hla]]</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=2bvp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bvp OCA], [http://pdbe.org/2bvp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bvp RCSB], [http://www.ebi.ac.uk/pdbsum/2bvp PDBsum]</span></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=2bvp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2bvp OCA], [http://pdbe.org/2bvp PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2bvp RCSB], [http://www.ebi.ac.uk/pdbsum/2bvp PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2bvp ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 12: / Line 13: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bv/2bvp_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/bv/2bvp_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 54: / Line 55: @@
 [[Category: Mhc]]
 [[Category: Mhc i]]
+[[Category: Polymorphism]]
 [[Category: Pyrrolidone carboxylic acid]]
 [[Category: Transmembrane]]

2bvp

From Proteopedia

Revision as of 06:24, 16 May 2018

Structures of Three HIV-1 HLA-B5703-Peptide Complexes and Identification of Related HLAs Potentially Associated with Long-Term Non-Progression

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox