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.

5twa

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

Crystal structure of Geodia cydonium BHP2 in complex with Lubomirskia baicalensis Bak-2

Structural highlights

5twa is a 4 chain structure with sequence from Geodia cydonium and Lubomirskia baikalensis. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.85Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

Q967D2_GEOCY

Publication Abstract from PubMed

Sponges of the porifera family harbor some of the evolutionary most ancient orthologs of the B-cell lymphoma-2 (Bcl-2) family, a protein family critical to regulation of apoptosis. The genome of the sponge Geodia cydonium contains the putative pro-survival Bcl-2 homolog BHP2, which protects sponge tissue as well as mammalian Hek-293 and NIH-3T3 cells against diverse apoptotic stimuli. The Lake Baikal demosponge Lubomirskia baicalensis has been shown to encode both putative pro-survival Bcl-2 (LB-Bcl-2) and pro-apoptotic Bcl-2 members (LB-Bak-2), which have been implied in axis formation (branches) in L. baicalensis. However, the molecular mechanism of action of sponge-encoded orthologs of Bcl-2 remains to be clarified. Here, we report that the pro-survival Bcl-2 ortholog BHP2 from G. cydonium is able to bind the BH3 motif of a pro-apoptotic Bcl-2 protein, LB-Bak-2 of the sponge L. baicalensis. Furthermore, we determined the crystal structure of BHP2 bound to LB-Bak-2, which revealed that using a binding groove conserved across all pro-survival Bcl-2 proteins, BHP2 binds multi-motif Bax-like proteins through their BH3-binding regions. However, BHP2 discriminates against BH3-only bearing proteins by blocking access to a hydrophobic pocket that is critical for BH3 motif binding in pro-survival Bcl-2 proteins from higher organisms. This differential binding mode is reflected in a structure-based phylogenetic comparison of BHP2 with other Bcl-2 family members, which revealed that BHP2 does not cluster with either Bcl-2 members of higher organisms or pathogen-encoded homologs, and assumes a discrete position. Our findings suggest that the molecular machinery and mechanisms for executing Bcl-2-mediated apoptosis as observed in mammals are evolutionary ancient, with early regulation of apoptotic machineries closely resembling their modern counterparts in mammals rather than Caenorhabditis elegans or drosophila.

Structural insight into an evolutionarily ancient programmed cell death regulator - the crystal structure of marine sponge BHP2 bound to LB-Bak-2.,Caria S, Hinds MG, Kvansakul M Cell Death Dis. 2017 Jan 12;8(1):e2543. doi: 10.1038/cddis.2016.469. PMID:28079890^[1]

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

References

↑ Caria S, Hinds MG, Kvansakul M. Structural insight into an evolutionarily ancient programmed cell death regulator - the crystal structure of marine sponge BHP2 bound to LB-Bak-2. Cell Death Dis. 2017 Jan 12;8(1):e2543. doi: 10.1038/cddis.2016.469. PMID:28079890 doi:http://dx.doi.org/10.1038/cddis.2016.469

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/5twa"

@@ Line 1: / Line 1: @@
 ==Crystal structure of Geodia cydonium BHP2 in complex with Lubomirskia baicalensis Bak-2==
-<StructureSection load='5twa' size='340' side='right' caption='[[5twa]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
+<StructureSection load='5twa' size='340' side='right'caption='[[5twa]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[5twa]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TWA OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TWA FirstGlance]. <br>
+<table><tr><td colspan='2'>[[5twa]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Geodia_cydonium Geodia cydonium] and [https://en.wikipedia.org/wiki/Lubomirskia_baikalensis Lubomirskia baikalensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TWA OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TWA FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=B3P:2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>B3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></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]] 1.85&#8491;</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=5twa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5twa OCA], [http://pdbe.org/5twa PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5twa RCSB], [http://www.ebi.ac.uk/pdbsum/5twa PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5twa ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=B3P:2-[3-(2-HYDROXY-1,1-DIHYDROXYMETHYL-ETHYLAMINO)-PROPYLAMINO]-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>B3P</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></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=5twa FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5twa OCA], [https://pdbe.org/5twa PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5twa RCSB], [https://www.ebi.ac.uk/pdbsum/5twa PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5twa ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q967D2_GEOCY Q967D2_GEOCY]
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 16: / Line 19: @@
 </div>
 <div class="pdbe-citations 5twa" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[B-cell lymphoma proteins 3D structures|B-cell lymphoma proteins 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Caria, S]]
+[[Category: Geodia cydonium]]
-[[Category: Hinds, M G]]
+[[Category: Large Structures]]
-[[Category: Kvansakul, M]]
+[[Category: Lubomirskia baikalensis]]
-[[Category: Apoptosis]]
+[[Category: Caria S]]
-[[Category: Bcl-2]]
+[[Category: Hinds MG]]
-[[Category: Bhp2]]
+[[Category: Kvansakul M]]
-[[Category: Lb-bak-2]]
-[[Category: Sponge]]

5twa

From Proteopedia

Current revision

Crystal structure of Geodia cydonium BHP2 in complex with Lubomirskia baicalensis Bak-2

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox