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.

2w0c

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Current revision

X-ray structure of the entire lipid-containing bacteriophage PM2

2w0c, resolution 7.00Å

Structural highlights

2w0c is a 16 chain structure with sequence from Pseudoalteromonas virus PM2. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 7Å
Ligands:
Experimental data:	Check to display Experimental Data
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CAPSD_BPPM2 Major capsid protein.

Evolutionary Conservation

Checkto colour the structure by Evolutionary Conservation, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Recent, primarily structural observations indicate that related viruses, harboring no sequence similarity, infect hosts of different domains of life. One such clade of viruses, defined by common capsid architecture and coat protein fold, is the so-called PRD1-adenovirus lineage. Here we report the structure of the marine lipid-containing bacteriophage PM2 determined by crystallographic analyses of the entire approximately 45 MDa virion and of the outer coat proteins P1 and P2, revealing PM2 to be a primeval member of the PRD1-adenovirus lineage with an icosahedral shell and canonical double beta barrel major coat protein. The view of the lipid bilayer, richly decorated with membrane proteins, constitutes a rare visualization of an in vivo membrane. The viral membrane proteins P3 and P6 are organized into a lattice, suggesting a possible assembly pathway to produce the mature virus.

Insights into virus evolution and membrane biogenesis from the structure of the marine lipid-containing bacteriophage PM2.,Abrescia NG, Grimes JM, Kivela HM, Assenberg R, Sutton GC, Butcher SJ, Bamford JK, Bamford DH, Stuart DI Mol Cell. 2008 Sep 5;31(5):749-61. PMID:18775333^[1]

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

References

↑ Abrescia NG, Grimes JM, Kivela HM, Assenberg R, Sutton GC, Butcher SJ, Bamford JK, Bamford DH, Stuart DI. Insights into virus evolution and membrane biogenesis from the structure of the marine lipid-containing bacteriophage PM2. Mol Cell. 2008 Sep 5;31(5):749-61. PMID:18775333 doi:10.1016/j.molcel.2008.06.026

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/2w0c"

@@ Line 1: / Line 1: @@
-==X-RAY STRUCTURE OF THE ENTIRE LIPID-CONTAINING BACTERIOPHAGE PM2==
-<StructureSection load='2w0c' size='340' side='right' caption='[[2w0c]], [[Resolution|resolution]] 7.00&Aring;' scene=''>
+==X-ray structure of the entire lipid-containing bacteriophage PM2==
+<SX load='2w0c' size='340' side='right' viewer='molstar' caption='[[2w0c]], [[Resolution|resolution]] 7.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2w0c]] is a 16 chain structure with sequence from [http://en.wikipedia.org/wiki/Alteromonas_phage_pm2 Alteromonas phage pm2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W0C OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2W0C FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2w0c]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudoalteromonas_virus_PM2 Pseudoalteromonas virus PM2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2W0C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2W0C FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 7&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2vvf|2vvf]], [[2vvd|2vvd]], [[2vve|2vve]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></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=2w0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w0c OCA], [http://pdbe.org/2w0c PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2w0c RCSB], [http://www.ebi.ac.uk/pdbsum/2w0c PDBsum]</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=2w0c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2w0c OCA], [https://pdbe.org/2w0c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2w0c RCSB], [https://www.ebi.ac.uk/pdbsum/2w0c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2w0c ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/CAPSD_BPPM2 CAPSD_BPPM2]] Major capsid protein. [[http://www.uniprot.org/uniprot/SPIKE_BPPM2 SPIKE_BPPM2]] Receptor binding protein located at the fivefold vertices.
+[https://www.uniprot.org/uniprot/CAPSD_BPPM2 CAPSD_BPPM2] Major capsid protein.
 == 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/w0/2w0c_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w0/2w0c_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 31: / Line 32: @@
 <references/>
 __TOC__
-</StructureSection>
+</SX>
-[[Category: Alteromonas phage pm2]]
+[[Category: Large Structures]]
-[[Category: Abrescia, N G.A]]
+[[Category: Pseudoalteromonas virus PM2]]
-[[Category: Assenberg, R]]
+[[Category: Abrescia NGA]]
-[[Category: Bamford, D H]]
+[[Category: Assenberg R]]
-[[Category: Bamford, J K.H]]
+[[Category: Bamford DH]]
-[[Category: Butcher, S J]]
+[[Category: Bamford JKH]]
-[[Category: Grimes, J M]]
+[[Category: Butcher SJ]]
-[[Category: Kivela, H M]]
+[[Category: Grimes JM]]
-[[Category: Stuart, D I]]
+[[Category: Kivela HM]]
-[[Category: Sutton, G C]]
+[[Category: Stuart DI]]
-[[Category: Capsid protein]]
+[[Category: Sutton GC]]
-[[Category: Member of prd1-adeno viral lineage]]
-[[Category: Membrane]]
-[[Category: Membrane-containing bacteriophage]]
-[[Category: Transmembrane]]
-[[Category: Virus]]
-[[Category: Virus virion]]

2w0c

From Proteopedia

Current revision

X-ray structure of the entire lipid-containing bacteriophage PM2

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox