1pdl: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
← Older edit
No edit summary
No edit summary
 
(15 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1pdl.jpg|left|200px]]


{{Structure
==Fitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplate==
|PDB= 1pdl |SIZE=350|CAPTION= <scene name='initialview01'>1pdl</scene>
<SX load='1pdl' size='340' side='right' viewer='molstar' caption='[[1pdl]], [[Resolution|resolution]] 12.00&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND=  
<table><tr><td colspan='2'>[[1pdl]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_T4 Escherichia virus T4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PDL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PDL FirstGlance]. <br>
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </span>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 12&#8491;</td></tr>
|GENE=  
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1pdl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pdl OCA], [https://pdbe.org/1pdl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1pdl RCSB], [https://www.ebi.ac.uk/pdbsum/1pdl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1pdl ProSAT]</span></td></tr>
|DOMAIN=
</table>
|RELATEDENTRY=[[1k28|1K28]]
== Function ==
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pdl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pdl OCA], [http://www.ebi.ac.uk/pdbsum/1pdl PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1pdl RCSB]</span>
[https://www.uniprot.org/uniprot/NEEDL_BPT4 NEEDL_BPT4] Tail-associated lysozyme of the baseplate hub that is essential for localized hydrolysis of bacterial cell wall necessary for viral DNA injection. The needle-like gp5 protein punctures the outer cell membrane and then digests the peptidoglycan cell wall in the periplasmic space. Involved in the tail assembly.<ref>PMID:12837775</ref> <ref>PMID:21129200</ref>
}}
== 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/pd/1pdl_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1pdl ConSurf].
<div style="clear:both"></div>


'''Fitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplate'''
==See Also==
 
*[[Lysozyme 3D structures|Lysozyme 3D structures]]
 
== References ==
==Overview==
<references/>
The baseplate of bacteriophage T4 is a multiprotein molecular machine that controls host cell recognition, attachment, tail sheath contraction and viral DNA ejection. We report here the three-dimensional structure of the baseplate-tail tube complex determined to a resolution of 12 A by cryoelectron microscopy. The baseplate has a six-fold symmetric, dome-like structure approximately 520 A in diameter and approximately 270 A long, assembled around a central hub. A 940 A-long and 96 A-diameter tail tube, coaxial with the hub, is connected to the top of the baseplate. At the center of the dome is a needle-like structure that was previously identified as a cell puncturing device. We have identified the locations of six proteins with known atomic structures, and established the position and shape of several other baseplate proteins. The baseplate structure suggests a mechanism of baseplate triggering and structural transition during the initial stages of T4 infection.
__TOC__
 
</SX>
==About this Structure==
[[Category: Escherichia virus T4]]
1PDL is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_t4 Enterobacteria phage t4]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PDL OCA].
[[Category: Large Structures]]
 
[[Category: Arisaka F]]
==Reference==
[[Category: Chipman PR]]
Three-dimensional structure of bacteriophage T4 baseplate., Kostyuchenko VA, Leiman PG, Chipman PR, Kanamaru S, van Raaij MJ, Arisaka F, Mesyanzhinov VV, Rossmann MG, Nat Struct Biol. 2003 Sep;10(9):688-93. Epub 2003 Aug 17. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12923574 12923574]
[[Category: Kanamaru S]]
[[Category: Enterobacteria phage t4]]
[[Category: Kostyuchenko VA]]
[[Category: Lysozyme]]
[[Category: Leiman PG]]
[[Category: Single protein]]
[[Category: Mesyanzhinov VV]]
[[Category: Arisaka, F.]]
[[Category: Rossmann MG]]
[[Category: Chipman, P R.]]
[[Category: Van Raaij MJ]]
[[Category: Kanamaru, S.]]
[[Category: Kostyuchenko, V A.]]
[[Category: Leiman, P G.]]
[[Category: Mesyanzhinov, V V.]]
[[Category: Raaij, M J.van.]]
[[Category: Rossmann, M G.]]
[[Category: hydrolase]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:58:13 2008''

Latest revision as of 11:07, 14 February 2024

Fitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplateFitting of gp5 in the cryoEM reconstruction of the bacteriophage T4 baseplate

1pdl, resolution 12.00Å

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=1pdl&oldid=4053226"