1pdl: Difference between revisions

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<SX load='1pdl' size='340' side='right' viewer='molstar' caption='[[1pdl]], [[Resolution|resolution]] 12.00&Aring;' scene=''>
<SX load='1pdl' size='340' side='right' viewer='molstar' caption='[[1pdl]], [[Resolution|resolution]] 12.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[1pdl]] is a 3 chain structure with sequence from [https://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]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1PDL FirstGlance]. <br>
<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>
</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1k28|1k28]]</div></td></tr>
</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>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=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>
<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>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/VG05_BPT4 VG05_BPT4]] Tail-associated lysozyme 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.  
[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 ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</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].
</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].
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<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
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.
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:12923574<ref>PMID:12923574</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1pdl" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
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__TOC__
__TOC__
</SX>
</SX>
[[Category: Enterobacteria phage t4]]
[[Category: Escherichia virus T4]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Lysozyme]]
[[Category: Arisaka F]]
[[Category: Arisaka, F]]
[[Category: Chipman PR]]
[[Category: Chipman, P R]]
[[Category: Kanamaru S]]
[[Category: Kanamaru, S]]
[[Category: Kostyuchenko VA]]
[[Category: Kostyuchenko, V A]]
[[Category: Leiman PG]]
[[Category: Leiman, P G]]
[[Category: Mesyanzhinov VV]]
[[Category: Mesyanzhinov, V V]]
[[Category: Rossmann MG]]
[[Category: Raaij, M J.van]]
[[Category: Van Raaij MJ]]
[[Category: Rossmann, M G]]
[[Category: Hydrolase]]

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

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OCA
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