1uyn: Difference between revisions

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-{{Seed}}
-[[Image:1uyn.png|left|200px]]
-<!--
+==Translocator domain of autotransporter NalP from Neisseria meningitidis==
-The line below this paragraph, containing "STRUCTURE_1uyn", creates the "Structure Box" on the page.
+<StructureSection load='1uyn' size='340' side='right'caption='[[1uyn]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[1uyn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UYN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UYN FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CXE:PENTAETHYLENE+GLYCOL+MONODECYL+ETHER'>CXE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1uyn|  PDB=1uyn  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1uyn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uyn OCA], [https://pdbe.org/1uyn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uyn RCSB], [https://www.ebi.ac.uk/pdbsum/1uyn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uyn ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/NALP_NEIMH NALP_NEIMH] Major human immunogenic protein. Autotransporter with a secreted protease domain involved in processing other autotransporter proteins including App and IgA. Probably autoprocesses to release the about 70 kDa passenger domain (PubMed:14617158). Processes the lactoferrin receptor lipoprotein subunit (LbpB) extracellularly, releasing it from the cell surface. LbpB release protects bacteria against complement-mediated killing by anti-LbpB antibodies (PubMed:20421383). Processes NHBA (PubMed:23258267). Lipidation slows its auto-processing, probably allowing it to act on endogenous substrates on the cell suface before the passenger domain is released into the medium (PubMed:23258267). The C-terminal beta-barrel domain inserts into the outer membrane where it probably exports the N-terminal passenger domain (PubMed:15014442). Both the cell surface protein (Neisserial autotransporter lipoprotein NalP) and the passenger domain cleave human (host) complement factor C3, generating a shorter alpha chain and a longer beta chain than normal (By similarity).[UniProtKB:Q9JXM7]<ref>PMID:14617158</ref> <ref>PMID:15014442</ref> <ref>PMID:20421383</ref> <ref>PMID:23258267</ref>   Plays a role in extracellular-DNA (eDNA) mediated biofilm formation. In some strains (including cc32 strain H44/76 but not cc11 strain B16B6) eDNA stimulates biofilm formation. When NalP is not expressed (and no longer processes NHBA or IgA) biofilm formation increases (PubMed:23163582). This is probably because the number of positively charged, DNA-binding peptides on the cell surface rises, resulting in increased biofilm formation (Probable).<ref>PMID:23163582</ref> <ref>PMID:23163582</ref>   Cleaves human (host) complement factor C3, generating a shorter alpha chain and a longer beta chain than normal. Does not act on mouse or rabbit C3. Cleavage causes C3b degradation by human CFI and CFH, decreases deposition of C3b on the bacteria surface and probably facilitates complement escape.[UniProtKB:Q9JXM7]
+== 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/uy/1uyn_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=1uyn ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Autotransporters are virulence-related proteins of Gram-negative bacteria that are secreted via an outer-membrane-based C-terminal extension, the translocator domain. This domain supposedly is sufficient for the transport of the N-terminal passenger domain across the outer membrane. We present here the crystal structure of the in vitro-folded translocator domain of the autotransporter NalP from Neisseria meningitidis, which reveals a 12-stranded beta-barrel with a hydrophilic pore of 10 x 12.5 A that is filled by an N-terminal alpha-helix. The domain has pore activity in vivo and in vitro. Our data are consistent with the model of passenger-domain transport through the hydrophilic channel within the beta-barrel, and inconsistent with a model for transport through a central channel formed by an oligomer of translocator domains. However, the dimensions of the pore imply translocation of the secreted domain in an unfolded form. An alternative model, possibly covering the transport of folded domains, is that passenger-domain transport involves the Omp85 complex, the machinery required for membrane insertion of outer-membrane proteins, on which autotransporters are dependent.
-===TRANSLOCATOR DOMAIN OF AUTOTRANSPORTER NALP FROM NEISSERIA MENINGITIDIS===
+Structure of the translocator domain of a bacterial autotransporter.,Oomen CJ, van Ulsen P, van Gelder P, Feijen M, Tommassen J, Gros P EMBO J. 2004 Mar 24;23(6):1257-66. Epub 2004 Mar 11. PMID:15014442<ref>PMID:15014442</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1uyn" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15014442}}, adds the Publication Abstract to the page
+*[[NalP|NalP]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15014442 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15014442}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-UYN is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Neisseria_meningitidis Neisseria meningitidis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UYN OCA].
-==Reference==
-<ref group="xtra">PMID:15014442</ref><references group="xtra"/>
 [[Category: Neisseria meningitidis]]
-[[Category: Feijen, M.]]
+[[Category: Feijen M]]
-[[Category: Gelder, P Van.]]
+[[Category: Gros P]]
-[[Category: Gros, P.]]
+[[Category: Oomen CJ]]
-[[Category: Oomen, C J.]]
+[[Category: Tommassen J]]
-[[Category: Tommassen, J.]]
+[[Category: Van Gelder P]]
-[[Category: Ulsen, P Van.]]
+[[Category: Van Ulsen P]]
-[[Category: Autotransporter]]
-[[Category: Beta-barrel]]
-[[Category: Beta-domain]]
-[[Category: Membrane protein]]
-[[Category: Outer membrane]]
-[[Category: Translocator domain]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 19:01:17 2009''