3ped: Difference between revisions

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 ==Siderocalin Recognitin of Carboxymycobactins: Interference by the immune system in intracellular iron acquisition by Mycobacteria tuberculosis==
-<StructureSection load='3ped' size='340' side='right' caption='[[3ped]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
+<StructureSection load='3ped' size='340' side='right'caption='[[3ped]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ped]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PED OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PED FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ped]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PED OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PED FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZYF:(9Z)-11-{HYDROXY[(5S)-6-{[(1S)-3-{[(3S)-1-HYDROXY-2-OXOAZEPAN-3-YL]AMINO}-1-METHYL-3-OXOPROPYL]OXY}-5-({[(4S)-2-(2-HYDROXYPHENYL)-4,5-DIHYDRO-1,3-OXAZOL-4-YL]CARBONYL}AMINO)-6-OXOHEXYL]AMINO}-11-OXOUNDEC-9-ENOIC+ACID'>ZYF</scene><br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.3&#8491;</td></tr>
-<tr><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1x89|1x89]], [[1x8u|1x8u]], [[3pec|3pec]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZYF:(9Z)-11-{hydroxy[(5S)-6-{[(2S)-4-{[(3S)-1-hydroxy-2-oxoazepan-3-yl]amino}-4-oxobutan-2-yl]oxy}-5-({[(4S)-2-(2-hydroxyphenyl)-4,5-dihydro-1,3-oxazol-4-yl]carbonyl}amino)-6-oxohexyl]amino}-11-oxoundec-9-enoic+acid'>ZYF</scene></td></tr>
-<tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">LCN2, HNL, NGAL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=3ped FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ped OCA], [https://pdbe.org/3ped PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ped RCSB], [https://www.ebi.ac.uk/pdbsum/3ped PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ped ProSAT]</span></td></tr>
-<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3ped FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ped OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ped RCSB], [http://www.ebi.ac.uk/pdbsum/3ped PDBsum]</span></td></tr>
+</table>
-<table>
+== Function ==
+[https://www.uniprot.org/uniprot/NGAL_HUMAN NGAL_HUMAN] Iron-trafficking protein involved in multiple processes such as apoptosis, innate immunity and renal development. Binds iron through association with 2,5-dihydroxybenzoic acid (2,5-DHBA), a siderophore that shares structural similarities with bacterial enterobactin, and delivers or removes iron from the cell, depending on the context. Iron-bound form (holo-24p3) is internalized following binding to the SLC22A17 (24p3R) receptor, leading to release of iron and subsequent increase of intracellular iron concentration. In contrast, association of the iron-free form (apo-24p3) with the SLC22A17 (24p3R) receptor is followed by association with an intracellular siderophore, iron chelation and iron transfer to the extracellular medium, thereby reducing intracellular iron concentration. Involved in apoptosis due to interleukin-3 (IL3) deprivation: iron-loaded form increases intracellular iron concentration without promoting apoptosis, while iron-free form decreases intracellular iron levels, inducing expression of the proapoptotic protein BCL2L11/BIM, resulting in apoptosis. Involved in innate immunity, possibly by sequestrating iron, leading to limit bacterial growth.<ref>PMID:12453413</ref>
+==See Also==
+*[[Neutrophil gelatinase-associated lipocalin|Neutrophil gelatinase-associated lipocalin]]
+*[[Siderocalin 3D structures|Siderocalin 3D structures]]
+== References ==
+<references/>
 __TOC__
 </StructureSection>
 [[Category: Homo sapiens]]
-[[Category: Clifton, M C.]]
+[[Category: Large Structures]]
-[[Category: 8-stranded anti-parallel beta barrel]]
+[[Category: Clifton MC]]
-[[Category: Antimicrobial protein]]
-[[Category: Siderocalin]]
-[[Category: Siderophore binding]]