3k3l
From Proteopedia
(Difference between revisions)
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==Crystal structure of Siderocalin (NGAL, Lipocalin 2) complexed with apo Enterobactin== | ==Crystal structure of Siderocalin (NGAL, Lipocalin 2) complexed with apo Enterobactin== | ||
| - | <StructureSection load='3k3l' size='340' side='right' caption='[[3k3l]], [[Resolution|resolution]] 2.62Å' scene=''> | + | <StructureSection load='3k3l' size='340' side='right'caption='[[3k3l]], [[Resolution|resolution]] 2.62Å' scene=''> |
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'>[[3k3l]] is a 3 chain structure with sequence from [ | + | <table><tr><td colspan='2'>[[3k3l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3K3L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3K3L FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DBH:2,3-DIHYDROXY-BENZOIC+ACID'>DBH</scene>, <scene name='pdbligand=DBS:2-(2,3-DIHYDROXY-BENZOYLAMINO)-3-HYDROXY-PROPIONIC+ACID'>DBS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MCK:N-[(2,3-DIHYDROXYPHENYL)CARBONYL]-O-[(2S)-2-{[(2,3-DIHYDROXYPHENYL)CARBONYL]AMINO}-3-(L-SERYLOXY)PROPANOYL]-L-SERINE'>MCK</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DBH:2,3-DIHYDROXY-BENZOIC+ACID'>DBH</scene>, <scene name='pdbligand=DBS:2-(2,3-DIHYDROXY-BENZOYLAMINO)-3-HYDROXY-PROPIONIC+ACID'>DBS</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MCK:N-[(2,3-DIHYDROXYPHENYL)CARBONYL]-O-[(2S)-2-{[(2,3-DIHYDROXYPHENYL)CARBONYL]AMINO}-3-(L-SERYLOXY)PROPANOYL]-L-SERINE'>MCK</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3hwe|3hwe]], [[3cmp|3cmp]], [[3ioa|3ioa]], [[3hwd|3hwd]], [[3hwf|3hwf]], [[3hwg|3hwg]]</td></tr> | + | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3hwe|3hwe]], [[3cmp|3cmp]], [[3ioa|3ioa]], [[3hwd|3hwd]], [[3hwf|3hwf]], [[3hwg|3hwg]]</div></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">HNL, LCN2, NGAL ([ | + | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">HNL, LCN2, NGAL ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[ | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3k3l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3k3l OCA], [https://pdbe.org/3k3l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3k3l RCSB], [https://www.ebi.ac.uk/pdbsum/3k3l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3k3l ProSAT]</span></td></tr> |
</table> | </table> | ||
== Function == | == 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> |
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
[[Image:Consurf_key_small.gif|200px|right]] | [[Image:Consurf_key_small.gif|200px|right]] | ||
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</StructureSection> | </StructureSection> | ||
[[Category: Human]] | [[Category: Human]] | ||
| + | [[Category: Large Structures]] | ||
[[Category: Clifton, M C]] | [[Category: Clifton, M C]] | ||
[[Category: 25 kda alpha-2-microglobulin-related subunit of mmp-9]] | [[Category: 25 kda alpha-2-microglobulin-related subunit of mmp-9]] | ||
Revision as of 12:20, 13 October 2021
Crystal structure of Siderocalin (NGAL, Lipocalin 2) complexed with apo Enterobactin
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