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1nol

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OXYGENATED HEMOCYANIN (SUBUNIT TYPE II)

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Retrieved from "http://52.214.119.220/wiki/index.php/1nol"

Categories: Large Structures | Limulus polyphemus | Hazes B | Hol WGJ

@@ Line 1: / Line 1: @@
-[[Image:1nol.gif|left|200px]]
- {{Structure
+==OXYGENATED HEMOCYANIN (SUBUNIT TYPE II)==
-|PDB= 1nol |SIZE=350|CAPTION= <scene name='initialview01'>1nol</scene>, resolution 2.4&Aring;
+<StructureSection load='1nol' size='340' side='right'caption='[[1nol]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene>
+<table><tr><td colspan='2'>[[1nol]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Limulus_polyphemus Limulus polyphemus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NOL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NOL FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=PER:PEROXIDE+ION'>PER</scene></td></tr>
-|DOMAIN=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1nol FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nol OCA], [https://pdbe.org/1nol PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nol RCSB], [https://www.ebi.ac.uk/pdbsum/1nol PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nol ProSAT]</span></td></tr>
-|RELATEDENTRY=
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1nol FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nol OCA], [http://www.ebi.ac.uk/pdbsum/1nol PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1nol RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/HCY2_LIMPO HCY2_LIMPO] Hemocyanins are copper-containing oxygen carriers occurring freely dissolved in the hemolymph of many mollusks and arthropods.
+== Evolutionary Conservation ==
-'''OXYGENATED HEMOCYANIN (SUBUNIT TYPE II)'''
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
-==Overview==
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/no/1nol_consurf.spt"</scriptWhenChecked>
-The crystal structure of Limulus polyphemus subunit type II hemocyanin in the deoxygenated state has been determined to a resolution of 2.18 A. Phase information for this first structure of a cheliceratan hemocyanin was obtained by molecular replacement using the crustacean hemocyanin structure of Panulirus interruptus. The most striking observation in the Limulus structure is the unexpectedly large distance of 4.6 A between both copper ions in the oxygen-binding site. Each copper has approximate trigonal planar coordination by three histidine N epsilon atoms. No bridging ligand between the copper ions could be detected. Other important new discoveries are (1) the presence of a cis-peptide bond between Glu 309 and Ser 310, with the carbonyl oxygen of the peptide plane hydrogen bonded to the N delta atom of the copper B ligand His 324; (2) localization of a chloride-binding site in the interface between the first and second domain; (3) localization of a putative calcium-binding site in the third domain. Furthermore, comparison of Limulus versus Panulirus hemocyanin revealed considerable tertiary and quaternary rigid body movements, although the overall folds are similar. Within the subunit, the first domain is rotated by about 7.5 degrees with respect to the other two domains, whereas within the hexamer the major movement is a 3.1 degrees rotation of the trimers with respect to each other. The rigid body rotation of the first domain suggests a structural mechanism for the allosteric regulation by chloride ions and probably causes the cooperative transition of the hexamer between low and high oxygen affinity states. In this postulated mechanism, the fully conserved Phe49 is the key residue that couples conformational changes of the dinuclear copper site into movements of the first domain.
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
-==About this Structure==
+  </jmolCheckbox>
-NOL is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Limulus_polyphemus Limulus polyphemus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NOL OCA].
+</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=1nol ConSurf].
+<div style="clear:both"></div>
-==Reference==
+__TOC__
-Crystal structure of deoxygenated Limulus polyphemus subunit II hemocyanin at 2.18 A resolution: clues for a mechanism for allosteric regulation., Hazes B, Magnus KA, Bonaventura C, Bonaventura J, Dauter Z, Kalk KH, Hol WG, Protein Sci. 1993 Apr;2(4):597-619. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8518732 8518732]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Limulus polyphemus]]
-[[Category: Single protein]]
+[[Category: Hazes B]]
-[[Category: Hazes, B.]]
+[[Category: Hol WGJ]]
-[[Category: Hol, W G.J.]]
-[[Category: oxygen transport]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:33:20 2008''

1nol

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OXYGENATED HEMOCYANIN (SUBUNIT TYPE II)

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