This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


1x9f

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /> <applet load="1x9f" size="450" color="white" frame="true" align="right" spinBox="true" caption="1x9f, resolution 2.60&Aring;" /> '''Hemoglobin Dodecame...)
Current revision (06:18, 3 April 2024) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1x9f.gif|left|200px]]<br />
 
-
<applet load="1x9f" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1x9f, resolution 2.60&Aring;" />
 
-
'''Hemoglobin Dodecamer from Lumbricus Erythrocruorin'''<br />
 
-
==Overview==
+
==Hemoglobin Dodecamer from Lumbricus Erythrocruorin==
-
Erythrocruorins are highly cooperative giant extracellular respiratory, complexes found in annelids, where they serve the same function as red, blood cells. Our previous 5.5A resolution crystal structure of Lumbricus, terrestris erythrocruorin revealed a hierarchical organization of 144, oxygen-binding hemoglobin chains that are assembled into 12 dodecamers, arranged at the periphery of the complex around a central scaffold formed, by 36 non-hemoglobin subunits. We present here the 2.6A resolution crystal, structure of the Lumbricus hemoglobin dodecameric subassembly, which, provides the first atomic models of the erythrocruorin allosteric core., The hemoglobin dodecamer has a molecular 3-fold axis of symmetry that, relates three heterotetramers, each of which is composed of two tightly, associated heterodimers. The structure reveals details of the interfaces, including key side-chain interactions likely to contribute to, ligand-linked allosteric transitions, and shows the crowded nature of the, ligand-binding pockets. Comparison of the Lumbricus dimeric assemblies, with similar ones from mollusks and echinoderms suggests plausible, pH-dependent quaternary transitions that may occur in response to proton, binding and ligand release. Thus, these results provide the first step, towards elucidating the structural basis for the strong allosteric, properties of Lumbricus erythrocruorin.
+
<StructureSection load='1x9f' size='340' side='right'caption='[[1x9f]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1x9f]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Lumbricus_terrestris Lumbricus terrestris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1X9F OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1X9F FirstGlance]. <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]] 2.6&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CMO:CARBON+MONOXIDE'>CMO</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=1x9f FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1x9f OCA], [https://pdbe.org/1x9f PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1x9f RCSB], [https://www.ebi.ac.uk/pdbsum/1x9f PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1x9f ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/GLB4_LUMTE GLB4_LUMTE]
 +
== 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/x9/1x9f_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=1x9f ConSurf].
 +
<div style="clear:both"></div>
-
==About this Structure==
+
==See Also==
-
1X9F is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Lumbricus_terrestris Lumbricus terrestris] with PO4, HEM and CMO as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1X9F OCA].
+
*[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
-
 
+
__TOC__
-
==Reference==
+
</StructureSection>
-
Crystal structure of the hemoglobin dodecamer from Lumbricus erythrocruorin: allosteric core of giant annelid respiratory complexes., Strand K, Knapp JE, Bhyravbhatla B, Royer WE Jr, J Mol Biol. 2004 Nov 12;344(1):119-34. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15504406 15504406]
+
[[Category: Large Structures]]
[[Category: Lumbricus terrestris]]
[[Category: Lumbricus terrestris]]
-
[[Category: Protein complex]]
+
[[Category: Bhyravbhatla B]]
-
[[Category: Bhyravbhatla, B.]]
+
[[Category: Knapp JE]]
-
[[Category: Jr., W.E.Royer.]]
+
[[Category: Royer Jr WE]]
-
[[Category: Knapp, J.E.]]
+
[[Category: Strand K]]
-
[[Category: Strand, K.]]
+
-
[[Category: CMO]]
+
-
[[Category: HEM]]
+
-
[[Category: PO4]]
+
-
[[Category: crystal; dodecamer; allosteric]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 13:21:10 2007''
+

Current revision

Hemoglobin Dodecamer from Lumbricus Erythrocruorin

PDB ID 1x9f

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1x9f"
Personal tools