1v6p

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of Cobrotoxin

Structural highlights

1v6p is a 2 chain structure with sequence from Naja atra. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 0.87Å
Ligands:	, , ,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

3S1CB_NAJAT Binds to muscle nicotinic acetylcholine receptor (nAChR) and inhibit acetylcholine from binding to the receptor, thereby impairing neuromuscular transmission. Has a higher toxicity than cobrotoxin-b.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

By using single wavelength anomalous diffraction phasing based on the anomalous signal from copper atoms, the crystal structure of atratoxin was determined at the resolution of 1.5 A and was refined to an ultrahigh resolution of 0.87 A. The ultrahigh resolution electron density maps allowed the modeling of 38 amino acid residues in alternate conformations and the location of 322 of 870 possible hydrogen atoms. To get accurate information at the atomic level, atratoxin-b (an analog of atratoxin with reduced toxicity) was also refined to an atomic resolution of 0.92 A. By the sequence and structural comparison of these two atratoxins, Arg(33) and Arg(36) were identified to be critical to their varied toxicity. The effect of copper ions on the distribution of hydrogen atoms in atratoxin was discussed, and the interactions between copper ions and protein residues were analyzed based on a statistical method, revealing a novel pentahedral copper-binding motif.

The atomic resolution crystal structure of atratoxin determined by single wavelength anomalous diffraction phasing.,Lou X, Liu Q, Tu X, Wang J, Teng M, Niu L, Schuller DJ, Huang Q, Hao Q J Biol Chem. 2004 Sep 10;279(37):39094-104. Epub 2004 Jul 12. PMID:15252034^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Lou X, Liu Q, Tu X, Wang J, Teng M, Niu L, Schuller DJ, Huang Q, Hao Q. The atomic resolution crystal structure of atratoxin determined by single wavelength anomalous diffraction phasing. J Biol Chem. 2004 Sep 10;279(37):39094-104. Epub 2004 Jul 12. PMID:15252034 doi:10.1074/jbc.M403863200

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1v6p"

@@ Line 3: / Line 3: @@
 <StructureSection load='1v6p' size='340' side='right'caption='[[1v6p]], [[Resolution|resolution]] 0.87&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1v6p]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Naja_atra Naja atra]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V6P OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1V6P FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1v6p]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Naja_atra Naja atra]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1V6P OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V6P 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=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 0.87&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1v6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v6p OCA], [http://pdbe.org/1v6p PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1v6p RCSB], [http://www.ebi.ac.uk/pdbsum/1v6p PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1v6p ProSAT]</span></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=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=EOH:ETHANOL'>EOH</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=1v6p FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v6p OCA], [https://pdbe.org/1v6p PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v6p RCSB], [https://www.ebi.ac.uk/pdbsum/1v6p PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v6p ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/3S1CB_NAJAT 3S1CB_NAJAT]] Binds to muscle nicotinic acetylcholine receptor (nAChR) and inhibit acetylcholine from binding to the receptor, thereby impairing neuromuscular transmission. Has a higher toxicity than cobrotoxin-b.
+[https://www.uniprot.org/uniprot/3S1CB_NAJAT 3S1CB_NAJAT] Binds to muscle nicotinic acetylcholine receptor (nAChR) and inhibit acetylcholine from binding to the receptor, thereby impairing neuromuscular transmission. Has a higher toxicity than cobrotoxin-b.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 14: / Line 15: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/v6/1v6p_consurf.spt"</scriptWhenChecked>
-    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
@@ Line 34: / Line 35: @@
 [[Category: Large Structures]]
 [[Category: Naja atra]]
-[[Category: Hao, Q]]
+[[Category: Hao Q]]
-[[Category: Huang, Q]]
+[[Category: Huang Q]]
-[[Category: Liu, Q]]
+[[Category: Liu Q]]
-[[Category: Lou, X]]
+[[Category: Lou X]]
-[[Category: Niu, L]]
+[[Category: Niu L]]
-[[Category: Teng, M]]
+[[Category: Teng M]]
-[[Category: Tu, X]]
+[[Category: Tu X]]
-[[Category: Wang, J]]
+[[Category: Wang J]]
-[[Category: Atomic resolution]]
-[[Category: Copper ion]]
-[[Category: Short-chain neurotoxin]]
-[[Category: Toxin]]

1v6p

From Proteopedia

Current revision

Crystal structure of Cobrotoxin

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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