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2yc1

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Crystal structure of the human derived single chain antibody fragment (scFv) 9004G in complex with Cn2 toxin from the scorpion Centruroides noxius Hoffmann

Structural highlights

2yc1 is a 6 chain structure with sequence from Centruroides noxius and Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.9Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

SCX2_CENNO Mammal beta-toxins bind voltage-independently at site-4 of sodium channels and shift the activation voltage to more negative potentials. This toxin is active against mammals.

Publication Abstract from PubMed

It has previously been reported that several single-chain antibody fragments of human origin (scFv) neutralize the effects of two different scorpion venoms through interactions with the primary toxins of Centruroides noxius Hoffmann (Cn2) and Centruroides suffusus suffusus (Css2). Here we present the crystal structure of the complex formed between one scFv (9004G) and the Cn2 toxin, determined in two crystal forms at 2.5 and 1.9 A resolution. A 15-residue span of the toxin is recognized by the antibody through a cleft formed by residues from five of the complementarity-determining regions of the scFv. Analysis of the interface of the complex reveals three features. First, the epitope of toxin Cn2 overlaps with essential residues for the binding of beta-toxins to its Na(+) channel receptor site. Second, the putative recognition of Css2 involves mainly residues that are present in both Cn2 and Css2 toxins. Finally, the effect on the increase of affinity of previously reported key residues during the maturation process of different scFvs can be inferred from the structure. Taken together, these results provide the structural basis that explain the mechanism of the 9004G neutralizing activity and give insight into the process of directed evolution that gave rise to this family of neutralizing scFvs.

Structural Basis of Neutralization of the Major Toxic Component from the Scorpion Centruroides noxius Hoffmann by a Human-derived Single-chain Antibody Fragment.,Canul-Tec JC, Riano-Umbarila L, Rudino-Pinera E, Becerril B, Possani LD, Torres-Larios A J Biol Chem. 2011 Jun 10;286(23):20892-900. Epub 2011 Apr 13. PMID:21489992^[1]

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

References

↑ Canul-Tec JC, Riano-Umbarila L, Rudino-Pinera E, Becerril B, Possani LD, Torres-Larios A. Structural Basis of Neutralization of the Major Toxic Component from the Scorpion Centruroides noxius Hoffmann by a Human-derived Single-chain Antibody Fragment. J Biol Chem. 2011 Jun 10;286(23):20892-900. Epub 2011 Apr 13. PMID:21489992 doi:10.1074/jbc.M111.238410

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2yc1"

@@ Line 3: / Line 3: @@
 <StructureSection load='2yc1' size='340' side='right'caption='[[2yc1]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2yc1]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Cenno Cenno] and [https://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YC1 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2yc1]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Centruroides_noxius Centruroides noxius] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2YC1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2YC1 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.9&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1cn2|1cn2]], [[2ybr|2ybr]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=2yc1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2yc1 OCA], [https://pdbe.org/2yc1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2yc1 RCSB], [https://www.ebi.ac.uk/pdbsum/2yc1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2yc1 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/SCX2_CENNO SCX2_CENNO]] Mammal beta-toxins bind voltage-independently at site-4 of sodium channels and shift the activation voltage to more negative potentials. This toxin is active against mammals.
+[https://www.uniprot.org/uniprot/SCX2_CENNO SCX2_CENNO] Mammal beta-toxins bind voltage-independently at site-4 of sodium channels and shift the activation voltage to more negative potentials. This toxin is active against mammals.
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 28: / Line 28: @@
 __TOC__
 </StructureSection>
-[[Category: Cenno]]
+[[Category: Centruroides noxius]]
-[[Category: Human]]
+[[Category: Homo sapiens]]
 [[Category: Large Structures]]
-[[Category: Becerril, B]]
+[[Category: Becerril B]]
-[[Category: Canul-Tec, J C]]
+[[Category: Canul-Tec JC]]
-[[Category: Possani, L D]]
+[[Category: Possani LD]]
-[[Category: Riano-Umbarila, L]]
+[[Category: Riano-Umbarila L]]
-[[Category: Rudino-Pinera, E]]
+[[Category: Rudino-Pinera E]]
-[[Category: Torres-Larios, A]]
+[[Category: Torres-Larios A]]
-[[Category: Immune system-toxin complex]]
-[[Category: Scorpion toxin]]

2yc1

From Proteopedia

Current revision

Crystal structure of the human derived single chain antibody fragment (scFv) 9004G in complex with Cn2 toxin from the scorpion Centruroides noxius Hoffmann

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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