1yp1

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure of a non-hemorrhagic fibrin(ogen)olytic metalloproteinase from venom of Agkistrodon acutus

Structural highlights

1yp1 is a 2 chain structure with sequence from Deinagkistrodon acutus. 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

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

Thrombotic occlusive diseases pose a great threat to human health. Thrombolytic agents are in widespread use for the dissolution of arterial and venous pathologic thrombi in these kinds of diseases. Snake venom metalloproteinases (SVMPs) can act directly on fibrin/fibrinogen and are therefore potential candidates for therapeutic use against thrombotic occlusive diseases. In this study, we have determined the crystal structure of FII, a novel non-hemorrhagic SVMP isolated from Anhui Agkistrodon acutus snake venom by molecular replacement. The structure reveals that FII is a member of the P-I class SVMPs. The Zn2+ ion essential for hydrolytic activity is found in the active site and is tetrahedrally co-ordinated by three histidine residues and water molecule. Unambiguous electron density for a tri-peptide with sequence KNL is also found located near the active site. Biochemical evidences show that the tri-peptide KNL can inhibit the enzymatic activity of FII.

Crystal structure of a non-hemorrhagic fibrin(ogen)olytic metalloproteinase complexed with a novel natural tri-peptide inhibitor from venom of Agkistrodon acutus.,Lou Z, Hou J, Liang X, Chen J, Qiu P, Liu Y, Li M, Rao Z, Yan G J Struct Biol. 2005 Dec;152(3):195-203. Epub 2005 Nov 16. PMID:16330227^[1]

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

References

↑ Lou Z, Hou J, Liang X, Chen J, Qiu P, Liu Y, Li M, Rao Z, Yan G. Crystal structure of a non-hemorrhagic fibrin(ogen)olytic metalloproteinase complexed with a novel natural tri-peptide inhibitor from venom of Agkistrodon acutus. J Struct Biol. 2005 Dec;152(3):195-203. Epub 2005 Nov 16. PMID:16330227 doi:10.1016/j.jsb.2005.09.006

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1yp1"

@@ Line 3: / Line 3: @@
 <StructureSection load='1yp1' size='340' side='right'caption='[[1yp1]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1yp1]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YP1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1YP1 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1yp1]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Deinagkistrodon_acutus Deinagkistrodon acutus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YP1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YP1 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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='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=1yp1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yp1 OCA], [http://pdbe.org/1yp1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1yp1 RCSB], [http://www.ebi.ac.uk/pdbsum/1yp1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1yp1 ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=1yp1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1yp1 OCA], [https://pdbe.org/1yp1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1yp1 RCSB], [https://www.ebi.ac.uk/pdbsum/1yp1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1yp1 ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 12: / Line 13: @@
   <jmolCheckbox>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/yp/1yp1_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 32: / Line 33: @@
 [[Category: Deinagkistrodon acutus]]
 [[Category: Large Structures]]
-[[Category: Chen, J]]
+[[Category: Chen J]]
-[[Category: Hou, J]]
+[[Category: Hou J]]
-[[Category: Li, M]]
+[[Category: Li M]]
-[[Category: Liang, X]]
+[[Category: Liang X]]
-[[Category: Liu, Y]]
+[[Category: Liu Y]]
-[[Category: Lou, Z]]
+[[Category: Lou Z]]
-[[Category: Qiu, P]]
+[[Category: Qiu P]]
-[[Category: Rao, Z]]
+[[Category: Rao Z]]
-[[Category: Fii crystal structure]]
-[[Category: Hydrolase]]

1yp1

From Proteopedia

Current revision

Crystal structure of a non-hemorrhagic fibrin(ogen)olytic metalloproteinase from venom of Agkistrodon acutus

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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