2tio

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="2tio" size="450" color="white" frame="true" align="right" spinBox="true" caption="2tio, resolution 1.93&Aring;" /> '''LOW PACKING DENSITY ...)
Current revision (01:25, 21 November 2024) (edit) (undo)
 
(16 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2tio.jpg|left|200px]]<br /><applet load="2tio" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2tio, resolution 1.93&Aring;" />
 
-
'''LOW PACKING DENSITY FORM OF BOVINE BETA-TRYPSIN IN CYCLOHEXANE'''<br />
 
-
==Overview==
+
==LOW PACKING DENSITY FORM OF BOVINE BETA-TRYPSIN IN CYCLOHEXANE==
-
Two orthorhombic forms (Vm values are 2.3 and 3.0 A3/Da) of bovine, beta-trypsin crystals in neat cyclohexane were determined to 1.93 A, resolution, by X-ray diffraction. Both structures in organic solvent are, similar to those in aqueous solution. In the high packing density form, one cyclohexane molecule is found in a hydrophobic site near the active, center. One sulfate locates at the active site with hydrogen or salt bond, to the Ser-His catalytic diad, and five more sulfates bind on the, molecular surface. The conformation of the side chains near the sulfates, changed greatly. In the low packing density form, one cyclohexane and, three sulfates are found. In both structures, one benzamidine molecule, locates at the hydrophobic pocket of the active center. Most water, molecules on the enzyme surface are retained except some with high, temperature factors.
+
<StructureSection load='2tio' size='340' side='right'caption='[[2tio]], [[Resolution|resolution]] 1.93&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2tio]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2TIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2TIO 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]] 1.93&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEN:BENZAMIDINE'>BEN</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=2tio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2tio OCA], [https://pdbe.org/2tio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2tio RCSB], [https://www.ebi.ac.uk/pdbsum/2tio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2tio ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/TRY1_BOVIN TRY1_BOVIN]
 +
== 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/ti/2tio_consurf.spt"</scriptWhenChecked>
 +
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2tio ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Two orthorhombic forms (Vm values are 2.3 and 3.0 A3/Da) of bovine beta-trypsin crystals in neat cyclohexane were determined to 1.93 A resolution, by X-ray diffraction. Both structures in organic solvent are similar to those in aqueous solution. In the high packing density form, one cyclohexane molecule is found in a hydrophobic site near the active center. One sulfate locates at the active site with hydrogen or salt bond to the Ser-His catalytic diad, and five more sulfates bind on the molecular surface. The conformation of the side chains near the sulfates changed greatly. In the low packing density form, one cyclohexane and three sulfates are found. In both structures, one benzamidine molecule locates at the hydrophobic pocket of the active center. Most water molecules on the enzyme surface are retained except some with high temperature factors.
-
==About this Structure==
+
X-ray studies on two forms of bovine beta-trypsin crystals in neat cyclohexane.,Zhu G, Huang Q, Wang Z, Qian M, Jia Y, Tang Y Biochim Biophys Acta. 1998 Dec 8;1429(1):142-50. PMID:9920392<ref>PMID:9920392</ref>
-
2TIO is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus] with CA, SO4, BEN and HEX as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Trypsin Trypsin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.21.4 3.4.21.4] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2TIO OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
X-ray studies on two forms of bovine beta-trypsin crystals in neat cyclohexane., Zhu G, Huang Q, Wang Z, Qian M, Jia Y, Tang Y, Biochim Biophys Acta. 1998 Dec 8;1429(1):142-50. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9920392 9920392]
+
</div>
-
[[Category: Bos taurus]]
+
<div class="pdbe-citations 2tio" style="background-color:#fffaf0;"></div>
-
[[Category: Single protein]]
+
-
[[Category: Trypsin]]
+
-
[[Category: Huang, Q.]]
+
-
[[Category: Tang, Q.]]
+
-
[[Category: Zhu, G.]]
+
-
[[Category: BEN]]
+
-
[[Category: CA]]
+
-
[[Category: HEX]]
+
-
[[Category: SO4]]
+
-
[[Category: benzamidine inhibited]]
+
-
[[Category: cyclohexane]]
+
-
[[Category: hydrolase (serine proteinase)]]
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 14:04:54 2007''
+
==See Also==
 +
*[[Trypsin 3D structures|Trypsin 3D structures]]
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
 +
[[Category: Bos taurus]]
 +
[[Category: Large Structures]]
 +
[[Category: Huang Q]]
 +
[[Category: Tang Q]]
 +
[[Category: Zhu G]]

Current revision

LOW PACKING DENSITY FORM OF BOVINE BETA-TRYPSIN IN CYCLOHEXANE

PDB ID 2tio

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/2tio"
Personal tools