2b5d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (13:42, 13 March 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2b5d.gif|left|200px]]
 
-
<!--
+
==Crystal structure of the novel alpha-amylase AmyC from Thermotoga maritima==
-
The line below this paragraph, containing "STRUCTURE_2b5d", creates the "Structure Box" on the page.
+
<StructureSection load='2b5d' size='340' side='right'caption='[[2b5d]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[2b5d]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B5D FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</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=2b5d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b5d OCA], [https://pdbe.org/2b5d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b5d RCSB], [https://www.ebi.ac.uk/pdbsum/2b5d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b5d ProSAT]</span></td></tr>
-
{{STRUCTURE_2b5d| PDB=2b5d | SCENE= }}
+
</table>
 +
== 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/b5/2b5d_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=2b5d ConSurf].
 +
<div style="clear:both"></div>
-
'''Crystal structure of the novel alpha-amylase AmyC from Thermotoga maritima'''
+
==See Also==
-
 
+
*[[Amylase 3D structures|Amylase 3D structures]]
-
 
+
__TOC__
-
==Overview==
+
</StructureSection>
-
alpha-Amylases are essential enzymes in alpha-glucan metabolism and catalyse the hydrolysis of long sugar polymers such as amylose and starch. The crystal structure of a previously unidentified amylase (AmyC) from the hyperthermophilic organism Thermotoga maritima was determined at 2.2 Angstroms resolution by means of MAD. AmyC lacks sequence similarity to canonical alpha-amylases, which belong to glycosyl hydrolase families 13, 70 and 77, but exhibits significant similarity to a group of as yet uncharacterized proteins in COG1543 and is related to glycerol hydrolase family 57 (GH-57). AmyC reveals features that are characteristic of alpha-amylases, such as a distorted TIM-barrel structure formed by seven beta-strands and alpha-helices (domain A), and two additional but less well conserved domains. The latter are domain B, which contains three helices inserted in the TIM-barrel after beta-sheet 2, and domain C, a five-helix region at the C-terminus. Interestingly, despite moderate sequence homology, structure comparison revealed significant similarities to a member of GH-57 with known three-dimensional structure, Thermococcus litoralis 4-glucanotransferase, and an even higher similarity to a structure of an enzyme of unknown function from Thermus thermophilus.
+
[[Category: Large Structures]]
-
 
+
[[Category: Thermotoga maritima MSB8]]
-
==About this Structure==
+
[[Category: Ballschmiter M]]
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B5D OCA].
+
[[Category: Dickmanns A]]
-
 
+
[[Category: Ficner R]]
-
==Reference==
+
[[Category: Liebl W]]
-
Structure of the novel alpha-amylase AmyC from Thermotoga maritima., Dickmanns A, Ballschmiter M, Liebl W, Ficner R, Acta Crystallogr D Biol Crystallogr. 2006 Mar;62(Pt 3):262-70. Epub 2006, Feb 22. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16510973 16510973]
+
-
[[Category: Alpha-amylase]]
+
-
[[Category: Ballschmiter, M.]]
+
-
[[Category: Dickmanns, A.]]
+
-
[[Category: Ficner, R.]]
+
-
[[Category: Liebl, W.]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 19:52:38 2008''
+

Current revision

Crystal structure of the novel alpha-amylase AmyC from Thermotoga maritima

PDB ID 2b5d

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/2b5d"
Personal tools