1jib

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (07:15, 25 October 2023) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1jib.gif|left|200px]]
 
-
{{Structure
+
==Complex of Alpha-amylase II (TVA II) from Thermoactinomyces vulgaris R-47 with Maltotetraose Based on a Crystal Soaked with Maltohexaose.==
-
|PDB= 1jib |SIZE=350|CAPTION= <scene name='initialview01'>1jib</scene>, resolution 3.30&Aring;
+
<StructureSection load='1jib' size='340' side='right'caption='[[1jib]], [[Resolution|resolution]] 3.30&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=MTT:MALTOTETRAOSE'>MTT</scene>
+
<table><tr><td colspan='2'>[[1jib]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JIB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1JIB FirstGlance]. <br>
-
|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Neopullulanase Neopullulanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.135 3.2.1.135] </span>
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.3&#8491;</td></tr>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900010:alpha-maltotetraose'>PRD_900010</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1jib FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jib OCA], [https://pdbe.org/1jib PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1jib RCSB], [https://www.ebi.ac.uk/pdbsum/1jib PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1jib ProSAT]</span></td></tr>
-
|RELATEDENTRY=[[1bvz|1BVZ]], [[1g1y|1G1Y]]
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1jib FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jib OCA], [http://www.ebi.ac.uk/pdbsum/1jib PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1jib RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/NEPU2_THEVU NEPU2_THEVU] Hydrolyzes pullulan efficiently but only a small amount of starch. Endohydrolysis of 1,4-alpha-glucosidic linkages in pullulan to form panose. Cleaves also (1-6)-alpha-glucosidic linkages to form maltotriose.
 +
== 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/ji/1jib_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=1jib ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
The structures of Thermoactinomyces vulgaris R-47 alpha-amylase II mutant (d325nTVA II) complexed with substrate analogues, methyl beta-cyclodextrin (m beta-CD) and maltohexaose (G6), were solved by X-ray diffraction at 3.2 A and 3.3 A resolution, respectively. In d325nTVA II-m beta-CD complex, the orientation and binding-position of beta-CD in TVA II were identical to those in cyclodextin glucanotransferase (CGTase). The active site residues were essentialy conserved, while there are no residues corresponding to Tyr89, Phe183, and His233 of CGTase in TVA II. In d325nTVA II-G6 complex, the electron density maps of two glucosyl units at the non-reducing end were disordered and invisible. The four glucosyl units of G6 were bound to TVA II as in CGTase, while the others were not stacked and were probably flexible. The residues of TVA II corresponding to Tyr89, Lys232, and His233 of CGTase were completely lacking. These results suggest that the lack of the residues related to alpha-glucan and CD-stacking causes the functional distinctions between CGTase and TVA II.
-
'''Complex of Alpha-amylase II (TVA II) from Thermoactinomyces vulgaris R-47 with Maltotetraose Based on a Crystal Soaked with Maltohexaose.'''
+
Structures of Thermoactinomyces vulgaris R-47 alpha-amylase II complexed with substrate analogues.,Yokota T, Tonozuka T, Shimura Y, Ichikawa K, Kamitori S, Sakano Y Biosci Biotechnol Biochem. 2001 Mar;65(3):619-26. PMID:11330677<ref>PMID:11330677</ref>
 +
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 +
</div>
 +
<div class="pdbe-citations 1jib" style="background-color:#fffaf0;"></div>
-
==Overview==
+
==See Also==
-
The structures of Thermoactinomyces vulgaris R-47 alpha-amylase II mutant (d325nTVA II) complexed with substrate analogues, methyl beta-cyclodextrin (m beta-CD) and maltohexaose (G6), were solved by X-ray diffraction at 3.2 A and 3.3 A resolution, respectively. In d325nTVA II-m beta-CD complex, the orientation and binding-position of beta-CD in TVA II were identical to those in cyclodextin glucanotransferase (CGTase). The active site residues were essentialy conserved, while there are no residues corresponding to Tyr89, Phe183, and His233 of CGTase in TVA II. In d325nTVA II-G6 complex, the electron density maps of two glucosyl units at the non-reducing end were disordered and invisible. The four glucosyl units of G6 were bound to TVA II as in CGTase, while the others were not stacked and were probably flexible. The residues of TVA II corresponding to Tyr89, Lys232, and His233 of CGTase were completely lacking. These results suggest that the lack of the residues related to alpha-glucan and CD-stacking causes the functional distinctions between CGTase and TVA II.
+
*[[Amylase 3D structures|Amylase 3D structures]]
-
 
+
== References ==
-
==About this Structure==
+
<references/>
-
1JIB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Thermoactinomyces_vulgaris Thermoactinomyces vulgaris]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1JIB OCA].
+
__TOC__
-
 
+
</StructureSection>
-
==Reference==
+
[[Category: Large Structures]]
-
Structures of Thermoactinomyces vulgaris R-47 alpha-amylase II complexed with substrate analogues., Yokota T, Tonozuka T, Shimura Y, Ichikawa K, Kamitori S, Sakano Y, Biosci Biotechnol Biochem. 2001 Mar;65(3):619-26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11330677 11330677]
+
-
[[Category: Neopullulanase]]
+
-
[[Category: Single protein]]
+
[[Category: Thermoactinomyces vulgaris]]
[[Category: Thermoactinomyces vulgaris]]
-
[[Category: Ichikawa, K.]]
+
[[Category: Ichikawa K]]
-
[[Category: Kamitori, S.]]
+
[[Category: Kamitori S]]
-
[[Category: Sakano, Y.]]
+
[[Category: Sakano Y]]
-
[[Category: Shimura, Y.]]
+
[[Category: Shimura Y]]
-
[[Category: Tonozuka, T.]]
+
[[Category: Tonozuka T]]
-
[[Category: Yokota, T.]]
+
[[Category: Yokota T]]
-
[[Category: cyclodextrin]]
+
-
[[Category: maltohexaose]]
+
-
[[Category: maltotetraose]]
+
-
[[Category: neopullulanase]]
+
-
[[Category: pullulan]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:34:07 2008''
+

Current revision

Complex of Alpha-amylase II (TVA II) from Thermoactinomyces vulgaris R-47 with Maltotetraose Based on a Crystal Soaked with Maltohexaose.

PDB ID 1jib

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/1jib"
Personal tools