3aml

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:49, 4 October 2023) (edit) (undo)
 
(5 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:3aml.jpg|left|200px]]
 
-
<!--
+
==Structure of the Starch Branching Enzyme I (BEI) from Oryza sativa L==
-
The line below this paragraph, containing "STRUCTURE_3aml", creates the "Structure Box" on the page.
+
<StructureSection load='3aml' size='340' side='right'caption='[[3aml]], [[Resolution|resolution]] 1.70&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'>[[3aml]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryza_sativa_Japonica_Group Oryza sativa Japonica Group]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AML 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]] 1.7&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=BME:BETA-MERCAPTOETHANOL'>BME</scene>, <scene name='pdbligand=EPE:4-(2-HYDROXYETHYL)-1-PIPERAZINE+ETHANESULFONIC+ACID'>EPE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SIN:SUCCINIC+ACID'>SIN</scene></td></tr>
-
{{STRUCTURE_3aml| PDB=3aml | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3aml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3aml OCA], [https://pdbe.org/3aml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3aml RCSB], [https://www.ebi.ac.uk/pdbsum/3aml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3aml ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/GLGB_ORYSJ GLGB_ORYSJ] Catalyzes the formation of the alpha-1,6-glucosidic linkages in starch by scission of a 1,4-alpha-linked oligosaccharide from growing alpha-1,4-glucan chains and the subsequent attachment of the oligosaccharide to the alpha-1,6 position.
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Starch-branching enzyme catalyzes the cleavage of alpha-1, 4-linkages and the subsequent transfer of alpha-1,4 glucan to form an alpha-1,6 branch point in amylopectin. Sequence analysis of the rice-branching enzyme I (BEI) indicated a modular structure in which the central alpha-amylase domain is flanked on each side by the N-terminal carbohydrate-binding module 48 and the alpha-amylase C-domain. We determined the crystal structure of BEI at a resolution of 1.9 A by molecular replacement using the Escherichia coli glycogen BE as a search model. Despite three modular structures, BEI is roughly ellipsoidal in shape with two globular domains that form a prominent groove which is proposed to serve as the alpha-polyglucan-binding site. Amino acid residues Asp344 and Glu399, which are postulated to play an essential role in catalysis as a nucleophile and a general acid/base, respectively, are located at a central cleft in the groove. Moreover, structural comparison revealed that in BEI, extended loop structures cause a narrowing of the substrate-binding site, whereas shortened loop structures make a larger space at the corresponding subsite in the Klebsiella pneumoniae pullulanase. This structural difference might be attributed to distinct catalytic reactions, transglycosylation and hydrolysis, respectively, by BEI and pullulanase.
-
===Structure of the Starch Branching Enzyme I (BEI) from Oryza sativa L===
+
Crystal structure of the branching enzyme I (BEI) from Oryza sativa L with implications for catalysis and substrate binding.,Noguchi J, Chaen K, Vu NT, Akasaka T, Shimada H, Nakashima T, Nishi A, Satoh H, Omori T, Kakuta Y, Kimura M Glycobiology. 2011 Aug;21(8):1108-16. Epub 2011 Apr 14. PMID:21493662<ref>PMID:21493662</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
<!--
+
</div>
-
The line below this paragraph, {{ABSTRACT_PUBMED_21493662}}, adds the Publication Abstract to the page
+
<div class="pdbe-citations 3aml" style="background-color:#fffaf0;"></div>
-
(as it appears on PubMed at http://www.pubmed.gov), where 21493662 is the PubMed ID number.
+
== References ==
-
-->
+
<references/>
-
{{ABSTRACT_PUBMED_21493662}}
+
__TOC__
-
 
+
</StructureSection>
-
==About this Structure==
+
[[Category: Large Structures]]
-
[[3aml]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Oryza_sativa_japonica_group Oryza sativa japonica group]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AML OCA].
+
[[Category: Oryza sativa Japonica Group]]
-
 
+
[[Category: Chaen K]]
-
==Reference==
+
[[Category: Kakuta Y]]
-
<ref group="xtra">PMID:021493662</ref><references group="xtra"/>
+
[[Category: Kimura M]]
-
[[Category: Oryza sativa japonica group]]
+
[[Category: Noguchi J]]
-
[[Category: Chaen, K.]]
+
[[Category: Vu N]]
-
[[Category: Kakuta, Y.]]
+
-
[[Category: Kimura, M.]]
+
-
[[Category: Noguchi, J.]]
+
-
[[Category: Vu, N.]]
+
-
[[Category: Starch-branching]]
+
-
[[Category: Transferase]]
+

Current revision

Structure of the Starch Branching Enzyme I (BEI) from Oryza sativa L

PDB ID 3aml

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/3aml"
Personal tools