1bf2: Difference between revisions

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== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[1bf2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_amyloderamosa Pseudomonas amyloderamosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BF2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BF2 FirstGlance]. <br>
<table><tr><td colspan='2'>[[1bf2]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_amyloderamosa Pseudomonas amyloderamosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1BF2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1BF2 FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2&#8491;</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Isoamylase Isoamylase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.68 3.2.1.68] </span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=1bf2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bf2 OCA], [https://pdbe.org/1bf2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bf2 RCSB], [https://www.ebi.ac.uk/pdbsum/1bf2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bf2 ProSAT]</span></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=1bf2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1bf2 OCA], [https://pdbe.org/1bf2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1bf2 RCSB], [https://www.ebi.ac.uk/pdbsum/1bf2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1bf2 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
[https://www.uniprot.org/uniprot/ISOA_PSEAY ISOA_PSEAY]
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</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=1bf2 ConSurf].
</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=1bf2 ConSurf].
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<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The three-dimensional structure of isoamylase from Pseudomonas amyloderamosa, which hydrolyzes alpha-1,6-glucosidic linkages of amylopectin and glycogen, has been determined by X-ray structure analysis. The enzyme has 750 amino acid residues and a molecular mass of 80 kDa, and it can be crystallized from ammonium sulfate solution. The structure was elucidated by the multiple isomorphous replacement method and refined at 2.2 A resolution, resulting in a final R-factor of 0.161 for significant reflections with a root-mean-square deviation from ideality in bond lengths of 0.009 A. The analysis revealed that in the N-terminal region, isoamylase has a novel extra domain that we call domain N, whose three-dimensional structure has not so far been reported. It has a (beta/alpha)8-barrel-type supersecondary structure in the catalytic domain common to the alpha-amylase family enzymes, though the barrel is incomplete, with a deletion of an alpha-helix between the fifth and sixth beta-strands. A long excursed region is present between the third beta-strand and the third alpha-helix of the barrel but, in contrast to the so-called domain B that has been identified in the other enzymes of alpha-amylase family, it cannot be considered to be an independent domain, because this loop forms a globular cluster together with the loop between the fourth beta-strand and the fourth alpha-helix. Isoamylase contains a bound calcium ion, but this is not in the same position as the conserved calcium ion that has been reported in other alpha-amylase family enzymes.
Three-dimensional structure of Pseudomonas isoamylase at 2.2 A resolution.,Katsuya Y, Mezaki Y, Kubota M, Matsuura Y J Mol Biol. 1998 Sep 4;281(5):885-97. PMID:9719642<ref>PMID:9719642</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1bf2" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Isoamylase]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Pseudomonas amyloderamosa]]
[[Category: Pseudomonas amyloderamosa]]
[[Category: Katsuya, Y]]
[[Category: Katsuya Y]]
[[Category: Kubota, M]]
[[Category: Kubota M]]
[[Category: Matsuura, Y]]
[[Category: Matsuura Y]]
[[Category: Mezaki, Y]]
[[Category: Mezaki Y]]
[[Category: Debranching enzyme]]
[[Category: Glycosidase]]
[[Category: Hydrolase]]

Revision as of 18:32, 13 March 2024

STRUCTURE OF PSEUDOMONAS ISOAMYLASESTRUCTURE OF PSEUDOMONAS ISOAMYLASE

Structural highlights

1bf2 is a 1 chain structure with sequence from Pseudomonas amyloderamosa. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ISOA_PSEAY

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

1bf2, resolution 2.00Å

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OCA
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