Arabinanase: Difference between revisions

Latest revision as of 12:03, 27 May 2024

Function

Arabinanase (Ara) hydrolyzes the α-1,5-linked L-arabinofuranoside backbone of plant cell wall arabinans.^[1] See more details in Exo-alpha-1,5-L-Arabinanase. Endo-arabinanase hydrolyzes from the N-terminal of the chain while exo-arabinanase hydrolyzes from the end of the chain.

Structural highlights

The .^[2]. .

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3D Structures of Arabinanase

Arabinanase 3D structures

Endo-arabinanase complex with arabinohexose (yellow) and Cl- ion (green) (PDB code 1gye)

Drag the structure with the mouse to rotate

ReferencesReferences

↑ Alhassid A, Ben-David A, Tabachnikov O, Libster D, Naveh E, Zolotnitsky G, Shoham Y, Shoham G. Crystal structure of an inverting GH 43 1,5-alpha-L-arabinanase from Geobacillus stearothermophilus complexed with its substrate. Biochem J. 2009 Jul 29;422(1):73-82. PMID:19505290 doi:10.1042/BJ20090180
↑ Nurizzo D, Turkenburg JP, Charnock SJ, Roberts SM, Dodson EJ, McKie VA, Taylor EJ, Gilbert HJ, Davies GJ. Cellvibrio japonicus alpha-L-arabinanase 43A has a novel five-blade beta-propeller fold. Nat Struct Biol. 2002 Sep;9(9):665-8. PMID:12198486 doi:10.1038/nsb835

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Michal Harel, Alexander Berchansky

[1] Alhassid A, Ben-David A, Tabachnikov O, Libster D, Naveh E, Zolotnitsky G, Shoham Y, Shoham G. Crystal structure of an inverting GH 43 1,5-alpha-L-arabinanase from Geobacillus stearothermophilus complexed with its substrate. Biochem J. 2009 Jul 29;422(1):73-82. PMID:19505290 doi:10.1042/BJ20090180

[2] Nurizzo D, Turkenburg JP, Charnock SJ, Roberts SM, Dodson EJ, McKie VA, Taylor EJ, Gilbert HJ, Davies GJ. Cellvibrio japonicus alpha-L-arabinanase 43A has a novel five-blade beta-propeller fold. Nat Struct Biol. 2002 Sep;9(9):665-8. PMID:12198486 doi:10.1038/nsb835

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-[[Image:2x8f.png|left|200px|thumb|Crystal Structure of Arabinanase, [[2x8f]]]]
+<StructureSection load='1gye' size='400' side='right' caption='Endo-arabinanase  complex with arabinohexose (yellow) and Cl- ion (green) (PDB code [[1gye]])' scene='45/451702/Cv/1'>
-{{STRUCTURE_3cu9| PDB=3cu9  | SIZE=400| SCENE= |right|CAPTION=Endo-arabinanase complex with Ca+2 ion and glycerol, [[3cu9]] }}
-'''Arabinanase''' (Ara) hydrolyzes the α-1,5-linked L-arabinofuranoside backbone  of plant cell wall arabinans. See more details in [[Exo-alpha-1,5-L-Arabinanase]].
-{{TOC limit|limit=2}}
+== Function ==
+'''Arabinanase''' (Ara) hydrolyzes the α-1,5-linked L-arabinofuranoside backbone  of plant cell wall arabinans.<ref>PMID:19505290</ref> See more details in [[Exo-alpha-1,5-L-Arabinanase]].  '''Endo-arabinanase''' hydrolyzes from the N-terminal of the chain while '''exo-arabinanase''' hydrolyzes from the end of the chain.
+== Structural highlights ==
+The <scene name='45/451702/Cv/4'>active site of Ara is composed of 3 acidic residues</scene>.<ref>PMID:12198486</ref>. <scene name='45/451702/Cv/5'>Whole active site</scene>.
+*<scene name='45/451702/Cv/7'>Arabinohexose binding pocket</scene>.
+*<scene name='45/451702/Cv/6'>Cl coordination site</scene>.
 == 3D Structures of Arabinanase ==
+[[Arabinanase 3D structures]]
-===Endo-arabinanase===
+</StructureSection>
-[[2x8f]]– BsEndo-Ara – ''Bacillus subtilis''<br />
-[[2x8t]] - BsEndo-Ara (mutant) <br />
-[[3cu9]], [[1wl7]] – GsEndo-Ara – ''Geobacillus stearothermophilus''<br />
-[[3d5y]], [[3d60]] - GsEndo-Ara (mutant) <br />
-[[1gyd]] – CcEndo-Ara – ''Cellvibrio cellulose''<br />
-[[1gyh]] - CcEndo-Ara (mutant)
-===Endo-arabinanase complex with substrate===
-[[1gye]] - CcEndo-Ara (mutant) + arabinohexose<br />
-[[3d5z]], [[3d61]] - GsEndo-Ara (mutant) + arabinotriose<br />
-[[2x8s]] - BsEndo-Ara (mutant) + arabinotriose<br />
-===Exo-arabinanase===
-[[3a71]] – PcExo-Ara residues 24-378 – ''Penicillium chrysogenum''<br />
-[[2w5n]] – GzExo-Ara – ''Gibberella zeae''
-===Exo-arabinanase complex with substrate===
-[[3a72]] - PcExo-Ara residues 24-378 + arabinobiose<br />
-[[2w5o]] - GzExo-Ara + arabinobiose<br />
+== References ==
+  <references/>