4yee

From Proteopedia

(Difference between revisions)

Revision as of 06:30, 12 June 2019

beta2 carbohydrate binding module (CBM) of AMP-activated protein kinase (AMPK) in complex with glucosyl-beta-cyclodextrin

Structural highlights

4yee is a 18 chain structure with sequence from Buffalo rat. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Related:	4yef
Gene:	Prkab2 (Buffalo rat)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[AAKB2_RAT] Non-catalytic subunit of AMP-activated protein kinase (AMPK), an energy sensor protein kinase that plays a key role in regulating cellular energy metabolism. In response to reduction of intracellular ATP levels, AMPK activates energy-producing pathways and inhibits energy-consuming processes: inhibits protein, carbohydrate and lipid biosynthesis, as well as cell growth and proliferation. AMPK acts via direct phosphorylation of metabolic enzymes, and by longer-term effects via phosphorylation of transcription regulators. Also acts as a regulator of cellular polarity by remodeling the actin cytoskeleton; probably by indirectly activating myosin. Beta non-catalytic subunit acts as a scaffold on which the AMPK complex assembles, via its C-terminus that bridges alpha (PRKAA1 or PRKAA2) and gamma subunits (PRKAG1, PRKAG2 or PRKAG3) (By similarity).

Publication Abstract from PubMed

AMPK-activated protein kinase (AMPK) is a alphabetagamma heterotrimer that is important in regulating energy metabolism in all eukaryotes. The beta-subunit exists in two isoforms (beta1 and beta2) and contains a carbohydrate binding module (CBM) that interacts with glycogen. The two CBM isoforms (beta1- and beta2-CBM) are near identical in sequence and structure, yet show differences in carbohydrate binding affinity. beta2-CBM binds linear carbohydrates with four-fold greater affinity than beta1-CBM and binds single alpha1,6-branched carbohydrates up to 30-fold tighter. To understand these affinity differences, especially for branched carbohydrates, we determined the NMR solution structure of beta2-CBM in complex with the single alpha1,6 branched carbohydrate glucosyl-beta-cyclodextrin (gBCD) which supported the dynamic nature of the binding site, but resonance broadening prevented defining where the alpha1,6 branch bound. We therefore solved the X-ray crystal structures of beta1- and beta2-CBM, in complex with gBCD, to 1.7 A and 2.0 A respectively. The additional threonine (Thr-101) of beta2-CBM expands the size of the surrounding loop, creating a pocket that accommodates the alpha1,6 branch. Hydrogen bonds are formed between the alpha1,6 branch and the backbone of Trp-99 and Lys-102 side chain of beta2-CBM. In contrast the alpha1,6 branch could not be observed in the beta1-CBM structure, suggesting that it does not form a specific interaction. The orientation of gBCD bound to beta1- and beta2-CBM is supported by thermodynamic and kinetic data obtained through isothermal titration calorimetry and NMR. These results suggest that AMPK containing the muscle specific beta2-isoform may therefore have greater affinity to partially degraded glycogen.

Determinants of oligosaccharide specificity of the carbohydrate binding modules of AMP-activated protein kinase.,Mobbs JI, Koay A, Di Paolo A, Bieri M, Petrie EJ, Gorman MA, Doughty L, Parker MW, Stapleton D, Griffin MD, Gooley PR Biochem J. 2015 Mar 16. PMID:25774984^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Mobbs JI, Koay A, Di Paolo A, Bieri M, Petrie EJ, Gorman MA, Doughty L, Parker MW, Stapleton D, Griffin MD, Gooley PR. Determinants of oligosaccharide specificity of the carbohydrate binding modules of AMP-activated protein kinase. Biochem J. 2015 Mar 16. PMID:25774984 doi:http://dx.doi.org/10.1042/BJ20150270

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4yee"

@@ Line 1: / Line 1: @@
 ==beta2 carbohydrate binding module (CBM) of AMP-activated protein kinase (AMPK) in complex with glucosyl-beta-cyclodextrin==
-<StructureSection load='4yee' size='340' side='right' caption='[[4yee]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+<StructureSection load='4yee' size='340' side='right'caption='[[4yee]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4yee]] is a 18 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YEE FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4yee]] is a 18 chain structure with sequence from [http://en.wikipedia.org/wiki/Buffalo_rat Buffalo rat]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4YEE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4YEE FirstGlance]. <br>
 </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=4CQ:6-O-ALPHA-D-GLUCOSYL-BETA-CYCLODEXTRIN'>4CQ</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4yef|4yef]]</td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Prkab2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10116 Buffalo rat])</td></tr>
 <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4yee FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4yee OCA], [http://pdbe.org/4yee PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4yee RCSB], [http://www.ebi.ac.uk/pdbsum/4yee PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4yee ProSAT]</span></td></tr>
 </table>
@@ Line 21: / Line 22: @@
 ==See Also==
-*[[AMP-activated protein kinase|AMP-activated protein kinase]]
+*[[AMP-activated protein kinase 3D structures|AMP-activated protein kinase 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
+[[Category: Buffalo rat]]
+[[Category: Large Structures]]
 [[Category: Gooley, P R]]
 [[Category: Gorman, M A]]

4yee

From Proteopedia

Revision as of 06:30, 12 June 2019

beta2 carbohydrate binding module (CBM) of AMP-activated protein kinase (AMPK) in complex with glucosyl-beta-cyclodextrin

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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