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3g96

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Revision as of 07:00, 1 November 2017

Crystal structure of the Bacillus anthracis glmS ribozyme bound to MaN6P

Structural highlights

3g96 is a 12 chain structure with sequence from Human. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
NonStd Res:	,
Related:	3g8s, 3g8t, 3g95, 3g9c
Gene:	SNRPA (HUMAN)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[SNRPA_HUMAN] Binds stem loop II of U1 snRNA. It is the first snRNP to interact with pre-mRNA. This interaction is required for the subsequent binding of U2 snRNP and the U4/U6/U5 tri-snRNP. In a snRNP-free form (SF-A) may be involved in coupled pre-mRNA splicing and polyadenylation process. Binds preferentially to the 5'-UGCAC-3' motif in vitro.^[1]

Evolutionary Conservation

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

Publication Abstract from PubMed

The glmS ribozyme is the first naturally occurring catalytic RNA that relies on an exogenous, nonnucleotide cofactor for reactivity. From a biochemical perspective, the glmS ribozyme derived from Bacillus anthracis is the best characterized. However, much of the structural work to date has been done on a variant glmS ribozyme, derived from Thermoanaerobacter tengcongensis. Here we present structures of the B. anthracis glmS ribozyme in states before the activating sugar, glucosamine 6-phosphate (GlcN6P), has bound and after the reaction has occurred. These structures show an active site preorganized to bind GlcN6P that retains some affinity for the sugar even after cleavage of the RNA backbone. A structure of an inactive glmS ribozyme with a mutation distal from the ligand-binding pocket highlights a nucleotide critical to the reaction that does not affect GlcN6P binding. Structures of the glmS ribozyme bound to a naturally occurring inhibitor, glucose 6-phosphate (Glc6P), and a nonnatural activating sugar, mannosamine 6-phosphate (MaN6P), reveal a binding mode similar to that of GlcN6P. Kinetic analyses show a pH dependence of ligand binding that is consistent with titration of the cofactor's phosphate group and support a model in which the major determinant of activity is the sugar amine independent of its stereochemical presentation.

Structural and chemical basis for glucosamine 6-phosphate binding and activation of the glmS ribozyme.,Cochrane JC, Lipchock SV, Smith KD, Strobel SA Biochemistry. 2009 Apr 21;48(15):3239-46. PMID:19228039^[2]

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

References

↑ Lutz CS, Cooke C, O'Connor JP, Kobayashi R, Alwine JC. The snRNP-free U1A (SF-A) complex(es): identification of the largest subunit as PSF, the polypyrimidine-tract binding protein-associated splicing factor. RNA. 1998 Dec;4(12):1493-9. PMID:9848648
↑ Cochrane JC, Lipchock SV, Smith KD, Strobel SA. Structural and chemical basis for glucosamine 6-phosphate binding and activation of the glmS ribozyme. Biochemistry. 2009 Apr 21;48(15):3239-46. PMID:19228039 doi:10.1021/bi802069p

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3g96"

@@ Line 1: / Line 1: @@
 ==Crystal structure of the Bacillus anthracis glmS ribozyme bound to MaN6P==
 <StructureSection load='3g96' size='340' side='right' caption='[[3g96]], [[Resolution|resolution]] 3.01&Aring;' scene=''>
@@ Line 7: / Line 8: @@
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3g8s|3g8s]], [[3g8t|3g8t]], [[3g95|3g95]], [[3g9c|3g9c]]</td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SNRPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=3g96 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3g96 OCA], [http://pdbe.org/3g96 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3g96 RCSB], [http://www.ebi.ac.uk/pdbsum/3g96 PDBsum]</span></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=3g96 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3g96 OCA], [http://pdbe.org/3g96 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3g96 RCSB], [http://www.ebi.ac.uk/pdbsum/3g96 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3g96 ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 32: / Line 33: @@
 ==See Also==
-*[[Nucleoprotein|Nucleoprotein]]
 *[[Ribozyme|Ribozyme]]
 == References ==

3g96

From Proteopedia

Revision as of 07:00, 1 November 2017

Crystal structure of the Bacillus anthracis glmS ribozyme bound to MaN6P

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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