1ryb

From Proteopedia

(Difference between revisions)

Current revision

Crystal Structure of the Chloroplast Group II Intron Splicing Factor CRS2

Structural highlights

1ryb is a 1 chain structure with sequence from Zea mays. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 1.7Å
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CRS2_MAIZE Required for the splicing of group IIB introns in chloroplasts. Forms complexes with either CAF1 or CAF2 which, in turn, interact with RNA and confer intron specificity of the splicing particles. Has no peptidyl-tRNA hydrolase activity.^[1] ^[2] ^[3] ^[4]

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

Chloroplast RNA splicing 2 (CRS2) is a nuclear-encoded protein required for the splicing of nine group II introns in maize chloroplasts. CRS2 functions in the context of splicing complexes that include one of two CRS2-associated factors (CAF1 and CAF2). The CRS2-CAF1 and CRS2-CAF2 complexes are required for the splicing of different subsets of CRS2-dependent introns, and they bind tightly and specifically to their genetically defined intron targets in vivo. The CRS2 amino acid sequence is closely related to those of bacterial peptidyl-tRNA hydrolases (PTHs). To identify the structural differences between CRS2 and bacterial PTHs responsible for CRS2's gains of CAF binding and intron splicing functions, we determined the structure of CRS2 by X-ray crystallography. The fold of CRS2 is the same as that of Escherichia coli PTH, but CRS2 has two surfaces that differ from the corresponding surfaces in PTH. One of these is more hydrophobic in CRS2 than in PTH. Site-directed mutagenesis of this surface blocked CRS2-CAF complex formation, indicating that it is the CAF binding site. The CRS2 surface corresponding to the putative tRNA binding face of PTH is considerably more basic than in PTH, suggesting that CRS2 interacts with group II intron substrates via this surface. Both the sequence and the structural context of the amino acid residues essential for peptidyl-tRNA hydrolase activity are conserved in CRS2, yet expression of CRS2 is incapable of rescuing a pth(ts)E.coli strain.

Structural analysis of the group II intron splicing factor CRS2 yields insights into its protein and RNA interaction surfaces.,Ostheimer GJ, Hadjivassiliou H, Kloer DP, Barkan A, Matthews BW J Mol Biol. 2005 Jan 7;345(1):51-68. PMID:15567410^[5]

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

References

↑ Jenkins BD, Barkan A. Recruitment of a peptidyl-tRNA hydrolase as a facilitator of group II intron splicing in chloroplasts. EMBO J. 2001 Feb 15;20(4):872-9. PMID:11179231 doi:http://dx.doi.org/10.1093/emboj/20.4.872
↑ Jenkins BD, Kulhanek DJ, Barkan A. Nuclear mutations that block group II RNA splicing in maize chloroplasts reveal several intron classes with distinct requirements for splicing factors. Plant Cell. 1997 Mar;9(3):283-96. PMID:9090875 doi:http://dx.doi.org/10.1105/tpc.9.3.283
↑ Vogel J, Borner T, Hess WR. Comparative analysis of splicing of the complete set of chloroplast group II introns in three higher plant mutants. Nucleic Acids Res. 1999 Oct 1;27(19):3866-74. PMID:10481026
↑ Ostheimer GJ, Williams-Carrier R, Belcher S, Osborne E, Gierke J, Barkan A. Group II intron splicing factors derived by diversification of an ancient RNA-binding domain. EMBO J. 2003 Aug 1;22(15):3919-29. PMID:12881426 doi:http://dx.doi.org/10.1093/emboj/cdg372
↑ Ostheimer GJ, Hadjivassiliou H, Kloer DP, Barkan A, Matthews BW. Structural analysis of the group II intron splicing factor CRS2 yields insights into its protein and RNA interaction surfaces. J Mol Biol. 2005 Jan 7;345(1):51-68. PMID:15567410 doi:10.1016/j.jmb.2004.10.032

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1ryb"

Categories: Large Structures | Zea mays | Barkan A | Matthews BW | Ostheimer GJ

@@ Line 1: / Line 1: @@
 ==Crystal Structure of the Chloroplast Group II Intron Splicing Factor CRS2==
-<StructureSection load='1ryb' size='340' side='right' caption='[[1ryb]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+<StructureSection load='1ryb' size='340' side='right'caption='[[1ryb]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1ryb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Zea_mays Zea mays]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1RYB FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1ryb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Zea_mays Zea mays]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RYB FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">crs2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=4577 Zea mays])</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]] 1.7&#8491;</td></tr>
-<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Aminoacyl-tRNA_hydrolase Aminoacyl-tRNA hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.1.29 3.1.1.29] </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=1ryb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ryb OCA], [https://pdbe.org/1ryb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ryb RCSB], [https://www.ebi.ac.uk/pdbsum/1ryb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ryb ProSAT]</span></td></tr>
-<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ryb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ryb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1ryb RCSB], [http://www.ebi.ac.uk/pdbsum/1ryb PDBsum]</span></td></tr>
+</table>
-<table>
+== Function ==
+[https://www.uniprot.org/uniprot/CRS2_MAIZE CRS2_MAIZE] Required for the splicing of group IIB introns in chloroplasts. Forms complexes with either CAF1 or CAF2 which, in turn, interact with RNA and confer intron specificity of the splicing particles. Has no peptidyl-tRNA hydrolase activity.<ref>PMID:11179231</ref> <ref>PMID:9090875</ref> <ref>PMID:10481026</ref> <ref>PMID:12881426</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ry/1ryb_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ry/1ryb_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
   </jmolCheckbox>
-</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/chain_selection.php?pdb_ID=2ata 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=1ryb ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 25: / Line 27: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 1ryb" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Aminoacyl-tRNA hydrolase]]
+[[Category: Large Structures]]
 [[Category: Zea mays]]
-[[Category: Barkan, A.]]
+[[Category: Barkan A]]
-[[Category: Matthews, B W.]]
+[[Category: Matthews BW]]
-[[Category: Ostheimer, G J.]]
+[[Category: Ostheimer GJ]]
-[[Category: Alpha-beta]]
-[[Category: Hydrolase]]

1ryb

From Proteopedia

Current revision

Crystal Structure of the Chloroplast Group II Intron Splicing Factor CRS2

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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