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| | ==MIRAS structure determination from hemihedrally twinned crystals== | | ==MIRAS structure determination from hemihedrally twinned crystals== |
| - | <StructureSection load='2ca6' size='340' side='right' caption='[[2ca6]], [[Resolution|resolution]] 2.20Å' scene=''> | + | <StructureSection load='2ca6' size='340' side='right'caption='[[2ca6]], [[Resolution|resolution]] 2.20Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[2ca6]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Cbs_356 Cbs 356]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CA6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2CA6 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[2ca6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe Schizosaccharomyces pombe]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2CA6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2CA6 FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.2Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1k5d|1k5d]], [[1k5g|1k5g]], [[1yrg|1yrg]]</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=2ca6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ca6 OCA], [http://pdbe.org/2ca6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ca6 RCSB], [http://www.ebi.ac.uk/pdbsum/2ca6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ca6 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=2ca6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ca6 OCA], [https://pdbe.org/2ca6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ca6 RCSB], [https://www.ebi.ac.uk/pdbsum/2ca6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ca6 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/RNA1_SCHPO RNA1_SCHPO]] GTPase activator for the nuclear Ras-related regulatory protein spi1 (Ran), converting it to the putatively inactive GDP-bound state. | + | [https://www.uniprot.org/uniprot/RNA1_SCHPO RNA1_SCHPO] GTPase activator for the nuclear Ras-related regulatory protein spi1 (Ran), converting it to the putatively inactive GDP-bound state. |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Cbs 356]] | + | [[Category: Large Structures]] |
| - | [[Category: Hillig, R C]] | + | [[Category: Schizosaccharomyces pombe]] |
| - | [[Category: Renault, L]] | + | [[Category: Hillig RC]] |
| - | [[Category: Gap]] | + | [[Category: Renault L]] |
| - | [[Category: Gtpase activation]]
| + | |
| - | [[Category: Gtpase-activating protein]]
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| - | [[Category: Hemihedral twinning]]
| + | |
| - | [[Category: Leucine-rich repeat protein]]
| + | |
| - | [[Category: Lrr]]
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| - | [[Category: Merohedral twinning]]
| + | |
| - | [[Category: Merohedry]]
| + | |
| - | [[Category: Nuclear transport]]
| + | |
| - | [[Category: Rangap]]
| + | |
| - | [[Category: Rna1p]]
| + | |
| - | [[Category: Signaling activator]]
| + | |
| - | [[Category: Signaling protein]]
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| - | [[Category: Signaling regulator]]
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| Structural highlights
Function
RNA1_SCHPO GTPase activator for the nuclear Ras-related regulatory protein spi1 (Ran), converting it to the putatively inactive GDP-bound state.
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 structure of Rna1p was originally solved to 2.7 A resolution by MIRAS from crystals with partial hemihedral twinning in space group I4(1) [Hillig et al. (1999), Mol. Cell, 3, 781-791] by finding a low-twinned native crystal (twin fraction alpha=0.06) and after twin correction of all data sets. Rna1p crystals have now been used to examine how far twinning and twin correction affect MIR phasing with a higher resolution but highly twinned native data set. Even high hemihedral twinning [alphanative=0.39, alphaderivative=0.24] would not have hindered heavy-atom site identification of strong derivatives using difference Patterson maps. However, a weaker derivative could have been missed and refinement would have stalled at high R values had twinning not been identified and accounted for. Twin correction improved both site identification, experimental phasing statistics and MIR map quality. Different strategies were tested for refinement against twinned data. Using uncorrected twinned data and TWIN-CNS, Rna1p has now been refined to 2.2 A resolution (final twinned R and Rfree were 0.165 and 0.218, respectively). The increased resolution enabled release of the NCS restraints and allowed new conclusions to be drawn on the flexibility of the two molecules in the asymmetric unit. In the case of Rna1p, twinned crystal growth was possible owing to the presence of a twofold NCS axis almost parallel to the twin operator.
Detecting and overcoming hemihedral twinning during the MIR structure determination of Rna1p.,Hillig RC, Renault L Acta Crystallogr D Biol Crystallogr. 2006 Jul;62(Pt 7):750-65. Epub 2006, Jun 20. PMID:16790931[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Hillig RC, Renault L. Detecting and overcoming hemihedral twinning during the MIR structure determination of Rna1p. Acta Crystallogr D Biol Crystallogr. 2006 Jul;62(Pt 7):750-65. Epub 2006, Jun 20. PMID:16790931 doi:10.1107/S0907444906016222
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