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| - | [[Image:383d.gif|left|200px]] | |
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| - | {{Structure
| + | ==Hydration and recognition of methylated CPG steps in DNA== |
| - | |PDB= 383d |SIZE=350|CAPTION= <scene name='initialview01'>383d</scene>, resolution 1.700Å
| + | <StructureSection load='383d' size='340' side='right'caption='[[383d]], [[Resolution|resolution]] 1.70Å' scene=''> |
| - | |SITE=
| + | == Structural highlights == |
| - | |LIGAND= <scene name='pdbligand=5CM:5-METHYL-2'-DEOXY-CYTIDINE-5'-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>
| + | <table><tr><td colspan='2'>[[383d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=383D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=383D FirstGlance]. <br> |
| - | |ACTIVITY=
| + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7Å</td></tr> |
| - | |GENE=
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr> |
| - | |DOMAIN=
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=383d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=383d OCA], [https://pdbe.org/383d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=383d RCSB], [https://www.ebi.ac.uk/pdbsum/383d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=383d ProSAT]</span></td></tr> |
| - | |RELATEDENTRY=
| + | </table> |
| - | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=383d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=383d OCA], [http://www.ebi.ac.uk/pdbsum/383d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=383d RCSB]</span>
| + | __TOC__ |
| - | }}
| + | </StructureSection> |
| - | | + | [[Category: Large Structures]] |
| - | '''Hydration and recognition of methylated CPG steps in DNA'''
| + | [[Category: Mayer-Jung C]] |
| - | | + | [[Category: Moras D]] |
| - | | + | [[Category: Timsit Y]] |
| - | ==Overview==
| + | |
| - | The analysis of the hydration pattern around methylated CpG steps in three high resolution (1.7, 2.15 and 2.2 A) crystal structures of A-DNA decamers reveals that the methyl groups of cytosine residues are well hydrated. In comparing the native structure with two structurally distinct forms of the decamer d(CCGCCGGCGG) fully methylated at its CpG steps, this study shows also that in certain structural and sequence contexts, the methylated cytosine base can be more hydrated that the unmodified one. These water molecules seem to be stabilized in front of the methyl group through the formation C-H...O interactions. In addition, these structures provide the first observation of magnesium cations bound to the major groove of A-DNA and reveal two distinct modes of metal binding in methylated and native duplexes. These findings suggest that methylated cytosine bases could be recognized by protein or DNA polar residues through their tightly bound water molecules.
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| - | | + | |
| - | ==About this Structure==
| + | |
| - | 383D is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=383D OCA].
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| - | | + | |
| - | ==Reference==
| + | |
| - | Hydration and recognition of methylated CpG steps in DNA., Mayer-Jung C, Moras D, Timsit Y, EMBO J. 1998 May 1;17(9):2709-18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9564052 9564052]
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| - | [[Category: Single protein]] | + | |
| - | [[Category: Mayer-Jung, C.]] | + | |
| - | [[Category: Moras, D.]] | + | |
| - | [[Category: Timsit, Y.]] | + | |
| - | [[Category: a-dna]]
| + | |
| - | [[Category: double helix]]
| + | |
| - | [[Category: modified deoxyribonucleic acid]]
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| - | | + | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:22:05 2008''
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