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| [[Image:2h9s.gif|left|200px]]
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| {{Structure
| | ==Crystal Structure of Homo-DNA and Nature's Choice of Pentose over Hexose in the Genetic System== |
| |PDB= 2h9s |SIZE=350|CAPTION= <scene name='initialview01'>2h9s</scene>, resolution 1.75Å
| | <StructureSection load='2h9s' size='340' side='right'caption='[[2h9s]], [[Resolution|resolution]] 1.75Å' scene=''> |
| |SITE= | | == Structural highlights == |
| |LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XAD:9-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-9H-PURIN-6-AMINE'>XAD</scene>, <scene name='pdbligand=XCT:4-AMINO-1-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)PYRIMIDIN-2(1H)-ONE'>XCT</scene>, <scene name='pdbligand=XGU:2-AMINO-9-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-1,9-DIHYDRO-6H-PURIN-6-ONE'>XGU</scene>, <scene name='pdbligand=XTH:1-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-5-METHYLPYRIMIDINE-2,4(1H,3H)-DIONE'>XTH</scene>
| | <table><tr><td colspan='2'>[[2h9s]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H9S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2H9S 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]] 1.75Å</td></tr> |
| |GENE=
| | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=XAD:9-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-9H-PURIN-6-AMINE'>XAD</scene>, <scene name='pdbligand=XCT:4-AMINO-1-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)PYRIMIDIN-2(1H)-ONE'>XCT</scene>, <scene name='pdbligand=XGU:2-AMINO-9-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-1,9-DIHYDRO-6H-PURIN-6-ONE'>XGU</scene>, <scene name='pdbligand=XTH:1-(2,3-DIDEOXY-6-O-PHOSPHONO-BETA-D-ERYTHRO-HEXOPYRANOSYL)-5-METHYLPYRIMIDINE-2,4(1H,3H)-DIONE'>XTH</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=2h9s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h9s OCA], [https://pdbe.org/2h9s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2h9s RCSB], [https://www.ebi.ac.uk/pdbsum/2h9s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2h9s ProSAT]</span></td></tr> |
| |RELATEDENTRY=
| | </table> |
| |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2h9s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2h9s OCA], [http://www.ebi.ac.uk/pdbsum/2h9s PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2h9s RCSB]</span>
| | __TOC__ |
| }}
| | </StructureSection> |
| | | [[Category: Large Structures]] |
| '''Crystal Structure of Homo-DNA and Nature's Choice of Pentose over Hexose in the Genetic System'''
| | [[Category: Egli M]] |
| | | [[Category: Pallan PS]] |
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| ==Overview==
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| An experimental rationalization of the structure type encountered in DNA and RNA by systematically investigating the chemical and physical properties of alternative nucleic acids has identified systems with a variety of sugar-phosphate backbones that are capable of Watson-Crick base pairing and in some cases cross-pairing with the natural nucleic acids. The earliest among the model systems tested to date, (4' --> 6')-linked oligo(2',3'-dideoxy-beta-d-glucopyranosyl)nucleotides or homo-DNA, shows stable self-pairing, but the pairing rules for the four natural bases are not the same as those in DNA. However, a complete interpretation and understanding of the properties of the hexapyranosyl (4' --> 6') family of nucleic acids has been impeded until now by the lack of detailed 3D-structural data. We have determined the crystal structure of a homo-DNA octamer. It reveals a weakly twisted right-handed duplex with a strong inclination between the hexose-phosphate backbones and base-pair axes, and highly irregular values for helical rise and twist at individual base steps. The structure allows a rationalization of the inability of allo-, altro-, and glucopyranosyl-based oligonucleotides to form stable pairing systems.
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| ==About this Structure==
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| 2H9S is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2H9S OCA].
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| ==Reference==
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| Crystal structure of homo-DNA and nature's choice of pentose over hexose in the genetic system., Egli M, Pallan PS, Pattanayek R, Wilds CJ, Lubini P, Minasov G, Dobler M, Leumann CJ, Eschenmoser A, J Am Chem Soc. 2006 Aug 23;128(33):10847-56. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16910680 16910680]
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| [[Category: Protein complex]] | |
| [[Category: Egli, M.]] | |
| [[Category: Pallan, P S.]] | |
| [[Category: 2',3'-di-deoxy-beta- d-glucopyranose]]
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| [[Category: dideoxyglucopyranose octamer]]
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| [[Category: glucopyranosyl nucleic acid]]
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| [[Category: hexose nucleic acid]]
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| [[Category: homo-dna]]
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| [[Category: homo-dna crystal structure]]
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| ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:27:26 2008''
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