2h9s
From Proteopedia
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|PDB= 2h9s |SIZE=350|CAPTION= <scene name='initialview01'>2h9s</scene>, resolution 1.75Å | |PDB= 2h9s |SIZE=350|CAPTION= <scene name='initialview01'>2h9s</scene>, resolution 1.75Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | + | |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> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |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> | ||
}} | }} | ||
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[[Category: Egli, M.]] | [[Category: Egli, M.]] | ||
[[Category: Pallan, P S.]] | [[Category: Pallan, P S.]] | ||
| - | [[Category: | + | [[Category: 2',3'-di-deoxy-beta- d-glucopyranose]] |
| - | + | ||
| - | + | ||
[[Category: dideoxyglucopyranose octamer]] | [[Category: dideoxyglucopyranose octamer]] | ||
[[Category: glucopyranosyl nucleic acid]] | [[Category: glucopyranosyl nucleic acid]] | ||
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[[Category: homo-dna crystal structure]] | [[Category: homo-dna crystal structure]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:27:26 2008'' |
Revision as of 00:27, 31 March 2008
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| , resolution 1.75Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of Homo-DNA and Nature's Choice of Pentose over Hexose in the Genetic System
Overview
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.
About this Structure
2H9S is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
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:16910680
Page seeded by OCA on Mon Mar 31 03:27:26 2008
