1v9g
From Proteopedia
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|PDB= 1v9g |SIZE=350|CAPTION= <scene name='initialview01'>1v9g</scene>, resolution 1.8Å | |PDB= 1v9g |SIZE=350|CAPTION= <scene name='initialview01'>1v9g</scene>, resolution 1.8Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DOD:DEUTERATED+WATER'>DOD</scene>, <scene name='pdbligand=SPW:N,N'-BIS(3-AMMONIOPROPYL)BUTANE-1,4-DIAMINIUM'>SPW</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1iot|1IOT]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1v9g FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v9g OCA], [http://www.ebi.ac.uk/pdbsum/1v9g PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1v9g RCSB]</span> | ||
}} | }} | ||
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[[Category: Niimura, N.]] | [[Category: Niimura, N.]] | ||
[[Category: Tanaka, I.]] | [[Category: Tanaka, I.]] | ||
| - | [[Category: DOD]] | ||
| - | [[Category: SPW]] | ||
[[Category: h/d exchange]] | [[Category: h/d exchange]] | ||
[[Category: hydration]] | [[Category: hydration]] | ||
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[[Category: z-dna]] | [[Category: z-dna]] | ||
| - | ''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 00:21:17 2008'' |
Revision as of 21:21, 30 March 2008
| |||||||
| , resolution 1.8Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Related: | 1IOT
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Neutron Crystallographic analysis of the Z-DNA hexamer CGCGCG
Overview
In order to reveal the hydration structure of Z-DNA, a neutron diffraction study has been carried out at 1.8 A resolution on a Z-DNA hexamer d(CGCGCG). Neutron diffraction data were collected with the BIX-3 single-crystal diffractometer at the JRR-3 reactor in the Japan Atomic Energy Research Institute (JAERI) using a large crystal (1.6 mm3) obtained from D2O solution. It has been found that almost all the guanine bases have participated in H/D exchange at the C8-H8 group, consistent with the acidic nature of this bond. 44 water molecules were found in the nuclear density maps, of which 29 showed the entire contour of all three atoms (D-O-D). The remaining 15 water molecules had a simple spherical shape, indicating that they were rotationally disordered. An interesting relationship was found between the orientational disorder of the water molecules and their locations. Almost all water molecules in the minor groove were well ordered in the crystal, while 40% of the water molecules in the major groove were rotationally disordered. The hydrogen-bonding networks in the hydration shells have two structural aspects: flexibility and regularity.
About this Structure
1V9G is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
The hydration structure of a Z-DNA hexameric duplex determined by a neutron diffraction technique., Chatake T, Tanaka I, Umino H, Arai S, Niimura N, Acta Crystallogr D Biol Crystallogr. 2005 Aug;61(Pt 8):1088-98. Epub 2005, Jul 20. PMID:16041074
Page seeded by OCA on Mon Mar 31 00:21:17 2008
Categories: Protein complex | Chatake, T. | Niimura, N. | Tanaka, I. | H/d exchange | Hydration | Hydrogen | Neutron | Z-dna
