Gt wobble base-pairing in z-DNA at 1.0 angstrom atomic resolution: the crystal structure of d(cgcgtg)
Structure:
DNA (5'-d( Cp Gp Cp Gp Tp G)-3'). Chain: a, b. Engineered: yes
Source:
Synthetic: yes
Resolution:
1.00Å
R-factor:
0.195
Authors:
P.S.Ho,C.A.Frederick,G.J.Quigley,G.A.Van Der Marel,J.H.Van Boom,A.H.- J.Wang,A.Rich
Key ref:
P.S.Ho
et al.
(1985).
G.T wobble base-pairing in Z-DNA at 1.0 A atomic resolution: the crystal structure of d(CGCGTG).
Embo J,
4,
3617-3623.
PubMed id: 4092690
G.T wobble base-pairing in Z-DNA at 1.0 A atomic resolution: the crystal structure of d(CGCGTG).
P.S.Ho,
C.A.Frederick,
G.J.Quigley,
G.A.van der Marel,
J.H.van Boom,
A.H.Wang,
A.Rich.
ABSTRACT
The DNA oligomer d(CGCGTG) crystallizes as a Z-DNA double helix containing two
guanine-thymine base pair mismatches of the wobble type. The crystal diffracts
to 1 A resolution and the structure has been solved and refined. At this
resolution, a large amount of information is revealed about the organization of
the water molecules in the lattice generally and more specifically around the
wobble base pairs. By comparing this structure with the analogous high
resolution structure of d(CGCGCG) we can visualize the structural changes as
well as the reorganization of the solvent molecules associated with wobble base
pairing. There is only a small distortion of the Z-DNA backbone resulting from
introduction of the GT mismatched base pairs. The water molecules cluster around
the wobble base pair taking up all of the hydrogen bonding capabilities of the
bases due to wobble pairing. These bridging water molecules serve to stabilize
the base-base interaction and, thus, may be generally important for base
mispairing either in DNA or in RNA molecules.
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