The three major conformations of DNA are B-DNA, A-DNA, and Z-DNA.
B-DNA
B-DNA is the most commonly recognized and studied conformation of DNA. It is also the most abundant form of DNA in cells under normal physical conditions.
B-DNA or B-form DNA is differentiated by these characteristics:
It consists of two strands of DNA that wind around the same axis in a right-handed helical structure.
The plectonemic coiling of the two DNA strands creates a structure that is compact and efficient.
The two strands of the double helix are antiparallel - they run in opposite directions. The nucleotides on one strand align in a 5′ to 3′ orientation, while their complementary nucleotides on the opposite strand align in a 3′ to 5′ orientation.
The base pairs are nearly centered over the helical axis.
The sugar ring is in the C2′ endoconformation.
The helix diameter is approximately 9 nanometers.
The helix pitch is 34 degrees, base-pair tilt is -6 degrees, and twist angle is 36 degrees.
The hydrogen bonding between the bases, specifically in the anti-conformation helps to maintain the stability of the B-DNA structure.
The B-form of DNA is observed at high water concentration (high humidity).
A-DNA
The A-form of DNA has several similarities with the B-form of DNA but it can be differentiated by a few distinctive characteristics:
It consists of two strands of DNA that wind around the same axis in a right-handed helical structure.
The helix has a ribbon-like shape with a more open cylindrical core. This is because of the arrangement of base pairs within the double helix.
The base pairs are displaced away from the central axis and closer to the major groove.
The sugar ring is in the C3′ endoconformation
The helix pitch is 28 degrees, base-pair tilt is 20 degrees, and twist angle is 33 degrees.
The helix diameter is approximately 2.3 nanometers, which is slightly smaller than the B-form DNA helix.
The A-form of DNA is observed at low water concentration (low humidity).
Z-DNA
Z-DNA or Z-form DNA is differentiated by these characteristics:
It has a distinct structure that’s significantly different from both B-DNA and A-DNA.
Z-DNA consists of two strands of DNA that wind around the same axis in left-handed helices, resulting in a prominent zig-zag pattern in the phosphodiester backbone.
It has antiparallel strands similar to B-DNA and A-DNA but its helix is narrower and more elongated compared to the compact structures of the other two major conformations of DNA.
The helix pitch is 45 degrees, base-pair tilt is 7 degrees, and twist angle is -30 degrees.
The helix diameter is approximately 1.8 nanometers.
The Z-form of DNA is observed in high salt concentrations.