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PDBsum entry 1bbo
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DNA binding protein
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PDB id
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1bbo
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References listed in PDB file
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Key reference
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Title
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High-Resolution solution structure of the double cys2his2 zinc finger from the human enhancer binding protein mbp-1.
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Authors
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J.G.Omichinski,
G.M.Clore,
M.Robien,
K.Sakaguchi,
E.Appella,
A.M.Gronenborn.
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Ref.
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Biochemistry, 1992,
31,
3907-3917.
[DOI no: ]
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PubMed id
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Abstract
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The high-resolution three-dimensional structure of a synthetic 57-residue
peptide comprising the double zinc finger of the human enhancer binding protein
MBP-1 has been determined in solution by nuclear magnetic resonance spectroscopy
on the basis of 1280 experimental restraints. A total of 30 simulated annealing
structures were calculated. The backbone atomic root-mean-square distributions
about the mean coordinate positions are 0.32 and 0.33 A for the N- and
C-terminal fingers, respectively, and the corresponding values for all atoms,
excluding disordered surface side chains, are 0.36 and 0.40 A. Each finger
comprises an irregular antiparallel sheet and a helix, with the zinc
tetrahedrally coordinated to two cysteines and two histidines. The overall
structure is nonglobular in nature, and the angle between the long axes of the
helices is 47 +/- 5 degrees. The long axis of the antiparallel sheet in the
N-terminal finger is approximately parallel to that of the helix in the
C-terminal finger. Comparison of this structure with the X-ray structure of the
Zif-268 triple finger complexed with DNA indicates that the relative orientation
of the individual zinc fingers is clearly distinct in the two cases. This
difference can be attributed to the presence of a long Lys side chain in the
C-terminal finger of MBP-1 at position 40, instead of a short Ala or Ser side
chain at the equivalent position in Zif-268. This finding suggests that
different contacts may be involved in the binding of the zinc fingers of MBP-1
and Zif-268 to DNA, consistent with the findings from methylation interference
experiments that the two fingers of MBP-1 contact 10 base pairs, while the three
fingers of Zif-268 contact only 9 base pairs.
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