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PDBsum entry 2gp5
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Metal binding protein
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PDB id
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2gp5
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References listed in PDB file
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Key reference
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Title
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Structural insights into histone demethylation by jmjd2 family members.
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Authors
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Z.Chen,
J.Zang,
J.Whetstine,
X.Hong,
F.Davrazou,
T.G.Kutateladze,
M.Simpson,
Q.Mao,
C.H.Pan,
S.Dai,
J.Hagman,
K.Hansen,
Y.Shi,
G.Zhang.
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Ref.
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Cell, 2006,
125,
691-702.
[DOI no: ]
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PubMed id
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Abstract
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Posttranslational modifications of histones regulate chromatin structure and
gene expression. Histone demethylases, members of a newly emerging
transcription-factor family, remove methyl groups from the lysine residues of
the histone tails and thereby regulate the transcriptional activity of target
genes. JmjC-domain-containing proteins have been predicted to be demethylases.
For example, the JmjC-containing protein JMJD2A has been characterized as a
H3-K9me3- and H3-K36me3-specific demethylase. Here, structures of the
catalytic-core domain of JMJD2A with and without alpha-ketoglutarate in the
presence of Fe2+ have been determined by X-ray crystallography. The structure of
the core domain, consisting of the JmjN domain, the JmjC domain, the C-terminal
domain, and a zinc-finger motif, revealed the unique elements that form a
potential substrate binding pocket. Sited-directed mutagenesis in conjunction
with demethylase activity assays allowed us to propose a molecular model for
substrate selection by the JMJD2 histone demethylase family.
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Figure 3.
Figure 3. The Superposition of c-JMJD2A and FIH
The
rotation and translation matrix of the superposition was derived
from Dali. The structure of c-JMJD2A is colored green, whereas
the FIH structure (PDB ID code 1MZF) is colored yellow. Figure 3
and Figure 4 were made with the RIBBON program (Carson, 1987).
Figure 3. The Superposition of c-JMJD2A and FIHThe rotation
and translation matrix of the superposition was derived from
Dali. The structure of c-JMJD2A is colored green, whereas the
FIH structure (PDB ID code 1MZF) is colored yellow. Figure 3 and
[3]Figure 4 were made with the RIBBON program ([4]Carson, 1987).
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Figure 4.
Figure 4. The Detailed Structures of Individual Domains
(A) The structure of the JmjN domain.
(B) The structure of
the C-terminal domain.
(C) The structure of the zinc-finger
motif formed by the C-terminal domain and the diverse region
from JmjC.
(D) The detailed coordination of the zinc atom.
Figure 4. The Detailed Structures of Individual Domains(A) The
structure of the JmjN domain.(B) The structure of the C-terminal
domain.(C) The structure of the zinc-finger motif formed by the
C-terminal domain and the diverse region from JmjC.(D) The
detailed coordination of the zinc atom.
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The above figures are
reprinted
by permission from Cell Press:
Cell
(2006,
125,
691-702)
copyright 2006.
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