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PDBsum entry 3f3f
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Structural protein
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PDB id
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3f3f
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References listed in PDB file
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Key reference
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Title
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A fence-Like coat for the nuclear pore membrane.
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Authors
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E.W.Debler,
Y.Ma,
H.S.Seo,
K.C.Hsia,
T.R.Noriega,
G.Blobel,
A.Hoelz.
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Ref.
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Mol Cell, 2008,
32,
815-826.
[DOI no: ]
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PubMed id
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Abstract
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We recently proposed a cylindrical coat for the nuclear pore membrane in the
nuclear pore complex (NPC). This scaffold is generated by multiple copies of
seven nucleoporins. Here, we report three crystal structures of the nucleoporin
pair Seh1*Nup85, which is part of the coat cylinder. The Seh1*Nup85 assembly
bears resemblance in its shape and dimensions to that of another nucleoporin
pair, Sec13*Nup145C. Furthermore, the Seh1*Nup85 structures reveal a hinge
motion that may facilitate conformational changes in the NPC during import of
integral membrane proteins and/or during nucleocytoplasmic transport. We propose
that Seh1*Nup85 and Sec13*Nup145C form 16 alternating, vertical rods that are
horizontally linked by the three remaining nucleoporins of the coat cylinder.
Shared architectural and mechanistic principles with the COPII coat indicate a
common evolutionary origin and support the notion that the NPC coat represents
another class of membrane coats.
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Figure 2.
Figure 2. Detailed Structural Analysis of Nup85 and Seh1
(A) A ribbon representation of the Nup85 structure is shown in
rainbow colors along the polypeptide chain from the N to the C
terminus. The N-terminal domain invasion motif (DIM), the
α-helical solenoid domain, and their secondary structure
elements are indicated.
(B) The structure of the
Seh1•Nup85 heterodimer. The Nup85^DIM (magenta), the Nup85
α-helical solenoid domain (blue), the Nup85 αQ-αR connector
(red), the Seh1 β propeller (yellow), the disordered Seh1 5CD
loop (gray dots), and the Seh1 2CD loop (orange) are indicated;
a 90° rotated view is shown on the right. Dotted lines
represent disordered regions.
(C) Schematic representation
of the Seh1•Nup85 interaction. The Seh1 2CD loop, the Nup85
αQ-αR connector, and the DIM region are highlighted in orange,
red, and pink, respectively.
(D) The β propeller domain of
Seh1 in complex with the Nup85^DIM. Seh1 is shown in yellow, and
the six blades are indicated. The Nup85^DIM contributes one
strand to blade 6 and three strands to blade 7, completing the
β propeller.
(E) Schematic representation of the Seh1 β
propeller and its interaction with the Nup85^DIM.
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Figure 5.
Figure 5. Flexibility of the Seh1•Nup85 Hetero-Octamer
(A) The hetero-octamers of crystal forms 1 and 2 are related by
an  vert,
similar 35° hinge motion around the center of the
hetero-octamer. On the right, a schematic of the two
conformations is shown, where Seh1 and Nup85 are displayed as
balls and cylinders, respectively.
(B) Crystal form 3
harbors a heterododecamer in the asymmetric unit (small ribbon
representation). The two interfaces between the heterotetramers
are identical. In the upper two neighboring heterotetramers of
crystal form 3 (boxed in the heterododecamer), one
heterotetramer is rotated by vert,
similar 80° around its long axis with respect to crystal
form 1. For clarity, a stripe of black lines marks the relative
orientations of the heterotetramers. The alignment of the
different structures was based on the lower heterotetramer of
crystal form 1.
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The above figures are
reprinted
by permission from Cell Press:
Mol Cell
(2008,
32,
815-826)
copyright 2008.
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