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PDBsum entry 1x0s
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Proton transport
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PDB id
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1x0s
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References listed in PDB file
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Key reference
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Title
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Crystal structure of the 13-Cis isomer of bacteriorhodopsin in the dark-Adapted state.
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Authors
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T.Nishikawa,
M.Murakami,
T.Kouyama.
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Ref.
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J Mol Biol, 2005,
352,
319-328.
[DOI no: ]
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PubMed id
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Abstract
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The atomic structure of the trans isomer of bacteriorhodopsin was determined
previously by using a 3D crystal belonging to the space group P622. Here, a
structure is reported for another isomer with the 13-cis, 15-syn retinal in a
dark-adapted crystal. Structural comparison of the two isomers indicates that
retinal isomerization around the C13[double bond]C14 and the C15[double bond]N
bonds is accompanied by noticeable displacements of a few residues in the
vicinity of the retinal Schiff base and small re-arrangement of the
hydrogen-bonding network in the proton release channel. On the other hand,
aromatic residues surrounding the retinal polyene chain were found to scarcely
move during the dark/light adaptation. This result suggests that variation in
the structural rigidity within the retinal-binding pocket is one of the
important factors ensuring the stereospecific isomerization of retinal.
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Figure 2.
Figure 2. F[0]−F[0] difference map (|F[DA]|−|F[LA]|)
between the dark-adapted and the light-adapted states, contoured
at 3.6 σ (positive in yellow and negative in purple) and
overlaid on the structure model of the 13-cis isomer. The
retinal-Lys216 chain and a sulfate ion are drawn in red; the
glycolipids located in the central part of the trimeric
structure are in gray. Figure 2. F[0]−F[0] difference map
(|F[DA]|−|F[LA]|) between the dark-adapted and the
light-adapted states, contoured at 3.6 σ (positive in yellow
and negative in purple) and overlaid on the structure model of
the 13-cis isomer. The retinal-Lys216 chain and a sulfate ion
are drawn in red; the glycolipids located in the central part of
the trimeric structure are in gray. This Figure and [3]Figure 3,
[4]Figure 4, [5]Figure 5 and [6]Figure 7 are drawn with
XtalView.[7]^49
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Figure 7.
Figure 7. Structural comparison between the 13-cis isomer
(gold, blue and red), the all-trans isomer (cyan) and the L
intermediate (yellow). Figure 7. Structural comparison
between the 13-cis isomer (gold, blue and red), the all-trans
isomer (cyan) and the L intermediate (yellow).
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The above figures are
reprinted
by permission from Elsevier:
J Mol Biol
(2005,
352,
319-328)
copyright 2005.
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