![\tdplotsetmaincoords{90}{0}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=69.7,declare function = {pdb=126D; sg=P212121;a=36.60; b=42.49; c=34.69; alpha=90; beta=90; gamma=90;vdw=2; lw=3;opc=0.9;}]\coordinate (AC5') at (16.765, -7.921, 1.559);\coordinate (AO5') at (17.615, -6.960, 0.791);\coordinate (AC4') at (15.520, -7.238, 1.900);\coordinate (AO4') at (15.350, -6.863, 3.246);\coordinate (AC3') at (15.269, -5.878, 1.164);\coordinate (AO3') at (13.871, -5.836, 0.849);\coordinate (AC2') at (15.805, -4.841, 2.170);\coordinate (AC1') at (15.278, -5.392, 3.510);\coordinate (AN1) at (16.315, -5.326, 4.542);\coordinate (AC2) at (15.817, -5.212, 5.871);\coordinate (AO2) at (14.640, -5.187, 6.054);\coordinate (AN3) at (16.688, -5.226, 6.895);\coordinate (AC4) at (18.061, -5.215, 6.683);\coordinate (AN4) at (18.906, -5.215, 7.708);\coordinate (AC5) at (18.554, -5.309, 5.322);\coordinate (AC6) at (17.666, -5.340, 4.348);\coordinate (AH01) at (16.561, -8.810, 0.964);\coordinate (AH02) at (17.281, -8.229, 2.469);\coordinate (AH03) at (17.745, -6.162, 1.310);\coordinate (AH04) at (14.838, -8.033, 1.599);\coordinate (AH05) at (15.763, -5.702, 0.209);\coordinate (AH06) at (15.487, -3.819, 1.960);\coordinate (AH07) at (16.894, -4.802, 2.158);\coordinate (AH08) at (14.349, -4.900, 3.799);\coordinate (AH09) at (19.902, -5.243, 7.542);\coordinate (AH10) at (18.553, -5.186, 8.654);\coordinate (AH11) at (19.623, -5.352, 5.112);\coordinate (AH12) at (18.034, -5.379, 3.323);\coordinate (BP) at (, 14.666, -2.964);\coordinate (BC5') at (12.227, -3.148, 16.723);\coordinate (BO5') at (13.510, -3.592, 17.209);\coordinate (BC4') at (11.738, -4.022, 15.489);\coordinate (BO4') at (12.660, -3.900, 14.395);\coordinate (BC3') at (11.488, -5.524, 15.694);\coordinate (BO3') at (10.073, -5.808, 15.317);\coordinate (BC2') at (12.529, -6.204, 14.918);\coordinate (BC1') at (12.920, -5.191, 13.824);\coordinate (BN1) at (15.626, -4.934, 9.622);\coordinate (BC2) at (14.296, -4.813, 9.875);\coordinate (BN2) at (13.421, -4.723, 8.839);\coordinate (BN3) at (13.710, -4.868, 11.024);\coordinate (BC4) at (14.619, -5.097, 11.968);\coordinate (BC5) at (15.928, -5.233, 11.847);\coordinate (BC6) at (16.531, -5.101, 10.544);\coordinate (BO6) at (17.806, -5.198, 10.230);\coordinate (BN7) at (16.489, -5.427, 13.106);\coordinate (BC8) at (15.490, -5.455, 13.886);\coordinate (BN9) at (14.245, -5.239, 13.319);\coordinate (BOP1) at (13.880, -2.208, 18.995);\coordinate (BOP2) at (15.796, -3.828, 18.091);\coordinate (BH01) at (12.307, -2.106, 16.412);\coordinate (BH02) at (10.753, -3.593, 15.304);\coordinate (BH03) at (11.573, -5.885, 16.719);\coordinate (BH04) at (9.735, -6.524, 15.860);\coordinate (BH05) at (12.183, -7.150, 14.502);\coordinate (BH06) at (13.386, -6.441, 15.548);\coordinate (BH07) at (12.333, -5.436, 12.940);\coordinate (BH08) at (15.931, -4.891, 8.661);\coordinate (BH09) at (12.429, -4.671, 9.020);\coordinate (BH10) at (13.763, -4.707, 7.889);\coordinate (BH11) at (15.606, -5.640, 14.954);\coordinate (BH13) at (11.500, -3.256, 17.529);\draw[line width = lw, green] (AN1) -- (AC2) -- (AN3) -- (AC4) -- (AC5) -- (AC6) -- (AN1);\draw[line width = lw, gray] (AC4) -- (AN4);\draw[line width = lw, gray] (AN1) -- (AC1');\draw[line width = lw, cyan] (AC2) to [bend left] (AO2);\draw[line width = lw, cyan] (AC2) to [bend right] (AO2);\foreach \labelx /\labely in {AH11/AC5, AH09/AN4, AH10/AN4, AH12/AC6} \draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \label in {AC2, AC4, AC5, AC6} \shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);\foreach \label in {AH09, AH10, AH11, AH12} \shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);\shade[ball color = blue, opacity=opc] (AN1) circle (vdw*1.55 mm);\shade[ball color = blue, opacity=opc] (AN3) circle (vdw*1.55 mm);\shade[ball color = blue, opacity=opc] (AN4) circle (vdw*1.55 mm);\shade[ball color = red, opacity=opc] (AO2) circle (vdw*1.52 mm);\end{tikzpicture}](https://gaia-sb.iwate-med.ac.jp/pharm/filter/tex/pix.php/2e94f4fdac92c862d65fd1bf0db61168.svg "\tdplotsetmaincoords{90}{0}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=69.7,declare function = {pdb=126D; sg=P212121;a=36.60; b=42.49; c=34.69; alpha=90; beta=90; gamma=90;vdw=2; lw=3;opc=0.9;}]\coordinate (AC5') at (16.765, -7.921, 1.559);\coordinate (AO5') at (17.615, -6.960, 0.791);\coordinate (AC4') at (15.520, -7.238, 1.900);\coordinate (AO4') at (15.350, -6.863, 3.246);\coordinate (AC3') at (15.269, -5.878, 1.164);\coordinate (AO3') at (13.871, -5.836, 0.849);\coordinate (AC2') at (15.805, -4.841, 2.170);\coordinate (AC1') at (15.278, -5.392, 3.510);\coordinate (AN1) at (16.315, -5.326, 4.542);\coordinate (AC2) at (15.817, -5.212, 5.871);\coordinate (AO2) at (14.640, -5.187, 6.054);\coordinate (AN3) at (16.688, -5.226, 6.895);\coordinate (AC4) at (18.061, -5.215, 6.683);\coordinate (AN4) at (18.906, -5.215, 7.708);\coordinate (AC5) at (18.554, -5.309, 5.322);\coordinate (AC6) at (17.666, -5.340, 4.348);\coordinate (AH01) at (16.561, -8.810, 0.964);\coordinate (AH02) at (17.281, -8.229, 2.469);\coordinate (AH03) at (17.745, -6.162, 1.310);\coordinate (AH04) at (14.838, -8.033, 1.599);\coordinate (AH05) at (15.763, -5.702, 0.209);\coordinate (AH06) at (15.487, -3.819, 1.960);\coordinate (AH07) at (16.894, -4.802, 2.158);\coordinate (AH08) at (14.349, -4.900, 3.799);\coordinate (AH09) at (19.902, -5.243, 7.542);\coordinate (AH10) at (18.553, -5.186, 8.654);\coordinate (AH11) at (19.623, -5.352, 5.112);\coordinate (AH12) at (18.034, -5.379, 3.323);\coordinate (BP) at (, 14.666, -2.964);\coordinate (BC5') at (12.227, -3.148, 16.723);\coordinate (BO5') at (13.510, -3.592, 17.209);\coordinate (BC4') at (11.738, -4.022, 15.489);\coordinate (BO4') at (12.660, -3.900, 14.395);\coordinate (BC3') at (11.488, -5.524, 15.694);\coordinate (BO3') at (10.073, -5.808, 15.317);\coordinate (BC2') at (12.529, -6.204, 14.918);\coordinate (BC1') at (12.920, -5.191, 13.824);\coordinate (BN1) at (15.626, -4.934, 9.622);\coordinate (BC2) at (14.296, -4.813, 9.875);\coordinate (BN2) at (13.421, -4.723, 8.839);\coordinate (BN3) at (13.710, -4.868, 11.024);\coordinate (BC4) at (14.619, -5.097, 11.968);\coordinate (BC5) at (15.928, -5.233, 11.847);\coordinate (BC6) at (16.531, -5.101, 10.544);\coordinate (BO6) at (17.806, -5.198, 10.230);\coordinate (BN7) at (16.489, -5.427, 13.106);\coordinate (BC8) at (15.490, -5.455, 13.886);\coordinate (BN9) at (14.245, -5.239, 13.319);\coordinate (BOP1) at (13.880, -2.208, 18.995);\coordinate (BOP2) at (15.796, -3.828, 18.091);\coordinate (BH01) at (12.307, -2.106, 16.412);\coordinate (BH02) at (10.753, -3.593, 15.304);\coordinate (BH03) at (11.573, -5.885, 16.719);\coordinate (BH04) at (9.735, -6.524, 15.860);\coordinate (BH05) at (12.183, -7.150, 14.502);\coordinate (BH06) at (13.386, -6.441, 15.548);\coordinate (BH07) at (12.333, -5.436, 12.940);\coordinate (BH08) at (15.931, -4.891, 8.661);\coordinate (BH09) at (12.429, -4.671, 9.020);\coordinate (BH10) at (13.763, -4.707, 7.889);\coordinate (BH11) at (15.606, -5.640, 14.954);\coordinate (BH13) at (11.500, -3.256, 17.529);\draw[line width = lw, green] (AN1) -- (AC2) -- (AN3) -- (AC4) -- (AC5) -- (AC6) -- (AN1);\draw[line width = lw, gray] (AC4) -- (AN4);\draw[line width = lw, gray] (AN1) -- (AC1');\draw[line width = lw, cyan] (AC2) to [bend left] (AO2);\draw[line width = lw, cyan] (AC2) to [bend right] (AO2);\foreach \labelx /\labely in {AH11/AC5, AH09/AN4, AH10/AN4, AH12/AC6} \draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \label in {AC2, AC4, AC5, AC6} \shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);\foreach \label in {AH09, AH10, AH11, AH12} \shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);\shade[ball color = blue, opacity=opc] (AN1) circle (vdw*1.55 mm);\shade[ball color = blue, opacity=opc] (AN3) circle (vdw*1.55 mm);\shade[ball color = blue, opacity=opc] (AN4) circle (vdw*1.55 mm);\shade[ball color = red, opacity=opc] (AO2) circle (vdw*1.52 mm);\end{tikzpicture}")
シトシン
% Cytosine
\tdplotsetmaincoords{90}{0}
\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=69.7,
declare function = {
pdb=126D; sg=P212121;
a=36.60; b=42.49; c=34.69; alpha=90; beta=90; gamma=90;
vdw=2; lw=3;
opc=0.9;
}]
\coordinate (AC5') at (16.765, -7.921, 1.559);
\coordinate (AO5') at (17.615, -6.960, 0.791);
\coordinate (AC4') at (15.520, -7.238, 1.900);
\coordinate (AO4') at (15.350, -6.863, 3.246);
\coordinate (AC3') at (15.269, -5.878, 1.164);
\coordinate (AO3') at (13.871, -5.836, 0.849);
\coordinate (AC2') at (15.805, -4.841, 2.170);
\coordinate (AC1') at (15.278, -5.392, 3.510);
\coordinate (AN1) at (16.315, -5.326, 4.542);
\coordinate (AC2) at (15.817, -5.212, 5.871);
\coordinate (AO2) at (14.640, -5.187, 6.054);
\coordinate (AN3) at (16.688, -5.226, 6.895);
\coordinate (AC4) at (18.061, -5.215, 6.683);
\coordinate (AN4) at (18.906, -5.215, 7.708);
\coordinate (AC5) at (18.554, -5.309, 5.322);
\coordinate (AC6) at (17.666, -5.340, 4.348);
\coordinate (AH01) at (16.561, -8.810, 0.964);
\coordinate (AH02) at (17.281, -8.229, 2.469);
\coordinate (AH03) at (17.745, -6.162, 1.310);
\coordinate (AH04) at (14.838, -8.033, 1.599);
\coordinate (AH05) at (15.763, -5.702, 0.209);
\coordinate (AH06) at (15.487, -3.819, 1.960);
\coordinate (AH07) at (16.894, -4.802, 2.158);
\coordinate (AH08) at (14.349, -4.900, 3.799);
\coordinate (AH09) at (19.902, -5.243, 7.542);
\coordinate (AH10) at (18.553, -5.186, 8.654);
\coordinate (AH11) at (19.623, -5.352, 5.112);
\coordinate (AH12) at (18.034, -5.379, 3.323);
\coordinate (BP) at (, 14.666, -2.964);
\coordinate (BC5') at (12.227, -3.148, 16.723);
\coordinate (BO5') at (13.510, -3.592, 17.209);
\coordinate (BC4') at (11.738, -4.022, 15.489);
\coordinate (BO4') at (12.660, -3.900, 14.395);
\coordinate (BC3') at (11.488, -5.524, 15.694);
\coordinate (BO3') at (10.073, -5.808, 15.317);
\coordinate (BC2') at (12.529, -6.204, 14.918);
\coordinate (BC1') at (12.920, -5.191, 13.824);
\coordinate (BN1) at (15.626, -4.934, 9.622);
\coordinate (BC2) at (14.296, -4.813, 9.875);
\coordinate (BN2) at (13.421, -4.723, 8.839);
\coordinate (BN3) at (13.710, -4.868, 11.024);
\coordinate (BC4) at (14.619, -5.097, 11.968);
\coordinate (BC5) at (15.928, -5.233, 11.847);
\coordinate (BC6) at (16.531, -5.101, 10.544);
\coordinate (BO6) at (17.806, -5.198, 10.230);
\coordinate (BN7) at (16.489, -5.427, 13.106);
\coordinate (BC8) at (15.490, -5.455, 13.886);
\coordinate (BN9) at (14.245, -5.239, 13.319);
\coordinate (BOP1) at (13.880, -2.208, 18.995);
\coordinate (BOP2) at (15.796, -3.828, 18.091);
\coordinate (BH01) at (12.307, -2.106, 16.412);
\coordinate (BH02) at (10.753, -3.593, 15.304);
\coordinate (BH03) at (11.573, -5.885, 16.719);
\coordinate (BH04) at (9.735, -6.524, 15.860);
\coordinate (BH05) at (12.183, -7.150, 14.502);
\coordinate (BH06) at (13.386, -6.441, 15.548);
\coordinate (BH07) at (12.333, -5.436, 12.940);
\coordinate (BH08) at (15.931, -4.891, 8.661);
\coordinate (BH09) at (12.429, -4.671, 9.020);
\coordinate (BH10) at (13.763, -4.707, 7.889);
\coordinate (BH11) at (15.606, -5.640, 14.954);
\coordinate (BH13) at (11.500, -3.256, 17.529);
\draw[line width = lw, green] (AN1) -- (AC2) -- (AN3) -- (AC4) -- (AC5) -- (AC6) -- (AN1);
\draw[line width = lw, gray] (AC4) -- (AN4);
\draw[line width = lw, gray] (AN1) -- (AC1');
\draw[line width = lw, cyan] (AC2) to [bend left] (AO2);
\draw[line width = lw, cyan] (AC2) to [bend right] (AO2);
\foreach \labelx /\labely in {AH11/AC5, AH09/AN4, AH10/AN4, AH12/AC6}
\draw[line width = lw, Pink1] (\labelx) -- (\labely);
%
\foreach \label in {AC2, AC4, AC5, AC6}
\shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);
\foreach \label in {AH09, AH10, AH11, AH12}
\shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);
\shade[ball color = blue, opacity=opc] (AN1) circle (vdw*1.55 mm);
\shade[ball color = blue, opacity=opc] (AN3) circle (vdw*1.55 mm);
\shade[ball color = blue, opacity=opc] (AN4) circle (vdw*1.55 mm);
\shade[ball color = red, opacity=opc] (AO2) circle (vdw*1.52 mm);
%
\end{tikzpicture}
![\tdplotsetmaincoords{80+180}{45}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=135,declare function = {opc=0.9;_cell.entry_id = Uridine_1109253;_cell.length_a = 4.981;_cell.length_b = 14.649;_cell.length_c = 13.964;_cell.angle_alpha = 90.00;_cell.angle_beta = 95.45;_cell.angle_gamma = 90.00;_symmetry.space_group_name_H-M = 'P 21';x0=3.211417; y0=1.855167; z0=4.480083;vdw=2; lw=3;Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm; Svdw=1.80 cm;}]\coordinate (C1) at (1.863-x0, 0.627-y0, 4.084-z0);\coordinate (N1) at (2.769-x0, 1.773-y0, 4.412-z0);\coordinate (O3) at (3.732-x0, 1.601-y0, 2.359-z0);\coordinate (C3) at (3.671-x0, 2.162-y0, 3.449-z0);\coordinate (N3) at (4.493-x0, 3.204-y0, 3.795-z0);\coordinate (O9) at (5.407-x0, 4.692-y0, 5.246-z0);\coordinate (C10) at (4.563-x0, 3.819-y0, 5.036-z0);\coordinate (C14) at (3.598-x0, 3.358-y0, 5.975-z0);\coordinate (C17) at (2.754-x0, 2.383-y0, 5.638-z0);\coordinate (H1) at (5.080-x0, 3.530-y0, 3.142-z0);\coordinate (H9) at (3.605-x0, 3.735-y0, 6.853-z0);\coordinate (H11) at (2.048-x0, 2.022-y0, 6.255-z0);\foreach \labelx /\labely in {N3/H1, C14/H9, C17/H11}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \labelx /\labely in {N1/C1}\draw[line width = lw, gray] (\labelx) -- (\labely);\foreach \labelx /\labely in {C3/O3, C10/O9} {\draw[line width = lw, cyan] (\labelx) to [bend left] (\labely);\draw[line width = lw, cyan] (\labelx) to [bend right] (\labely);}\draw[line width = lw, green] (N1) -- (C3) -- (N3) -- (C10) -- (C14) -- (C17) -- (N1);\foreach \label in {C3,C10,C14,C17}\shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);\foreach \label in {N1,N3}\shade[ball color = blue, opacity=opc] (\label) circle (vdw*1.55 mm);\foreach \label in {O3,O9}\shade[ball color = red, opacity=opc] (\label) circle (vdw*1.52 mm);\foreach \label in {H1, H9, H11}\shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);\end{tikzpicture}](https://gaia-sb.iwate-med.ac.jp/pharm/filter/tex/pix.php/44cbdc9e793ab45fd0c8da14ab20e88a.svg "\tdplotsetmaincoords{80+180}{45}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=135,declare function = {opc=0.9;_cell.entry_id = Uridine_1109253;_cell.length_a = 4.981;_cell.length_b = 14.649;_cell.length_c = 13.964;_cell.angle_alpha = 90.00;_cell.angle_beta = 95.45;_cell.angle_gamma = 90.00;_symmetry.space_group_name_H-M = 'P 21';x0=3.211417; y0=1.855167; z0=4.480083;vdw=2; lw=3;Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm; Svdw=1.80 cm;}]\coordinate (C1) at (1.863-x0, 0.627-y0, 4.084-z0);\coordinate (N1) at (2.769-x0, 1.773-y0, 4.412-z0);\coordinate (O3) at (3.732-x0, 1.601-y0, 2.359-z0);\coordinate (C3) at (3.671-x0, 2.162-y0, 3.449-z0);\coordinate (N3) at (4.493-x0, 3.204-y0, 3.795-z0);\coordinate (O9) at (5.407-x0, 4.692-y0, 5.246-z0);\coordinate (C10) at (4.563-x0, 3.819-y0, 5.036-z0);\coordinate (C14) at (3.598-x0, 3.358-y0, 5.975-z0);\coordinate (C17) at (2.754-x0, 2.383-y0, 5.638-z0);\coordinate (H1) at (5.080-x0, 3.530-y0, 3.142-z0);\coordinate (H9) at (3.605-x0, 3.735-y0, 6.853-z0);\coordinate (H11) at (2.048-x0, 2.022-y0, 6.255-z0);\foreach \labelx /\labely in {N3/H1, C14/H9, C17/H11}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \labelx /\labely in {N1/C1}\draw[line width = lw, gray] (\labelx) -- (\labely);\foreach \labelx /\labely in {C3/O3, C10/O9} {\draw[line width = lw, cyan] (\labelx) to [bend left] (\labely);\draw[line width = lw, cyan] (\labelx) to [bend right] (\labely);}\draw[line width = lw, green] (N1) -- (C3) -- (N3) -- (C10) -- (C14) -- (C17) -- (N1);\foreach \label in {C3,C10,C14,C17}\shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);\foreach \label in {N1,N3}\shade[ball color = blue, opacity=opc] (\label) circle (vdw*1.55 mm);\foreach \label in {O3,O9}\shade[ball color = red, opacity=opc] (\label) circle (vdw*1.52 mm);\foreach \label in {H1, H9, H11}\shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);\end{tikzpicture}")
ウラシル
\tdplotsetmaincoords{80+180}{45}
\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=135,
declare function = {
opc=0.9;
_cell.entry_id = Uridine_1109253;
_cell.length_a = 4.981;
_cell.length_b = 14.649;
_cell.length_c = 13.964;
_cell.angle_alpha = 90.00;
_cell.angle_beta = 95.45;
_cell.angle_gamma = 90.00;
_symmetry.space_group_name_H-M = 'P 21';
x0=3.211417; y0=1.855167; z0=4.480083;
vdw=2; lw=3;
Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm; Svdw=1.80 cm;
}]
%
\coordinate (C1) at (1.863-x0, 0.627-y0, 4.084-z0);
\coordinate (N1) at (2.769-x0, 1.773-y0, 4.412-z0);
\coordinate (O3) at (3.732-x0, 1.601-y0, 2.359-z0);
\coordinate (C3) at (3.671-x0, 2.162-y0, 3.449-z0);
\coordinate (N3) at (4.493-x0, 3.204-y0, 3.795-z0);
\coordinate (O9) at (5.407-x0, 4.692-y0, 5.246-z0);
\coordinate (C10) at (4.563-x0, 3.819-y0, 5.036-z0);
\coordinate (C14) at (3.598-x0, 3.358-y0, 5.975-z0);
\coordinate (C17) at (2.754-x0, 2.383-y0, 5.638-z0);
\coordinate (H1) at (5.080-x0, 3.530-y0, 3.142-z0);
\coordinate (H9) at (3.605-x0, 3.735-y0, 6.853-z0);
\coordinate (H11) at (2.048-x0, 2.022-y0, 6.255-z0);
%
\foreach \labelx /\labely in {
N3/H1, C14/H9, C17/H11}
\draw[line width = lw, Pink1] (\labelx) -- (\labely);
%
\foreach \labelx /\labely in {
N1/C1}
\draw[line width = lw, gray] (\labelx) -- (\labely);
%
\foreach \labelx /\labely in {
C3/O3, C10/O9} {
\draw[line width = lw, cyan] (\labelx) to [bend left] (\labely);
\draw[line width = lw, cyan] (\labelx) to [bend right] (\labely);
}
%
\draw[line width = lw, green] (N1) -- (C3) -- (N3) -- (C10) -- (C14) -- (C17) -- (N1);
%
\foreach \label in {C3,C10,C14,C17}
\shade[ball color = black, opacity=opc] (\label) circle (vdw*1.70 mm);
%
\foreach \label in {N1,N3}
\shade[ball color = blue, opacity=opc] (\label) circle (vdw*1.55 mm);
%
\foreach \label in {O3,O9}
\shade[ball color = red, opacity=opc] (\label) circle (vdw*1.52 mm);
%
\foreach \label in {H1, H9, H11}
\shade[ball color = white, opacity=opc] (\label) circle (vdw*1.20 mm);
%
\end{tikzpicture}
![\tdplotsetmaincoords{-55}{-15}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=180,declare function = {opc=0.9;_data = Isoleucine;_entry.id = 2003099;_cell.length_a = 26.987;_cell.length_b = 4.747;_cell.length_c = 9.965;_cell.angle_alpha = 90.00;_cell.angle_beta = 94.55;_cell.angle_gamma = 90.00;_symmetry.space_group_name_H-M = 'C 1 2 1';vdw=1/5; lw=3;x0=2.8906; y0=0.6322; z0=3.7497;Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm;}]\coordinate (C1) at (4.504-x0, 0.150-y0, 5.678-z0);\coordinate (N1) at (5.024-x0, 0.996-y0, 3.437-z0);\coordinate (O1) at (5.175-x0,-0.869-y0, 5.382-z0);\coordinate (C2) at (3.972-x0, 0.985-y0, 4.501-z0);\coordinate (O2) at (4.189-x0, 0.519-y0, 6.845-z0);\coordinate (C3) at (2.664-x0, 0.375-y0, 3.949-z0);\coordinate (C4) at (1.572-x0, 0.386-y0, 5.015-z0);\coordinate (C5) at (2.204-x0, 1.070-y0, 2.660-z0);\coordinate (C6) at (0.928-x0, 0.487-y0, 2.064-z0);\coordinate (H1) at (5.025-x0, 0.280-y0, 3.026-z0);\coordinate (H2) at (4.899-x0, 1.699-y0, 2.805-z0);\coordinate (H3) at (5.821-x0, 1.173-y0, 3.833-z0);\coordinate (H4) at (3.803-x0, 1.899-y0, 4.801-z0);\coordinate (H5) at (2.839-x0,-0.517-y0, 3.738-z0);\coordinate (H6) at (2.059-x0, 2.013-y0, 2.848-z0);\coordinate (H7) at (2.915-x0, 1.007-y0, 2.000-z0);\coordinate (H8) at (0.760-x0, 0.892-y0, 1.199-z0);\coordinate (H9) at (0.183-x0, 0.669-y0, 2.656-z0);\coordinate (H10) at (1.030-x0,-0.470-y0, 1.957-z0);\coordinate (H11) at (1.893-x0,-0.051-y0, 5.807-z0);\coordinate (H12) at (0.798-x0,-0.078-y0, 4.685-z0);\coordinate (H13) at (1.336-x0, 1.293-y0, 5.222-z0);\foreach \labelx /\labely in {N1/H1, N1/H2, N1/H3, C2/H4, C3/H5, C5/H6, C5/H7, C6/H8, C6/H9, C6/H10, C4/H11, C4/H12, C4/H13}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \label in {H1, H5, H10, H12}\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);\foreach \labelx /\labely in {N1/H3}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\draw[line width = lw, green] (O1) -- (C1) -- (O2);\draw[line width = lw, gray] (C1) -- (C2) -- (C3) -- (C5) -- (C6);\draw[line width = lw, gray] (N1) -- (C2);\draw[line width = lw, gray] (C3) -- (C4);\foreach \label in {C1, C2, C3, C4, C5, C6}\shade[ball color = black, opacity=opc] (\label) circle (vdw*Cvdw);\foreach \label in {N1}\shade[ball color = blue, opacity=opc] (\label) circle (vdw*Nvdw);\foreach \label in {O1, O2}\shade[ball color = red, opacity=opc] (\label) circle (vdw*Ovdw);\foreach \label in {H2, H3, H4, H6, H7, H8, H9, H11, H13}\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);\end{tikzpicture}](https://gaia-sb.iwate-med.ac.jp/pharm/filter/tex/pix.php/dc00bf8165578b614e3ca0e5e5b0db53.svg "\tdplotsetmaincoords{-55}{-15}\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=180,declare function = {opc=0.9;_data = Isoleucine;_entry.id = 2003099;_cell.length_a = 26.987;_cell.length_b = 4.747;_cell.length_c = 9.965;_cell.angle_alpha = 90.00;_cell.angle_beta = 94.55;_cell.angle_gamma = 90.00;_symmetry.space_group_name_H-M = 'C 1 2 1';vdw=1/5; lw=3;x0=2.8906; y0=0.6322; z0=3.7497;Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm;}]\coordinate (C1) at (4.504-x0, 0.150-y0, 5.678-z0);\coordinate (N1) at (5.024-x0, 0.996-y0, 3.437-z0);\coordinate (O1) at (5.175-x0,-0.869-y0, 5.382-z0);\coordinate (C2) at (3.972-x0, 0.985-y0, 4.501-z0);\coordinate (O2) at (4.189-x0, 0.519-y0, 6.845-z0);\coordinate (C3) at (2.664-x0, 0.375-y0, 3.949-z0);\coordinate (C4) at (1.572-x0, 0.386-y0, 5.015-z0);\coordinate (C5) at (2.204-x0, 1.070-y0, 2.660-z0);\coordinate (C6) at (0.928-x0, 0.487-y0, 2.064-z0);\coordinate (H1) at (5.025-x0, 0.280-y0, 3.026-z0);\coordinate (H2) at (4.899-x0, 1.699-y0, 2.805-z0);\coordinate (H3) at (5.821-x0, 1.173-y0, 3.833-z0);\coordinate (H4) at (3.803-x0, 1.899-y0, 4.801-z0);\coordinate (H5) at (2.839-x0,-0.517-y0, 3.738-z0);\coordinate (H6) at (2.059-x0, 2.013-y0, 2.848-z0);\coordinate (H7) at (2.915-x0, 1.007-y0, 2.000-z0);\coordinate (H8) at (0.760-x0, 0.892-y0, 1.199-z0);\coordinate (H9) at (0.183-x0, 0.669-y0, 2.656-z0);\coordinate (H10) at (1.030-x0,-0.470-y0, 1.957-z0);\coordinate (H11) at (1.893-x0,-0.051-y0, 5.807-z0);\coordinate (H12) at (0.798-x0,-0.078-y0, 4.685-z0);\coordinate (H13) at (1.336-x0, 1.293-y0, 5.222-z0);\foreach \labelx /\labely in {N1/H1, N1/H2, N1/H3, C2/H4, C3/H5, C5/H6, C5/H7, C6/H8, C6/H9, C6/H10, C4/H11, C4/H12, C4/H13}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\foreach \label in {H1, H5, H10, H12}\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);\foreach \labelx /\labely in {N1/H3}\draw[line width = lw, Pink1] (\labelx) -- (\labely);\draw[line width = lw, green] (O1) -- (C1) -- (O2);\draw[line width = lw, gray] (C1) -- (C2) -- (C3) -- (C5) -- (C6);\draw[line width = lw, gray] (N1) -- (C2);\draw[line width = lw, gray] (C3) -- (C4);\foreach \label in {C1, C2, C3, C4, C5, C6}\shade[ball color = black, opacity=opc] (\label) circle (vdw*Cvdw);\foreach \label in {N1}\shade[ball color = blue, opacity=opc] (\label) circle (vdw*Nvdw);\foreach \label in {O1, O2}\shade[ball color = red, opacity=opc] (\label) circle (vdw*Ovdw);\foreach \label in {H2, H3, H4, H6, H7, H8, H9, H11, H13}\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);\end{tikzpicture}")
L-イソロイシン
\tdplotsetmaincoords{-55}{-15}
\begin{tikzpicture}[scale=1,tdplot_main_coords,rotate=180,
declare function = {
opc=0.9;
_data = Isoleucine;
_entry.id = 2003099;
_cell.length_a = 26.987;
_cell.length_b = 4.747;
_cell.length_c = 9.965;
_cell.angle_alpha = 90.00;
_cell.angle_beta = 94.55;
_cell.angle_gamma = 90.00;
_symmetry.space_group_name_H-M = 'C 1 2 1';
vdw=1/5; lw=3;
x0=2.8906; y0=0.6322; z0=3.7497;
Cvdw=1.70 cm; Nvdw=1.55 cm; Ovdw=1.52 cm; Hvdw=1.20 cm; Bvdw=1.92 cm; Clvdw=1.75 cm; Fvdw=1.47 cm;
}]
\coordinate (C1) at (4.504-x0, 0.150-y0, 5.678-z0);
\coordinate (N1) at (5.024-x0, 0.996-y0, 3.437-z0);
\coordinate (O1) at (5.175-x0,-0.869-y0, 5.382-z0);
\coordinate (C2) at (3.972-x0, 0.985-y0, 4.501-z0);
\coordinate (O2) at (4.189-x0, 0.519-y0, 6.845-z0);
\coordinate (C3) at (2.664-x0, 0.375-y0, 3.949-z0);
\coordinate (C4) at (1.572-x0, 0.386-y0, 5.015-z0);
\coordinate (C5) at (2.204-x0, 1.070-y0, 2.660-z0);
\coordinate (C6) at (0.928-x0, 0.487-y0, 2.064-z0);
\coordinate (H1) at (5.025-x0, 0.280-y0, 3.026-z0);
\coordinate (H2) at (4.899-x0, 1.699-y0, 2.805-z0);
\coordinate (H3) at (5.821-x0, 1.173-y0, 3.833-z0);
\coordinate (H4) at (3.803-x0, 1.899-y0, 4.801-z0);
\coordinate (H5) at (2.839-x0,-0.517-y0, 3.738-z0);
\coordinate (H6) at (2.059-x0, 2.013-y0, 2.848-z0);
\coordinate (H7) at (2.915-x0, 1.007-y0, 2.000-z0);
\coordinate (H8) at (0.760-x0, 0.892-y0, 1.199-z0);
\coordinate (H9) at (0.183-x0, 0.669-y0, 2.656-z0);
\coordinate (H10) at (1.030-x0,-0.470-y0, 1.957-z0);
\coordinate (H11) at (1.893-x0,-0.051-y0, 5.807-z0);
\coordinate (H12) at (0.798-x0,-0.078-y0, 4.685-z0);
\coordinate (H13) at (1.336-x0, 1.293-y0, 5.222-z0);
\foreach \labelx /\labely in {N1/H1, N1/H2, N1/H3, C2/H4, C3/H5, C5/H6, C5/H7, C6/H8, C6/H9, C6/H10, C4/H11, C4/H12, C4/H13}
\draw[line width = lw, Pink1] (\labelx) -- (\labely);
\foreach \label in {H1, H5, H10, H12}
\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);
\foreach \labelx /\labely in {N1/H3}
\draw[line width = lw, Pink1] (\labelx) -- (\labely);
\draw[line width = lw, green] (O1) -- (C1) -- (O2);
\draw[line width = lw, gray] (C1) -- (C2) -- (C3) -- (C5) -- (C6);
\draw[line width = lw, gray] (N1) -- (C2);
\draw[line width = lw, gray] (C3) -- (C4);
\foreach \label in {C1, C2, C3, C4, C5, C6}
\shade[ball color = black, opacity=opc] (\label) circle (vdw*Cvdw);
\foreach \label in {N1}
\shade[ball color = blue, opacity=opc] (\label) circle (vdw*Nvdw);
\foreach \label in {O1, O2}
\shade[ball color = red, opacity=opc] (\label) circle (vdw*Ovdw);
\foreach \label in {H2, H3, H4, H6, H7, H8, H9, H11, H13}
\shade[ball color = white, opacity=opc] (\label) circle (vdw*Hvdw);
\end{tikzpicture}
グルタミン酸
\hexamethylene{1==O;2s==\adddash(-25,13)(0,1){132};2s==\adddash(-25,13)(-12,-7){132};6==CO$\bf_2$H}{2==O;5Su==NH$\bf_2$;5Sd==H}
\put(-250,220){$\bf\alpha$}\put(-420,310){$\bf\beta$}\put(-590,220){$\bf\gamma$}\put(-760,200){$\bf\delta$}\put(-770,520){\text{ε}}\put(-950,70){\text{ε}}
\put(-900,330){\text{⊖}}
システイン
\tetrahedral{0==C;1==COO$^-$;2==H$\bf_3$N$^+$;3==\tetrahedral{0==\lmoiety{H$\bf_2$C$\ $};1==(yl);4==SH};4==H}