PDB Chemical Component 47C

The following tables include covalent bond distance, bond angle and torsion angle values for the experimental model and ideal geometries stored in the definition for this chemical component.

Bond Distances for 47C

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.351 1.346
N1 C6 1.340 1.363
N1 C1' 1.453 1.464
C2 N3 1.337 1.331
C2 O2 1.248 1.220
N3 C4 1.334 1.327
C4 C5 1.372 1.410
C4 N4 1.316 1.376
C5 C6 1.365 1.355
N4 O 1.396 1.416
C1' C2' 1.522 1.541
C1' O4' 1.399 1.437
C2' C3' 1.499 1.549
CM2 O 1.445 1.429
CM2 CD 1.526 1.508
C3' C4' 1.521 1.550
C3' O3' 1.398 1.428
C4' O4' 1.448 1.444
C4' C5' 1.503 1.529
CD CE 1.327 1.310
C5' O5' 1.396 1.429
O5' P 1.575 1.610
P OP1 1.479 1.481
P OP2 1.481 1.610
P OP3 1.594 1.610
C6 H6 1.080 1.080
C1' H1' 1.100 1.090
C5 H5 1.080 1.080
N4 H4 1.000 0.969
C2' H2'1 1.100 1.089
C2' H2'2 1.100 1.090
C3' H3' 1.100 1.090
CM2 HM21 1.100 1.090
CM2 HM22 1.099 1.089
CD HD 1.080 1.080
C4' H4' 1.100 1.090
C5' H5'1 1.100 1.090
C5' H5'2 1.100 1.091
OP2 H2P 0.950 0.967
O3' H55 0.950 0.968
CE HE5 1.080 1.080
CE HE6 1.080 1.080
OP3 H3P 0.950 0.967

Bond Angles for 47C

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 120.8 120.3
C2 N1 C1' 123.3 119.8
N1 C2 N3 118.8 121.1
N1 C2 O2 121.8 119.5
C6 N1 C1' 115.9 119.8
N1 C6 C5 121.7 119.3
N1 C6 H6 119.1 120.3
N1 C1' C2' 110.0 109.9
N1 C1' O4' 113.2 109.9
N1 C1' H1' 104.7 109.9
N3 C2 O2 119.4 119.4
C2 N3 C4 120.6 120.7
N3 C4 C5 122.5 119.6
N3 C4 N4 117.9 120.2
C5 C4 N4 119.6 120.2
C4 C5 C6 115.6 119.0
C4 C5 H5 122.2 120.5
C4 N4 O 119.6 120.0
C4 N4 H4 120.2 120.0
C5 C6 H6 119.1 120.4
C6 C5 H5 122.2 120.5
N4 O CM2 103.5 114.0
O N4 H4 120.2 120.0
C2' C1' O4' 102.6 107.3
C1' C2' C3' 100.4 104.2
C2' C1' H1' 114.9 109.9
C1' C2' H2'1 112.6 110.5
C1' C2' H2'2 114.5 110.5
C1' O4' C4' 105.7 107.0
O4' C1' H1' 111.8 110.0
C2' C3' C4' 102.0 102.1
C2' C3' O3' 110.1 110.9
C3' C2' H2'1 112.6 110.5
C3' C2' H2'2 114.5 110.4
C2' C3' H3' 114.1 110.9
O CM2 CD 104.7 109.5
O CM2 HM21 111.1 109.5
O CM2 HM22 112.1 109.5
CM2 CD CE 120.4 120.0
CD CM2 HM21 111.1 109.5
CD CM2 HM22 112.1 109.5
CM2 CD HD 119.8 120.0
C4' C3' O3' 110.2 110.9
C3' C4' O4' 107.2 103.5
C3' C4' C5' 112.3 110.6
C4' C3' H3' 114.0 110.9
C3' C4' H4' 109.1 110.6
O3' C3' H3' 106.4 110.8
C3' O3' H55 109.5 114.1
O4' C4' C5' 109.4 110.6
O4' C4' H4' 112.0 110.6
C4' C5' O5' 107.9 109.5
C5' C4' H4' 106.8 110.7
C4' C5' H5'1 110.0 109.5
C4' C5' H5'2 110.3 109.5
CE CD HD 119.8 120.1
CD CE HE5 108.3 120.1
CD CE HE6 125.9 120.0
C5' O5' P 117.4 123.0
O5' C5' H5'1 110.0 109.5
O5' C5' H5'2 110.4 109.5
O5' P OP1 109.0 109.5
O5' P OP2 106.4 109.5
O5' P OP3 100.6 109.5
OP1 P OP2 122.4 109.5
OP1 P OP3 106.1 109.5
OP2 P OP3 110.3 109.5
P OP2 H2P 109.5 114.0
P OP3 H3P 109.5 114.0
H2'1 C2' H2'2 102.7 110.6
HM21 CM2 HM22 105.9 109.5
H5'1 C5' H5'2 108.2 109.4
HE5 CE HE6 125.8 120.0

Torsion Angles for 47C

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C2 C1' 177.4 180.3
C2 N1 C6 C5 1.0 360.0
C2 N1 C6 H6 181.0 180.0
C2 N1 C1' C2' 137.9 295.0
C2 N1 C1' O4' 252.1 52.8
C2 N1 C1' H1' 14.0 174.0
N3 C2 N1 O2 179.4 180.1
N1 C2 N3 C4 0.8 360.0
C2 N1 C6 C1' 182.4 179.7
C6 N1 C2 N3 358.8 0.0
C6 N1 C2 O2 179.4 180.0
C6 N1 C1' C2' 320.4 114.7
C6 N1 C1' O4' 74.6 232.5
C6 N1 C1' H1' 196.5 353.7
C4 C5 C6 N1 359.7 0.0
C5 C6 N1 H6 180.0 180.0
N1 C6 C5 H5 179.7 180.0
C2 N1 C1' C6 177.5 180.3
C1' N1 C2 N3 181.4 179.8
C1' N1 C2 O2 2.0 359.7
C1' N1 C6 C5 178.5 180.3
C1' N1 C6 H6 358.5 0.2
C2' C1' N1 O4' 245.9 242.2
N1 C1' C2' C3' 168.1 121.5
C2' C1' N1 H1' 123.9 121.0
N1 C1' C2' H2'1 288.1 240.1
N1 C1' C2' H2'2 45.0 2.8
N1 C1' O4' C4' 201.3 214.1
O4' C1' N1 H1' 238.0 238.8
N3 C2 N1 C6 358.8 0.0
N3 C2 N1 C1' 181.4 179.8
N1 C2 N3 O2 180.6 179.9
C2 N3 C4 C5 359.9 0.0
C2 N3 C4 N4 180.0 180.0
O2 C2 N1 C6 179.4 180.0
O2 C2 N1 C1' 2.0 359.7
N1 C2 O2 N3 179.4 180.1
O2 C2 N3 C4 180.2 180.0
C4 N3 C2 O2 180.2 180.0
C5 C4 N3 N4 179.9 180.0
N3 C4 C5 C6 359.9 360.0
N3 C4 C5 H5 179.9 180.0
N3 C4 N4 O 180.3 360.0
N3 C4 N4 H4 0.3 180.0
N1 C6 C5 C4 359.7 0.0
N3 C4 C5 N4 180.1 180.0
C5 C4 N4 O 0.4 179.9
C5 C4 N4 H4 180.4 360.0
C4 C5 C6 H6 179.7 180.0
C6 C5 C4 H5 180.0 179.9
N3 C4 N4 C5 179.9 180.0
N4 C4 C5 C6 179.8 180.0
N4 C4 C5 H5 359.8 0.1
C4 N4 O CM2 131.0 180.0
O N4 C4 H4 180.0 180.0
C5 C6 N1 C1' 178.5 180.3
N1 C6 C5 H6 180.0 180.0
C6 C5 C4 N4 179.8 180.0
C4 C5 C6 H5 180.0 180.1
C4 N4 O H4 180.0 180.0
N4 O CM2 CD 162.3 180.0
N4 O CM2 HM21 282.3 300.0
N4 O CM2 HM22 40.5 60.0
N1 C1' C2' O4' 120.7 119.4
N1 C1' C2' H1' 242.3 239.0
C2' C1' O4' C4' 319.7 333.5
O4' C1' C2' H1' 121.5 119.6
C1' C2' C3' C4' 325.2 20.9
C1' C2' C3' O3' 82.3 139.1
C3' C2' C1' H2'1 240.0 241.4
C3' C2' C1' H2'2 123.1 118.6
C1' C2' C3' H3' 201.8 262.7
H2'1 C2' C1' H2'2 243.1 237.2
N1 C1' O4' C2' 241.5 240.6
N1 C1' O4' H1' 117.9 121.1
O4' C1' C2' C3' 47.4 2.0
C2' C1' O4' H1' 236.4 240.5
O4' C1' C2' H2'1 167.4 120.7
O4' C1' C2' H2'2 284.3 243.4
C3' C4' O4' C1' 17.8 40.1
C1' O4' C4' C5' 139.8 158.6
C1' O4' C4' H4' 258.1 281.6
C3' C2' C1' O4' 47.4 2.0
C3' C2' C1' H1' 285.9 242.4
C1' C2' C3' H2'1 120.0 118.7
C1' C2' C3' H2'2 236.9 241.3
C4' C3' C2' O3' 243.0 241.8
C2' C3' C4' O4' 12.3 323.0
C2' C3' C4' C5' 252.1 204.5
C4' C3' C2' H3' 123.4 118.2
C2' C3' C4' H4' 133.8 81.5
O3' C3' C2' H3' 240.5 236.4
C2' C3' O3' H55 117.5 61.4
H2'1 C2' C3' H2'2 116.9 122.7
CM2 O N4 H4 311.0 360.0
O CM2 CD CE 126.8 135.0
CD CM2 O HM21 240.0 240.0
CD CM2 O HM22 121.8 120.0
O CM2 CD HD 306.8 315.0
HM21 CM2 O HM22 241.8 240.0
O CM2 CD HM21 120.0 120.0
O CM2 CD HM22 238.2 240.0
CE CD CM2 HD 180.0 180.0
CM2 CD CE HE5 180.0 360.0
CM2 CD CE HE6 0.0 180.0
HM21 CM2 CD HM22 118.2 120.0
C1' O4' C4' C3' 17.8 40.1
C2' C3' C4' O3' 117.0 118.2
C4' C3' C2' H2'1 205.3 262.2
C4' C3' C2' H2'2 88.4 139.6
C2' C3' C4' H3' 236.5 241.8
O3' C3' C4' H3' 119.6 123.6
C4' C3' O3' H55 229.3 174.2
O4' C4' C3' C5' 120.2 118.5
O4' C4' C3' H4' 238.5 241.5
C3' C4' C5' O5' 62.5 185.0
C5' C4' C3' H4' 118.3 123.0
C3' C4' C5' H5'1 182.5 305.0
C3' C4' C5' H5'2 301.8 65.0
C2' C3' O3' C4' 248.2 247.3
O3' C3' C2' H2'1 322.3 20.5
O3' C3' C2' H2'2 205.4 257.8
C2' C3' O3' H3' 124.1 123.6
O3' C3' C4' O4' 255.3 204.8
O3' C3' C4' C5' 135.1 86.3
C4' C3' O3' H3' 235.9 236.3
O3' C3' C4' H4' 16.8 323.3
C4' O4' C1' H1' 83.4 93.0
O4' C4' C3' O3' 255.3 204.8
C3' C4' O4' C5' 237.9 241.5
O4' C4' C3' H3' 135.7 81.2
C3' C4' O4' H4' 119.6 118.5
O4' C4' C5' O5' 303.5 70.9
C5' C4' O4' H4' 241.7 237.0
O4' C4' C5' H5'1 63.5 191.0
O4' C4' C5' H5'2 182.9 310.9
C5' C4' C3' O3' 135.1 86.3
C3' C4' C5' O4' 118.9 114.1
C5' C4' C3' H3' 15.5 322.6
C3' C4' C5' H4' 240.4 237.0
O4' C4' C5' H4' 121.5 123.0
C4' C5' O5' P 181.6 180.0
O5' C5' C4' H5'1 240.0 240.0
O5' C5' C4' H5'2 120.6 120.0
H5'1 C5' C4' H5'2 240.6 240.1
CE CD CM2 HM21 6.8 15.1
CE CD CM2 HM22 248.6 255.0
CM2 CD CE HD 180.0 180.0
HE5 CE CD HE6 180.0 180.0
O5' C5' C4' H4' 182.1 308.0
C4' C5' O5' H5'1 120.0 120.0
C4' C5' O5' H5'2 239.4 240.0
C5' O5' P OP1 35.2 305.0
C5' O5' P OP2 169.0 65.0
C5' O5' P OP3 284.0 185.0
H5'1 C5' O5' H5'2 119.4 119.9
P O5' C5' H5'1 61.6 60.0
P O5' C5' H5'2 302.2 300.0
OP1 P O5' OP2 226.2 240.0
OP1 P O5' OP3 111.2 120.0
OP2 P O5' OP3 245.0 240.0
O5' P OP2 H2P 17.2 60.0
O5' P OP3 H3P 23.7 179.9
O5' P OP1 OP2 124.9 120.0
O5' P OP1 OP3 252.5 240.0
OP2 P OP1 OP3 127.6 120.0
OP1 P OP2 H2P 143.3 180.0
OP1 P OP3 H3P 270.2 60.0
O5' P OP2 OP1 233.9 240.0
O5' P OP2 OP3 108.2 120.0
OP1 P OP2 OP3 234.2 240.0
OP2 P OP3 H3P 135.6 300.0
O5' P OP3 OP1 113.5 120.0
O5' P OP3 OP2 248.0 240.0
OP1 P OP3 OP2 134.5 120.0
OP3 P OP2 H2P 269.0 300.0
H6 C6 N1 C1' 358.5 0.2
N1 C6 H6 C5 180.0 180.0
H6 C6 C5 H5 359.7 360.0
N1 C1' H1' C2' 120.7 121.0
N1 C1' H1' O4' 237.1 238.9
C2' C1' H1' O4' 116.4 117.9
H1' C1' C2' C3' 285.9 242.4
H1' C1' C2' H2'1 45.9 1.1
H1' C1' C2' H2'2 162.7 123.8
H1' C1' O4' C4' 83.4 93.0
H5 C5 C4 N4 359.8 0.1
C4 C5 H5 C6 180.0 179.9
H5 C5 C6 H6 359.7 360.0
C4 N4 H4 O 180.0 180.0
H4 N4 O CM2 311.0 360.0
H2'1 C2' C1' O4' 167.4 120.7
C1' C2' H2'1 C3' 247.4 245.3
H2'1 C2' C1' H1' 45.9 1.1
C1' C2' H2'1 H2'2 123.7 122.7
H2'1 C2' C3' C4' 205.3 262.2
H2'1 C2' C3' O3' 322.3 20.5
C3' C2' H2'1 H2'2 236.3 237.4
H2'1 C2' C3' H3' 81.8 144.0
H2'2 C2' C1' O4' 284.3 243.4
C1' C2' H2'2 C3' 115.1 114.7
H2'2 C2' C1' H1' 162.7 123.8
C1' C2' H2'2 H2'1 237.6 237.3
H2'2 C2' C3' C4' 88.4 139.6
H2'2 C2' C3' O3' 205.4 257.8
C3' C2' H2'2 H2'1 122.4 122.6
H2'2 C2' C3' H3' 325.0 21.3
C2' C3' H3' C4' 116.6 112.7
C2' C3' H3' O3' 238.4 236.4
H3' C3' C2' H2'1 81.8 144.0
H3' C3' C2' H2'2 325.0 21.3
C4' C3' H3' O3' 121.7 123.7
H3' C3' C4' O4' 135.7 81.2
H3' C3' C4' C5' 15.5 322.6
H3' C3' C4' H4' 257.3 199.6
H3' C3' O3' H55 353.4 297.9
O CM2 HM21 CD 243.9 240.0
O CM2 HM21 HM22 121.9 120.0
HM21 CM2 CD CE 6.8 15.1
CD CM2 HM21 HM22 238.1 240.0
HM21 CM2 CD HD 186.8 195.0
O CM2 HM22 CD 117.5 120.0
O CM2 HM22 HM21 238.7 240.0
HM22 CM2 CD CE 248.6 255.0
CD CM2 HM22 HM21 121.3 120.0
HM22 CM2 CD HD 68.6 75.0
CM2 CD HD CE 180.0 180.0
HD CD CM2 HM21 186.8 195.0
HD CD CM2 HM22 68.6 75.0
HD CD CE HE5 0.1 180.0
HD CD CE HE6 180.0 0.0
H4' C4' C3' O3' 16.8 323.3
C3' C4' H4' O4' 241.5 246.0
C3' C4' H4' C5' 121.7 123.0
H4' C4' C3' H3' 257.3 199.6
O4' C4' H4' C5' 240.2 237.0
H4' C4' C5' O5' 182.1 308.0
H4' C4' C5' H5'1 302.1 68.0
H4' C4' C5' H5'2 61.4 187.9
C4' C5' H5'1 O5' 241.3 239.9
H5'1 C5' C4' H4' 302.1 68.0
C4' C5' H5'1 H5'2 120.6 120.0
H5'1 C5' O5' P 61.6 60.0
O5' C5' H5'1 H5'2 239.3 240.0
C4' C5' H5'2 O5' 119.1 120.1
H5'2 C5' C4' H4' 61.4 187.9
C4' C5' H5'2 H5'1 239.6 240.0
H5'2 C5' O5' P 302.2 300.0
O5' C5' H5'2 H5'1 120.4 120.0
H2P OP2 P OP3 269.0 300.0
H55 O3' C3' H3' 353.4 297.9
HE5 CE CD HD 0.1 180.0
CD CE HE5 HE6 180.0 180.0
HE6 CE CD HD 180.0 0.0
CD CE HE6 HE5 180.0 180.0