PDB Chemical Component SRA

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 SRA

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.551 1.610
P S2P 2.120 1.862
P OP3 1.609 1.609
P O5' 1.611 1.610
OP1 HOP1 0.949 0.967
OP3 HOP3 0.951 0.967
O5' C5' 1.431 1.427
C5' C4' 1.528 1.530
C5' H5' 1.090 1.091
C5' H5'' 1.090 1.090
C4' O4' 1.432 1.443
C4' C3' 1.522 1.544
C4' H4' 1.088 1.090
O4' C1' 1.434 1.443
C3' O3' 1.434 1.428
C3' C2' 1.517 1.546
C3' H3' 1.094 1.090
O3' HO3' 0.950 0.967
C2' C1' 1.524 1.544
C2' O2' 1.432 1.429
C2' H2' 1.091 1.090
C1' N9 1.477 1.464
C1' H1' 1.090 1.091
N9 C8 1.356 1.363
N9 C4 1.376 1.372
C8 N7 1.292 1.302
C8 H8 1.090 1.080
N7 C5 1.398 1.354
C5 C6 1.398 1.406
C5 C4 1.375 1.405
C6 N6 1.332 1.384
C6 N1 1.345 1.328
N6 HN61 1.009 0.969
N6 HN62 1.010 0.970
N1 C2 1.333 1.320
C2 N3 1.329 1.316
C2 H2 1.090 1.080
N3 C4 1.348 1.328
O2' HO2' 0.960 0.967

Bond Angles for SRA

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P S2P 121.4 109.4
OP1 P OP3 107.7 109.5
OP1 P O5' 107.8 109.5
P OP1 HOP1 121.4 106.8
S2P P OP3 108.0 109.5
S2P P O5' 108.0 109.5
OP3 P O5' 102.2 109.5
P OP3 HOP3 107.7 106.8
P O5' C5' 120.6 106.8
O5' C5' C4' 111.7 109.5
O5' C5' H5' 109.1 109.4
O5' C5' H5'' 109.0 109.5
C4' C5' H5' 108.9 109.5
C4' C5' H5'' 109.0 109.5
C5' C4' O4' 111.6 110.4
C5' C4' C3' 111.4 110.5
C5' C4' H4' 109.6 110.3
H5' C5' H5'' 109.1 109.5
O4' C4' C3' 105.0 104.8
O4' C4' H4' 109.4 110.4
C4' O4' C1' 110.4 105.3
C3' C4' H4' 109.8 110.3
C4' C3' O3' 112.2 110.6
C4' C3' C2' 101.9 104.1
C4' C3' H3' 109.9 110.5
O4' C1' C2' 106.1 104.9
O4' C1' N9 111.3 110.4
O4' C1' H1' 109.5 110.4
O3' C3' C2' 111.6 110.5
O3' C3' H3' 111.0 110.4
C3' O3' HO3' 112.2 106.8
C2' C3' H3' 110.0 110.6
C3' C2' C1' 103.4 104.0
C3' C2' O2' 111.4 110.5
C3' C2' H2' 109.9 110.5
C1' C2' O2' 111.3 110.8
C1' C2' H2' 109.9 110.4
C2' C1' N9 110.9 110.4
C2' C1' H1' 109.4 110.3
O2' C2' H2' 110.8 110.5
C2' O2' HO2' 107.3 106.8
N9 C1' H1' 109.5 110.3
C1' N9 C8 129.8 126.2
C1' N9 C4 126.6 126.3
C8 N9 C4 103.6 107.5
N9 C8 N7 117.5 109.9
N9 C8 H8 121.3 125.0
N9 C4 C5 106.5 106.0
N9 C4 N3 126.4 134.9
N7 C8 H8 121.2 125.0
C8 N7 C5 101.6 109.5
N7 C5 C6 132.6 134.7
N7 C5 C4 110.8 107.2
C6 C5 C4 116.6 118.1
C5 C6 N6 123.2 120.7
C5 C6 N1 117.4 118.5
C5 C4 N3 127.1 119.1
N6 C6 N1 119.4 120.8
C6 N6 HN61 120.1 120.0
C6 N6 HN62 119.9 119.9
C6 N1 C2 120.4 121.2
HN61 N6 HN62 120.0 120.0
N1 C2 N3 127.2 122.5
N1 C2 H2 116.4 118.7
N3 C2 H2 116.4 118.8
C2 N3 C4 111.3 120.7

Torsion Angles for SRA

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
S2P P OP1 OP3 125.2 240.0
S2P P OP1 O5' 234.8 120.0
OP3 P OP1 O5' 109.6 240.0
OP1 P OP3 HOP3 180.0 60.0
OP1 P O5' C5' 43.8 180.0
OP1 P S2P OP3 234.9 120.0
OP1 P S2P O5' 125.1 240.0
S2P P OP1 HOP1 180.0 300.0
OP3 P S2P O5' 250.1 120.0
S2P P OP3 HOP3 47.2 180.0
S2P P O5' C5' 176.7 60.0
OP1 P OP3 S2P 132.8 240.0
OP1 P OP3 O5' 246.6 120.0
OP3 P OP1 HOP1 54.9 60.0
S2P P OP3 O5' 113.7 240.0
OP3 P O5' C5' 290.4 300.0
OP1 P O5' S2P 227.2 120.0
OP1 P O5' OP3 113.4 240.0
O5' P OP1 HOP1 305.2 180.0
S2P P O5' OP3 246.2 120.0
O5' P OP3 HOP3 293.4 300.0
P O5' C5' C4' 164.9 180.0
P O5' C5' H5' 44.5 60.1
P O5' C5' H5'' 285.4 300.1
HOP1 OP1 P S2P 180.0 300.0
HOP1 OP1 P OP3 54.9 60.0
HOP1 OP1 P O5' 305.2 180.0
HOP3 OP3 P O5' 293.4 300.0
C4' C5' O5' H5' 120.5 120.0
C4' C5' O5' H5'' 239.5 240.0
O5' C5' C4' O4' 305.8 61.5
O5' C5' C4' C3' 62.8 177.0
O5' C5' C4' H4' 184.4 299.2
H5' C5' O5' H5'' 119.0 120.0
O5' C5' C4' H5' 239.4 240.0
O5' C5' C4' H5'' 120.5 120.1
H5' C5' C4' H5'' 241.1 240.0
O4' C4' C5' C3' 243.0 244.5
O4' C4' C5' H4' 121.3 122.2
C5' C4' O4' C1' 141.8 159.5
C3' C4' C5' H4' 238.3 237.7
C5' C4' C3' O3' 85.3 98.3
C5' C4' C3' C2' 204.8 217.0
C5' C4' C3' H3' 321.4 335.7
O5' C5' H5' C4' 122.1 120.0
O5' C5' H5' H5'' 241.0 240.0
C4' C5' H5' H5'' 118.9 120.0
H5' C5' C4' O4' 66.3 181.4
H5' C5' C4' C3' 183.3 296.9
H5' C5' C4' H4' 305.0 59.2
O5' C5' H5'' C4' 237.9 239.9
O5' C5' H5'' H5' 119.0 120.0
C4' C5' H5'' H5' 241.2 240.0
H5'' C5' C4' O4' 185.2 301.4
H5'' C5' C4' C3' 302.2 56.9
H5'' C5' C4' H4' 63.9 179.2
O4' C4' C5' H5' 66.3 181.4
O4' C4' C5' H5'' 185.2 301.4
C5' C4' O4' C3' 120.8 119.0
C5' C4' O4' H4' 238.5 237.8
C3' C4' O4' H4' 117.8 118.8
O4' C4' C3' O3' 206.2 217.2
O4' C4' C3' C2' 325.7 335.9
O4' C4' C3' H3' 82.3 94.7
C4' O4' C1' C2' 1.2 319.6
C4' O4' C1' N9 240.4 200.6
C4' O4' C1' H1' 119.2 78.4
C3' C4' C5' H5' 183.3 296.9
C3' C4' C5' H5'' 302.2 56.9
C5' C4' C3' O4' 239.1 241.1
C5' C4' C3' H4' 121.6 122.3
O4' C4' C3' H4' 242.5 241.2
C3' C4' O4' C1' 21.1 40.5
O3' C3' C4' C2' 240.5 241.3
O3' C3' C4' H3' 123.9 122.6
C4' C3' O3' HO3' 180.0 180.0
C2' C3' C4' H3' 243.4 241.3
C4' C3' C2' C1' 34.3 0.1
C4' C3' C2' O2' 274.7 241.2
C4' C3' C2' H2' 151.6 118.6
H4' C4' C5' H5' 305.0 59.2
H4' C4' C5' H5'' 63.9 179.2
C5' C4' H4' O4' 122.6 122.2
C5' C4' H4' C3' 237.4 237.6
O4' C4' H4' C3' 114.7 115.4
H4' C4' O4' C1' 263.3 281.7
H4' C4' C3' O3' 323.7 336.1
H4' C4' C3' C2' 83.2 94.8
H4' C4' C3' H3' 199.8 213.5
C1' O4' C4' C3' 21.1 40.5
C1' O4' C4' H4' 263.3 281.7
C3' C2' C1' O4' 337.2 23.8
O4' C1' C2' O2' 96.9 142.6
O4' C1' C2' H2' 219.9 265.3
C2' C1' O4' N9 120.7 118.9
C2' C1' O4' H1' 242.0 241.1
N9 C1' O4' H1' 121.3 122.2
O4' C1' N9 C8 21.2 27.0
O4' C1' N9 C4 200.9 207.1
O3' C3' C4' H4' 323.7 336.1
C4' C3' O3' C2' 113.6 114.7
C4' C3' O3' H3' 236.7 237.4
C2' C3' O3' H3' 123.0 122.7
O3' C3' C2' C1' 154.2 118.9
O3' C3' C2' O2' 34.6 359.9
O3' C3' C2' H2' 271.5 237.3
C2' C3' C4' H4' 83.2 94.8
C4' C3' C2' O3' 240.1 241.3
C4' C3' C2' H3' 116.5 118.7
O4' C1' C2' C3' 337.2 23.8
O3' C3' C2' H3' 236.4 237.4
C2' C3' O3' HO3' 66.4 65.3
C1' C2' C3' O2' 119.6 118.9
C1' C2' C3' H2' 242.8 241.5
C3' C2' C1' N9 98.2 142.8
C3' C2' C1' H1' 219.1 265.0
O2' C2' C3' H2' 123.1 122.6
C3' C2' O2' HO2' 155.9 298.5
H3' C3' C4' H4' 199.8 213.5
C4' C3' H3' O3' 124.6 122.7
C4' C3' H3' C2' 248.6 245.3
O3' C3' H3' C2' 124.0 122.6
H3' C3' O3' HO3' 303.3 302.7
H3' C3' C2' C1' 277.8 241.5
H3' C3' C2' O2' 158.2 122.5
H3' C3' C2' H2' 35.1 359.9
HO3' O3' C3' C2' 66.4 65.3
HO3' O3' C3' H3' 303.3 302.7
O4' C1' C2' N9 239.0 241.0
O4' C1' C2' H1' 118.1 118.9
C1' C2' C3' H3' 277.8 241.5
C3' C2' C1' O2' 240.3 241.3
C3' C2' C1' H2' 117.2 118.5
O2' C2' C1' H2' 236.9 237.2
C1' C2' O2' HO2' 41.0 183.8
N9 C1' C2' H1' 239.1 237.8
C2' C1' N9 C8 263.3 271.4
C2' C1' N9 C4 83.0 91.5
O2' C2' C3' H3' 158.2 122.5
C3' C2' O2' C1' 114.8 114.7
C3' C2' O2' H2' 237.4 237.4
C1' C2' O2' H2' 122.6 122.8
O2' C2' C1' N9 217.9 261.5
O2' C2' C1' H1' 338.8 23.7
H2' C2' C3' H3' 35.1 359.9
C3' C2' H2' C1' 246.9 245.6
C3' C2' H2' O2' 123.5 122.6
C1' C2' H2' O2' 236.6 237.0
H2' C2' C1' N9 341.0 24.3
H2' C2' C1' H1' 101.9 146.5
H2' C2' O2' HO2' 278.5 61.1
O4' C1' N9 C2' 117.9 115.6
O4' C1' N9 H1' 238.8 237.8
N9 C1' C2' O2' 217.9 261.5
N9 C1' C2' H2' 341.0 24.3
C2' C1' N9 H1' 120.9 122.2
C8 N9 C1' C4 180.2 179.9
C1' N9 C8 N7 179.9 180.0
C1' N9 C8 H8 0.2 0.1
C1' N9 C4 C5 180.1 180.2
C1' N9 C4 N3 0.1 0.1
O4' C1' H1' C2' 244.1 244.5
O4' C1' H1' N9 122.3 122.3
H1' C1' C2' O2' 338.8 23.7
H1' C1' C2' H2' 101.9 146.5
C2' C1' H1' N9 238.3 237.8
H1' C1' N9 C8 142.4 149.2
H1' C1' N9 C4 322.2 329.3
C8 N9 C1' H1' 142.4 149.2
C1' N9 C8 C4 179.8 180.1
C8 N9 C4 C5 360.0 0.2
C8 N9 C4 N3 179.9 180.1
N7 C8 N9 H8 179.7 180.0
N9 C8 N7 C5 360.0 359.8
C4 N9 C1' H1' 322.2 329.3
C1' N9 C4 C8 180.2 179.9
C4 N9 C8 N7 0.0 360.0
C4 N9 C8 H8 180.4 180.0
N7 C5 C4 N9 0.0 359.7
C6 C5 C4 N9 180.1 180.4
C5 C4 N9 N3 180.0 180.1
C2 N3 C4 N9 180.0 180.0
N7 C8 N9 C4 0.0 360.0
N9 C8 N7 H8 180.3 180.0
C8 N7 C5 C6 179.9 179.5
C8 N7 C5 C4 360.0 0.3
H8 C8 N9 C4 180.4 180.0
N9 C8 H8 N7 179.7 180.0
H8 C8 N7 C5 179.6 179.8
N9 C4 C5 N7 0.0 359.7
C5 N7 C8 H8 179.6 179.8
C6 C5 N7 C4 179.9 179.1
N7 C5 C6 N6 359.8 0.7
N7 C5 C6 N1 179.9 180.4
N7 C5 C4 N3 180.1 179.7
N9 C4 C5 C6 180.1 180.4
N7 C5 C6 C4 180.1 180.9
C6 C5 C4 N3 0.1 0.4
N6 C6 C5 N1 179.9 180.3
C5 C6 N6 HN61 179.9 179.7
C5 C6 N6 HN62 359.9 359.5
C5 C6 N1 C2 0.1 0.3
N9 C4 C5 N3 180.0 179.9
N7 C5 C4 C6 180.0 179.3
C4 C5 C6 N6 179.8 179.8
C4 C5 C6 N1 359.9 359.5
C2 N3 C4 C5 359.9 359.9
N6 C6 C5 C4 179.8 179.8
C5 C6 N6 N1 180.1 179.7
N6 C6 N1 C2 180.2 180.0
HN61 N6 C6 HN62 180.0 180.2
N1 C6 C5 C4 359.9 359.5
C5 C6 N1 N6 179.9 180.3
N1 C6 N6 HN61 359.8 0.0
N1 C6 N6 HN62 179.8 179.8
C6 N1 C2 N3 359.9 0.0
C6 N1 C2 H2 180.1 179.9
HN61 N6 C6 N1 359.8 0.0
C6 N6 HN61 HN62 180.0 179.8
HN62 N6 C6 N1 179.8 179.8
C6 N6 HN62 HN61 180.0 180.2
N3 C2 N1 H2 179.8 180.1
N1 C2 N3 C4 0.0 359.9
N9 C4 N3 C2 180.0 180.0
C5 C4 N3 C2 359.9 359.9
N1 C2 N3 H2 180.2 179.9
N1 C2 H2 N3 179.8 180.1
H2 C2 N3 C4 179.8 180.0
N9 C4 N3 C5 180.0 180.1
C4 N3 C2 H2 179.8 180.0
HO2' O2' C2' H2' 278.5 61.1