PDB Chemical Component THP

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 THP

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P2 O4P 1.479 1.480
P2 O5P 1.479 1.610
P2 O6P 1.592 1.610
P2 O5' 1.578 1.609
O5P HOP5 0.950 0.966
O6P HOP6 0.950 0.966
P1 O1P 1.466 1.480
P1 O2P 1.475 1.610
P1 O3P 1.603 1.610
P1 O3' 1.612 1.610
O2P HOP2 0.951 0.966
O3P HOP3 0.951 0.967
O5' C5' 1.401 1.429
C5' C4' 1.506 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.116 1.089
C4' O4' 1.437 1.445
C4' C3' 1.504 1.550
C4' H4' 1.115 1.090
O4' C1' 1.433 1.436
C3' O3' 1.426 1.429
C3' C2' 1.500 1.548
C3' H3' 1.116 1.089
C2' C1' 1.520 1.541
C2' H2'1 1.116 1.090
C2' H2'2 1.115 1.089
C1' N1 1.472 1.464
C1' H1' 1.114 1.090
N1 C2 1.383 1.345
N1 C6 1.387 1.369
C2 O2 1.220 1.215
C2 N3 1.363 1.346
N3 C4 1.371 1.349
N3 H3 1.019 0.971
C4 O4 1.224 1.218
C4 C5 1.453 1.414
C5 C5M 1.543 1.507
C5 C6 1.356 1.350
C5M H51 1.115 1.091
C5M H52 1.116 1.090
C5M H53 1.115 1.090
C6 H6 1.104 1.079

Bond Angles for THP

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O4P P2 O5P 120.9 109.4
O4P P2 O6P 108.0 109.5
O4P P2 O5' 107.7 109.4
O5P P2 O6P 108.9 109.5
O5P P2 O5' 107.7 109.5
P2 O5P HOP5 120.9 106.9
O6P P2 O5' 102.0 109.5
P2 O6P HOP6 108.0 106.8
P2 O5' C5' 120.6 106.9
O1P P1 O2P 128.1 109.5
O1P P1 O3P 105.4 109.5
O1P P1 O3' 101.9 109.4
O2P P1 O3P 105.2 109.5
O2P P1 O3' 107.0 109.5
P1 O2P HOP2 128.0 106.8
O3P P1 O3' 108.2 109.4
P1 O3P HOP3 105.5 106.8
P1 O3' C3' 121.7 106.8
O5' C5' C4' 107.3 109.5
O5' C5' H5'1 113.0 109.4
O5' C5' H5'2 113.0 109.4
C4' C5' H5'1 113.1 109.5
C4' C5' H5'2 113.0 109.5
C5' C4' O4' 110.3 110.8
C5' C4' C3' 109.5 110.6
C5' C4' H4' 107.8 110.6
H5'1 C5' H5'2 97.4 109.5
O4' C4' C3' 106.1 103.6
O4' C4' H4' 111.2 110.5
C4' O4' C1' 108.9 106.9
C3' C4' H4' 111.9 110.6
C4' C3' O3' 109.8 110.9
C4' C3' C2' 104.8 102.1
C4' C3' H3' 112.5 110.9
O4' C1' C2' 107.7 107.4
O4' C1' N1 113.6 109.9
O4' C1' H1' 106.9 109.9
O3' C3' C2' 110.1 110.9
O3' C3' H3' 107.4 110.9
C2' C3' H3' 112.2 110.9
C3' C2' C1' 101.1 104.2
C3' C2' H2'1 115.4 110.5
C3' C2' H2'2 115.4 110.5
C1' C2' H2'1 115.4 110.5
C1' C2' H2'2 115.4 110.5
C2' C1' N1 106.1 109.8
C2' C1' H1' 114.3 109.9
H2'1 C2' H2'2 95.0 110.5
N1 C1' H1' 108.5 109.9
C1' N1 C2 116.4 119.7
C1' N1 C6 122.5 119.7
C2 N1 C6 121.0 120.6
N1 C2 O2 123.6 119.5
N1 C2 N3 117.0 120.9
N1 C6 C5 121.1 119.7
N1 C6 H6 120.6 120.1
O2 C2 N3 119.4 119.6
C2 N3 C4 125.6 120.3
C2 N3 H3 116.9 119.8
C4 N3 H3 117.5 119.9
N3 C4 O4 118.0 120.3
N3 C4 C5 115.6 119.4
O4 C4 C5 126.3 120.3
C4 C5 C5M 119.6 120.5
C4 C5 C6 119.7 119.1
C5M C5 C6 120.7 120.4
C5 C5M H51 119.6 109.4
C5 C5M H52 108.6 109.5
C5 C5M H53 108.6 109.5
C5 C6 H6 118.3 120.2
H51 C5M H52 108.5 109.4
H51 C5M H53 108.6 109.5
H52 C5M H53 101.4 109.5

Torsion Angles for THP

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O5P P2 O4P O6P 126.3 120.0
O5P P2 O4P O5' 235.8 240.0
O4P P2 O5P HOP5 180.1 299.9
O6P P2 O4P O5' 109.5 120.0
O4P P2 O6P HOP6 180.0 180.0
O4P P2 O5' C5' 54.1 60.0
O4P P2 O5P O6P 234.1 240.1
O4P P2 O5P O5' 124.2 120.0
O6P P2 O5P O5' 250.1 239.9
O5P P2 O6P HOP6 46.9 60.1
O5P P2 O5' C5' 186.0 180.0
O4P P2 O6P O5P 133.0 119.9
O4P P2 O6P O5' 246.7 240.0
O5P P2 O6P O5' 113.7 120.1
O6P P2 O5P HOP5 305.9 59.9
O6P P2 O5' C5' 300.6 300.0
O4P P2 O5' O5P 228.1 240.1
O4P P2 O5' O6P 113.5 120.0
O5P P2 O5' O6P 245.4 239.9
O5' P2 O5P HOP5 55.8 180.0
O5' P2 O6P HOP6 293.2 300.0
P2 O5' C5' C4' 142.6 180.0
P2 O5' C5' H5'1 267.9 59.9
P2 O5' C5' H5'2 17.3 300.0
HOP5 O5P P2 O6P 305.9 59.9
HOP5 O5P P2 O5' 55.8 180.0
HOP6 O6P P2 O5' 293.2 300.0
O2P P1 O1P O3P 235.8 120.0
O2P P1 O1P O3' 122.9 240.0
O1P P1 O2P HOP2 180.0 300.0
O3P P1 O1P O3' 247.1 120.0
O1P P1 O3P HOP3 180.0 180.0
O1P P1 O3' C3' 215.0 60.0
O1P P1 O2P O3P 124.3 240.0
O1P P1 O2P O3' 239.2 120.0
O3P P1 O2P O3' 114.9 240.0
O2P P1 O3P HOP3 317.6 60.0
O2P P1 O3' C3' 78.7 180.0
O1P P1 O3P O2P 222.4 120.0
O1P P1 O3P O3' 108.4 240.0
O2P P1 O3P O3' 245.9 120.0
O3P P1 O2P HOP2 55.7 60.0
O3P P1 O3' C3' 325.8 300.0
O1P P1 O3' O2P 136.3 240.0
O1P P1 O3' O3P 249.2 120.0
O2P P1 O3' O3P 112.9 240.0
O3' P1 O2P HOP2 300.8 180.0
O3' P1 O3P HOP3 71.6 300.0
C4' C3' O3' P1 278.0 234.1
P1 O3' C3' C2' 163.2 121.5
P1 O3' C3' H3' 40.7 357.9
HOP2 O2P P1 O3P 55.7 60.0
HOP2 O2P P1 O3' 300.8 180.0
HOP3 O3P P1 O3' 71.6 300.0
C4' C5' O5' H5'1 234.7 120.1
C4' C5' O5' H5'2 125.3 240.0
O5' C5' C4' O4' 55.0 65.7
O5' C5' C4' C3' 171.4 180.0
O5' C5' C4' H4' 293.4 302.8
H5'1 C5' O5' H5'2 250.6 120.0
O5' C5' C4' H5'1 125.3 240.0
O5' C5' C4' H5'2 234.7 120.0
H5'1 C5' C4' H5'2 109.4 240.0
O4' C4' C5' C3' 243.6 245.7
O4' C4' C5' H4' 121.6 122.9
C5' C4' O4' C1' 108.9 158.5
C3' C4' C5' H4' 238.0 237.2
C5' C4' C3' O3' 150.5 86.1
C5' C4' C3' C2' 268.7 204.3
C5' C4' C3' H3' 30.9 322.4
O5' C5' H5'1 C4' 237.9 120.0
O5' C5' H5'1 H5'2 118.9 240.1
C4' C5' H5'1 H5'2 241.1 120.0
H5'1 C5' C4' O4' 289.7 185.7
H5'1 C5' C4' C3' 46.1 300.0
H5'1 C5' C4' H4' 168.1 62.8
O5' C5' H5'2 C4' 122.1 240.0
O5' C5' H5'2 H5'1 241.1 119.9
C4' C5' H5'2 H5'1 119.0 239.9
H5'2 C5' C4' O4' 180.3 305.7
H5'2 C5' C4' C3' 296.7 60.0
H5'2 C5' C4' H4' 58.7 182.9
O4' C4' C5' H5'1 289.7 185.7
O4' C4' C5' H5'2 180.3 305.7
C5' C4' O4' C3' 118.5 118.6
C5' C4' O4' H4' 240.4 237.1
C3' C4' O4' H4' 121.9 118.5
O4' C4' C3' O3' 269.5 204.8
O4' C4' C3' C2' 27.7 323.1
O4' C4' C3' H3' 149.9 81.2
C4' O4' C1' C2' 348.0 333.7
C4' O4' C1' N1 230.8 214.2
C4' O4' C1' H1' 111.2 93.2
P1 O3' C3' C4' 278.0 234.1
C3' C4' C5' H5'1 46.1 300.0
C3' C4' C5' H5'2 296.7 60.0
C5' C4' C3' O4' 241.0 241.3
C5' C4' C3' H4' 119.5 122.8
O4' C4' C3' H4' 238.6 241.6
C3' C4' O4' C1' 350.3 39.9
O3' C3' C4' C2' 241.8 241.8
O3' C3' C4' H3' 119.6 123.7
C2' C3' C4' H3' 237.8 241.9
C4' C3' C2' C1' 326.6 20.9
C4' C3' C2' H2'1 91.9 262.2
C4' C3' C2' H2'2 201.3 139.6
H4' C4' C5' H5'1 168.1 62.8
H4' C4' C5' H5'2 58.7 182.9
C5' C4' H4' O4' 121.0 123.0
C5' C4' H4' C3' 239.5 237.2
O4' C4' H4' C3' 118.4 114.2
H4' C4' O4' C1' 228.5 281.4
H4' C4' C3' O3' 30.9 323.3
H4' C4' C3' C2' 149.2 81.5
H4' C4' C3' H3' 271.4 199.6
C1' O4' C4' C3' 350.3 39.9
C1' O4' C4' H4' 228.5 281.4
C3' C2' C1' O4' 28.3 1.9
O4' C1' C2' H2'1 263.1 120.6
O4' C1' C2' H2'2 153.6 243.3
C2' C1' O4' N1 117.2 119.5
C2' C1' O4' H1' 236.8 240.5
N1 C1' O4' H1' 119.6 121.0
O4' C1' N1 C2 214.1 58.3
O4' C1' N1 C6 38.4 238.3
O3' C3' C4' H4' 30.9 323.3
C4' C3' O3' C2' 114.9 112.7
C4' C3' O3' H3' 237.3 236.3
C2' C3' O3' H3' 122.5 123.6
O3' C3' C2' C1' 84.6 139.1
O3' C3' C2' H2'1 209.9 20.4
O3' C3' C2' H2'2 319.3 257.8
C2' C3' C4' H4' 149.2 81.5
C4' C3' C2' O3' 242.0 241.8
C4' C3' C2' H3' 122.4 118.2
O4' C1' C2' C3' 28.3 1.9
O3' C3' C2' H3' 240.4 236.4
C1' C2' C3' H2'1 234.7 118.7
C1' C2' C3' H2'2 125.3 241.3
C3' C2' C1' N1 150.3 121.5
C3' C2' C1' H1' 269.7 242.4
H2'1 C2' C3' H2'2 250.6 122.6
H3' C3' C4' H4' 271.4 199.6
C4' C3' H3' O3' 120.9 123.7
C4' C3' H3' C2' 242.1 247.4
O3' C3' H3' C2' 121.2 123.6
H3' C3' C2' C1' 204.2 262.7
H3' C3' C2' H2'1 329.5 144.1
H3' C3' C2' H2'2 78.9 21.4
O4' C1' C2' N1 238.0 240.4
O4' C1' C2' H1' 118.6 119.5
C1' C2' C3' H3' 204.2 262.7
C3' C2' C1' H2'1 125.3 241.4
C3' C2' C1' H2'2 234.8 118.7
H2'1 C2' C1' H2'2 109.5 237.3
N1 C1' C2' H1' 240.5 239.1
C2' C1' N1 C2 96.0 300.3
C2' C1' N1 C6 280.3 120.3
H2'1 C2' C3' H3' 329.5 144.1
C3' C2' H2'1 C1' 242.5 114.7
C3' C2' H2'1 H2'2 121.2 237.4
C1' C2' H2'1 H2'2 238.7 122.7
H2'1 C2' C1' N1 25.0 240.1
H2'1 C2' C1' H1' 144.5 1.1
H2'2 C2' C3' H3' 78.9 21.4
C3' C2' H2'2 C1' 117.5 245.2
C3' C2' H2'2 H2'1 238.8 122.6
C1' C2' H2'2 H2'1 121.3 237.4
H2'2 C2' C1' N1 275.5 2.8
H2'2 C2' C1' H1' 35.0 123.8
O4' C1' N1 C2' 118.1 118.0
O4' C1' N1 H1' 241.3 238.9
N1 C1' C2' H2'1 25.0 240.1
N1 C1' C2' H2'2 275.5 2.8
C2' C1' N1 H1' 123.2 120.9
C2 N1 C1' C6 175.7 180.0
C1' N1 C2 O2 5.9 0.0
C1' N1 C2 N3 185.2 180.0
C1' N1 C6 C5 174.8 180.0
C1' N1 C6 H6 354.9 360.0
O4' C1' H1' C2' 241.0 242.0
O4' C1' H1' N1 122.9 121.1
H1' C1' C2' H2'1 144.5 1.1
H1' C1' C2' H2'2 35.0 123.8
C2' C1' H1' N1 241.9 239.1
H1' C1' N1 C2 332.8 179.3
H1' C1' N1 C6 157.1 359.4
C2 N1 C1' H1' 332.8 179.3
C1' N1 C2 C6 184.2 180.0
C2 N1 C6 C5 359.3 360.0
C2 N1 C6 H6 179.4 180.0
O2 C2 N1 N3 180.6 180.0
N1 C2 N3 C4 359.6 359.7
N1 C2 N3 H3 179.6 180.0
C6 N1 C1' H1' 157.1 359.4
C1' N1 C6 C2 175.5 180.0
C6 N1 C2 O2 181.6 180.0
C6 N1 C2 N3 1.0 0.0
C4 C5 C6 N1 359.7 0.2
C5M C5 C6 N1 177.0 180.0
C5 C6 N1 H6 179.9 180.0
O2 C2 N1 C6 181.6 180.0
N1 C2 O2 N3 179.4 180.0
O2 C2 N3 C4 179.0 179.8
O2 C2 N3 H3 359.0 0.1
N3 C2 N1 C6 1.0 0.0
N1 C2 N3 O2 180.6 180.0
C4 N3 C2 H3 180.1 179.7
C2 N3 C4 O4 176.9 180.0
C2 N3 C4 C5 359.4 0.5
C2 N3 C4 H3 179.9 180.3
O4 C4 N3 C5 177.5 179.5
N3 C4 C5 C5M 183.5 179.8
N3 C4 C5 C6 0.9 359.5
C2 N3 H3 C4 180.0 179.7
H3 N3 C4 O4 357.0 359.7
H3 N3 C4 C5 179.5 180.2
O4 C4 N3 H3 357.0 359.7
N3 C4 O4 C5 182.8 180.5
O4 C4 C5 C5M 6.3 0.3
O4 C4 C5 C6 183.7 180.0
N1 C6 C5 C4 359.7 0.2
C5 C4 N3 H3 179.5 180.2
N3 C4 C5 O4 177.2 179.5
C5M C5 C4 C6 182.6 180.3
C4 C5 C5M H51 180.1 359.7
C4 C5 C5M H52 305.2 119.7
C4 C5 C5M H53 54.7 239.7
C4 C5 C6 H6 179.6 180.2
N1 C6 C5 C5M 177.0 180.0
C4 C5 C5M C6 177.3 179.7
C5M C5 C6 H6 357.0 360.0
H51 C5M C5 H52 234.8 240.0
H51 C5M C5 H53 125.3 120.0
H52 C5M C5 H53 250.5 239.9
N1 C6 C5 H6 180.1 180.0
C4 C5 C6 C5M 182.7 180.3
C6 C5 C5M H51 2.7 180.0
C6 C5 C5M H52 127.9 299.9
C6 C5 C5M H53 237.4 60.0
H51 C5M C5 C6 2.7 180.0
C5 C5M H51 H52 125.2 120.0
C5 C5M H51 H53 234.6 240.0
H52 C5M H51 H53 109.5 120.0
H52 C5M C5 C6 127.9 299.9
C5 C5M H52 H51 228.6 240.0
C5 C5M H52 H53 114.3 120.1
H51 C5M H52 H53 245.7 240.0
H53 C5M C5 C6 237.4 60.0
C5 C5M H53 H51 131.5 120.0
C5 C5M H53 H52 245.7 239.9
H51 C5M H53 H52 114.2 120.0
N1 C6 H6 C5 179.9 180.0