PDB Chemical Component QBT

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 QBT

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P O1P 1.518 1.610
P O2P 1.490 1.480
P O5' 1.608 1.611
P O3P 1.590 1.609
O5' C5' 1.429 1.429
C5' C4' 1.526 1.530
C4' O4' 1.441 1.444
C4' C3' 1.514 1.549
O4' C1' 1.423 1.437
C3' O3' 1.436 1.428
C3' C2' 1.510 1.548
C2' C1' 1.558 1.541
C1' N1 1.463 1.465
N1 C2 1.354 1.343
N1 C6 1.418 1.464
C2 O2 1.206 1.216
C2 N3 1.320 1.344
N3 C4 1.318 1.346
C4 O4 1.215 1.212
C4 C5 1.494 1.507
C5 C5M 1.531 1.530
O1P H1P 0.950 0.966
C5' H5'1 1.100 1.090
C5' H5'2 1.100 1.090
C4' H4' 1.100 1.090
C3' H3' 1.100 1.090
C1' H1' 1.100 1.090
O3' HA 0.950 0.967
C2' H2'1 1.100 1.090
C2' H2'2 1.100 1.091
C6 H61C 1.100 1.089
C6 H62C 1.100 1.090
N3 H3 1.000 0.970
C5 C6 1.476 1.534
C5 H5M 1.100 1.090
C5M H52 1.100 1.090
C5M H53 1.100 1.090
C5M H54 1.100 1.090
O3P H3P 0.950 0.967

Bond Angles for QBT

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O1P P O2P 120.0 109.5
O1P P O5' 111.1 109.5
O1P P O3P 104.6 109.5
P O1P H1P 109.5 114.0
O2P P O5' 108.3 109.5
O2P P O3P 107.7 109.5
O5' P O3P 103.9 109.5
P O5' C5' 115.8 123.0
P O3P H3P 109.5 114.1
O5' C5' C4' 110.4 109.5
O5' C5' H5'1 109.2 109.5
O5' C5' H5'2 109.0 109.5
C5' C4' O4' 111.4 110.6
C5' C4' C3' 110.2 110.6
C4' C5' H5'1 109.1 109.5
C4' C5' H5'2 108.9 109.5
C5' C4' H4' 107.1 110.5
O4' C4' C3' 107.7 103.5
C4' O4' C1' 109.3 106.9
O4' C4' H4' 109.6 110.6
C4' C3' O3' 108.5 111.0
C4' C3' C2' 104.3 102.1
C3' C4' H4' 110.8 110.8
C4' C3' H3' 113.6 110.9
O4' C1' C2' 104.7 107.3
O4' C1' N1 107.6 109.9
O4' C1' H1' 116.7 109.9
O3' C3' C2' 110.1 110.9
O3' C3' H3' 108.2 110.8
C3' O3' HA 109.5 114.1
C3' C2' C1' 101.7 104.2
C2' C3' H3' 112.1 110.9
C3' C2' H2'1 112.2 110.5
C3' C2' H2'2 113.8 110.5
C2' C1' N1 116.9 109.9
C2' C1' H1' 107.2 109.9
C1' C2' H2'1 112.1 110.5
C1' C2' H2'2 113.8 110.5
C1' N1 C2 122.5 119.5
C1' N1 C6 111.5 119.6
N1 C1' H1' 104.3 110.0
C2 N1 C6 125.6 120.9
N1 C2 O2 122.3 119.2
N1 C2 N3 120.3 121.6
N1 C6 H61C 109.3 109.4
N1 C6 H62C 109.2 109.4
N1 C6 C5 110.0 109.3
O2 C2 N3 117.3 119.2
C2 N3 C4 121.7 121.0
C2 N3 H3 119.1 119.5
N3 C4 O4 119.8 120.0
N3 C4 C5 118.5 120.0
C4 N3 H3 119.2 119.6
O4 C4 C5 118.6 120.0
C4 C5 C5M 111.4 109.5
C4 C5 C6 115.6 109.1
C4 C5 H5M 105.0 109.5
C6 C5 C5M 113.1 109.4
C5M C5 H5M 108.0 109.5
C5 C5M H52 109.5 109.5
C5 C5M H53 109.5 109.5
C5 C5M H54 109.5 109.5
H5'1 C5' H5'2 110.2 109.5
H2'1 C2' H2'2 103.7 110.5
H61C C6 H62C 109.9 109.5
C5 C6 H61C 109.3 109.7
C5 C6 H62C 109.2 109.5
C6 C5 H5M 102.9 109.7
H52 C5M H53 109.4 109.4
H52 C5M H54 109.5 109.5
H53 C5M H54 109.5 109.5

Torsion Angles for QBT

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O2P P O1P O5' 232.3 240.0
O2P P O1P O3P 120.8 120.0
O5' P O1P O3P 248.5 240.0
O1P P O5' C5' 27.6 295.0
O1P P O3P H3P 50.8 60.0
O1P P O2P O5' 128.9 120.0
O1P P O2P O3P 240.7 240.0
O2P P O1P H1P 2.1 180.0
O5' P O2P O3P 111.8 120.0
O2P P O5' C5' 161.4 55.0
O2P P O3P H3P 282.1 300.0
O1P P O5' O2P 226.2 240.0
O1P P O5' O3P 111.9 120.0
O5' P O1P H1P 129.8 300.0
O2P P O5' O3P 245.7 240.0
O5' P O3P H3P 167.3 180.0
P O5' C5' C4' 192.5 180.0
P O5' C5' H5'1 312.4 300.0
P O5' C5' H5'2 72.8 60.0
O1P P O3P O2P 128.7 120.0
O1P P O3P O5' 243.4 240.0
O3P P O1P H1P 241.3 60.0
O2P P O3P O5' 114.7 120.0
O3P P O5' C5' 275.7 175.0
C5' O5' P O3P 275.7 175.0
O5' C5' C4' O4' 305.8 66.4
O5' C5' C4' C3' 65.3 180.6
C4' C5' O5' H5'1 240.0 240.0
C4' C5' O5' H5'2 119.6 120.0
O5' C5' C4' H4' 186.0 303.6
H5'1 C5' O5' H5'2 239.6 240.0
O5' C5' C4' H5'1 120.0 120.0
O5' C5' C4' H5'2 240.4 240.0
O4' C4' C5' C3' 240.5 245.9
C5' C4' O4' C1' 127.6 158.6
O4' C4' C5' H4' 119.8 122.8
C5' C4' C3' O3' 137.3 86.3
C5' C4' C3' C2' 254.6 204.5
C3' C4' C5' H4' 239.4 236.9
C5' C4' C3' H3' 16.9 322.7
H5'1 C5' C4' H5'2 120.4 120.0
C5' C4' O4' C3' 121.0 118.5
O4' C4' C5' H5'1 185.8 306.4
O4' C4' C5' H5'2 65.4 186.4
C5' C4' O4' H4' 241.6 237.2
O4' C4' C3' O3' 259.0 204.8
O4' C4' C3' C2' 16.3 323.0
C3' C4' O4' H4' 120.7 118.7
O4' C4' C3' H3' 138.6 81.2
C4' O4' C1' C2' 333.9 333.5
C4' O4' C1' N1 208.9 214.1
C4' O4' C1' H1' 92.2 92.9
C5' C4' C3' O4' 238.3 241.5
C3' C4' C5' H5'1 305.4 60.5
C3' C4' C5' H5'2 185.0 300.5
C5' C4' C3' H4' 118.4 122.9
C3' C4' O4' C1' 6.6 40.1
O4' C4' C3' H4' 240.1 241.4
O3' C3' C4' C2' 242.8 241.8
O3' C3' C4' H3' 120.4 123.6
C4' C3' O3' HA 55.0 180.0
C4' C3' C2' C1' 329.6 20.8
C2' C3' C4' H3' 237.6 241.8
C4' C3' C2' H2'1 89.6 139.6
C4' C3' C2' H2'2 206.8 262.2
C1' O4' C4' C3' 6.6 40.1
C1' O4' C4' H4' 245.9 281.4
C3' C2' C1' O4' 35.1 2.1
C2' C1' O4' N1 125.0 119.4
C2' C1' O4' H1' 241.7 240.6
O4' C1' C2' H2'1 275.1 243.4
O4' C1' C2' H2'2 157.8 120.7
O4' C1' N1 C2 254.9 53.5
O4' C1' N1 C6 68.6 233.3
N1 C1' O4' H1' 116.7 121.2
C4' C3' O3' C2' 113.5 112.7
O3' C3' C4' H4' 18.9 323.4
C4' C3' O3' H3' 236.3 236.4
O3' C3' C2' C1' 85.7 139.1
C2' C3' O3' H3' 122.8 123.7
O3' C3' C2' H2'1 205.7 257.8
O3' C3' C2' H2'2 323.0 20.4
C4' C3' C2' O3' 243.9 241.8
C2' C3' C4' H4' 136.2 81.6
C4' C3' C2' H3' 123.4 118.1
O4' C1' C2' C3' 35.1 2.1
O3' C3' C2' H3' 239.5 236.4
C2' C3' O3' HA 301.5 67.3
C3' C2' C1' N1 154.0 121.5
C3' C2' C1' H1' 270.5 242.6
C1' C2' C3' H2'1 240.0 241.3
C1' C2' C3' H2'2 122.7 118.7
H2'1 C2' C3' H2'2 242.7 237.4
O4' C1' C2' N1 241.1 240.6
O4' C1' C2' H1' 124.5 119.5
C1' C2' C3' H3' 206.2 262.7
C3' C2' C1' H2'1 120.0 118.7
C3' C2' C1' H2'2 237.2 241.4
C2' C1' N1 C2 137.6 295.7
C2' C1' N1 C6 311.3 115.4
N1 C1' C2' H1' 243.4 238.9
H2'1 C2' C1' H2'2 117.2 122.6
O4' C1' N1 C2' 117.3 117.8
O4' C1' N1 H1' 235.5 238.9
C2' C1' N1 H1' 118.2 121.0
N1 C1' C2' H2'1 34.0 2.8
N1 C1' C2' H2'2 276.7 240.2
C2 N1 C1' C6 186.3 180.3
C1' N1 C2 O2 357.7 5.6
C1' N1 C2 N3 178.9 185.7
C1' N1 C6 H61C 287.0 264.2
C1' N1 C6 H62C 47.2 24.2
C1' N1 C6 C5 167.0 144.0
C1' N1 C2 C6 172.8 179.7
C2 N1 C1' H1' 19.4 174.7
C2 N1 C6 H61C 100.5 83.9
C2 N1 C6 H62C 220.7 203.9
C2 N1 C6 C5 340.5 323.7
O2 C2 N1 N3 178.8 179.9
N1 C2 N3 C4 355.4 12.0
N1 C2 N3 H3 175.4 192.0
C1' N1 C6 C2 186.5 180.3
C6 N1 C1' H1' 193.2 354.4
C6 N1 C2 O2 184.9 185.9
C6 N1 C2 N3 6.0 6.0
C4 C5 C6 N1 30.4 47.0
N1 C6 C5 C5M 160.4 166.8
H61C C6 N1 H62C 239.8 240.0
C5 C6 N1 H61C 240.0 239.9
C5 C6 N1 H62C 119.8 119.8
N1 C6 C5 H5M 276.6 287.0
O2 C2 N1 C6 184.9 185.9
N1 C2 O2 N3 181.1 180.1
O2 C2 N3 C4 176.6 192.0
O2 C2 N3 H3 356.5 12.0
N3 C2 N1 C6 6.0 6.0
N1 C2 N3 O2 178.9 179.9
C2 N3 C4 O4 177.9 184.5
C2 N3 C4 C5 18.0 4.5
C4 N3 C2 H3 180.0 180.0
C2 N3 C4 H3 180.0 180.0
O4 C4 N3 C5 159.9 180.0
N3 C4 C5 C5M 197.2 205.8
N3 C4 C5 C6 327.9 325.6
N3 C4 C5 H5M 80.6 85.7
N3 C4 O4 C5 200.2 180.0
O4 C4 N3 H3 357.9 4.5
O4 C4 C5 C5M 37.1 25.8
O4 C4 C5 C6 167.8 145.6
O4 C4 C5 H5M 280.5 265.7
N1 C6 C5 C4 30.4 47.0
N3 C4 C5 O4 160.1 180.0
C5 C4 N3 H3 198.1 184.5
C6 C5 C4 C5M 130.8 119.7
C5M C5 C4 H5M 116.6 120.1
C4 C5 C5M H52 184.7 60.0
C4 C5 C5M H53 304.6 180.0
C4 C5 C5M H54 64.7 300.0
C4 C5 C6 H61C 270.4 287.0
C4 C5 C6 H62C 150.2 166.8
C6 C5 C4 H5M 247.4 239.9
C4 C5 C5M C6 132.1 119.5
C4 C5 C5M H5M 245.3 239.8
C5M C5 C6 H61C 40.4 46.8
C5M C5 C6 H62C 280.2 286.7
C6 C5 C5M H5M 113.2 120.3
H52 C5M C5 H53 240.0 240.1
H52 C5M C5 H54 120.0 120.0
H53 C5M C5 H54 239.9 240.0
H1P O1P P O2P 2.1 180.0
H1P O1P P O5' 129.8 300.0
H1P O1P P O3P 241.3 60.0
O5' C5' H5'1 C4' 239.2 240.0
O5' C5' H5'1 H5'2 119.6 120.0
H5'1 C5' C4' O4' 185.8 306.4
H5'1 C5' C4' C3' 305.4 60.5
C4' C5' H5'1 H5'2 240.4 240.0
H5'1 C5' C4' H4' 66.0 183.6
O5' C5' H5'2 C4' 120.5 120.0
O5' C5' H5'2 H5'1 240.2 239.9
H5'2 C5' C4' O4' 65.4 186.4
H5'2 C5' C4' C3' 185.0 300.5
C4' C5' H5'2 H5'1 119.7 120.0
H5'2 C5' C4' H4' 305.6 63.6
C5' C4' H4' O4' 121.0 122.8
C5' C4' H4' C3' 239.7 237.0
H4' C4' C5' H5'1 66.0 183.6
H4' C4' C5' H5'2 305.6 63.6
O4' C4' H4' C3' 118.8 114.2
H4' C4' O4' C1' 245.9 281.4
H4' C4' C3' O3' 18.9 323.4
H4' C4' C3' C2' 136.2 81.6
H4' C4' C3' H3' 258.5 199.8
C4' C3' H3' O3' 120.5 123.7
C4' C3' H3' C2' 242.1 247.3
H3' C3' C4' H4' 258.5 199.8
O3' C3' H3' C2' 121.6 123.7
H3' C3' O3' HA 178.7 303.6
H3' C3' C2' C1' 206.2 262.7
H3' C3' C2' H2'1 326.2 21.4
H3' C3' C2' H2'2 83.5 144.0
O4' C1' H1' C2' 243.1 242.2
O4' C1' H1' N1 118.5 121.1
C2' C1' H1' N1 235.4 239.0
H1' C1' C2' H2'1 150.5 123.9
H1' C1' C2' H2'2 33.3 1.3
H1' C1' N1 C2 19.4 174.7
H1' C1' N1 C6 193.2 354.4
HA O3' C3' C2' 301.5 67.3
HA O3' C3' H3' 178.7 303.6
C3' C2' H2'1 C1' 246.3 245.2
H2'1 C2' C3' H3' 326.2 21.4
C3' C2' H2'1 H2'2 123.2 122.6
H2'1 C2' C1' N1 34.0 2.8
H2'1 C2' C1' H1' 150.5 123.9
C1' C2' H2'1 H2'2 236.9 237.4
C3' C2' H2'2 C1' 115.9 114.8
H2'2 C2' C3' H3' 83.5 144.0
C3' C2' H2'2 H2'1 237.9 237.4
H2'2 C2' C1' N1 276.7 240.2
H2'2 C2' C1' H1' 33.3 1.3
C1' C2' H2'2 H2'1 122.0 122.7
N1 C6 H61C H62C 119.8 119.9
N1 C6 H61C C5 239.6 240.1
H61C C6 C5 C5M 40.4 46.8
C5 C6 H61C H62C 240.3 239.9
H61C C6 C5 H5M 156.6 167.0
N1 C6 H62C H61C 240.1 240.0
N1 C6 H62C C5 120.3 119.8
H62C C6 C5 C5M 280.2 286.7
C5 C6 H62C H61C 119.8 120.3
H62C C6 C5 H5M 36.4 46.8
C2 N3 H3 C4 180.0 180.0
H3 N3 C4 O4 357.9 4.5
H3 N3 C4 C5 198.1 184.5
N1 C6 C5 H61C 120.0 120.0
N1 C6 C5 H62C 240.2 240.2
C4 C5 C6 C5M 230.0 240.2
C4 C5 C6 H5M 113.8 120.0
C5M C5 C6 H5M 243.8 239.8
C6 C5 C5M H52 52.6 300.5
C6 C5 C5M H53 172.6 60.4
C6 C5 C5M H54 292.6 180.5
H61C C6 C5 H62C 120.2 120.2
C4 C5 H5M C5M 118.9 120.2
C4 C5 H5M C6 238.7 240.3
C6 C5 H5M C5M 240.2 239.9
H5M C5 C5M H52 299.4 180.2
H5M C5 C5M H53 59.4 300.1
H5M C5 C5M H54 179.4 60.2
H5M C5 C6 H61C 156.6 167.0
H5M C5 C6 H62C 36.4 46.8
H52 C5M C5 H5M 299.4 180.2
C5 C5M H52 H53 120.0 120.0
C5 C5M H52 H54 240.0 240.0
H53 C5M H52 H54 120.0 120.0
H53 C5M C5 H5M 59.4 300.1
C5 C5M H53 H52 240.0 240.1
C5 C5M H53 H54 120.0 120.0
H52 C5M H53 H54 240.0 240.0
H54 C5M C5 H5M 179.4 60.2
C5 C5M H54 H52 120.0 120.0
C5 C5M H54 H53 240.0 240.0
H52 C5M H54 H53 120.0 120.0