PDB Chemical Component STB

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 STB

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C1 C2 1.448 1.396
C1 C6 1.449 1.394
C1 C7 1.463 1.479
C2 C3 1.455 1.379
C2 H2 1.102 1.080
C3 C4 1.456 1.383
C3 H3 1.102 1.079
C4 C5 1.453 1.383
C4 S 1.689 1.761
C5 C6 1.452 1.380
C5 H5 1.104 1.081
C6 H6 1.103 1.081
C7 O7 1.181 1.216
C7 N 1.467 1.346
N C1' 1.485 1.465
N HN 1.020 0.969
C1' C2' 1.536 1.531
C1' H1'1 1.116 1.089
C1' H1'2 1.115 1.090
C2' C3' 1.538 1.530
C2' H2'1 1.115 1.089
C2' H2'2 1.116 1.088
C3' C4' 1.544 1.530
C3' H3'1 1.116 1.089
C3' H3'2 1.114 1.090
C4' N5' 1.486 1.468
C4' H4'1 1.114 1.090
C4' H4'2 1.115 1.089
N5' C6' 1.461 1.468
N5' HN5 1.019 1.008
C6' S7' 1.719 1.813
C6' H6'1 1.114 1.090
C6' H6'2 1.115 1.090
S7' HS7 0.950 1.344
S O1S 1.391 1.421
S O2S 1.554 1.421
S N3S 1.478 1.655
N3S HN31 1.019 0.970
N3S HN32 1.021 0.971

Bond Angles for STB

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 C1 C6 119.9 119.7
C2 C1 C7 120.0 120.1
C1 C2 C3 120.0 119.9
C1 C2 H2 119.8 120.1
C6 C1 C7 120.1 120.1
C1 C6 C5 120.2 119.9
C1 C6 H6 119.8 120.1
C1 C7 O7 126.3 120.0
C1 C7 N 118.1 120.0
C3 C2 H2 120.3 120.0
C2 C3 C4 120.5 120.1
C2 C3 H3 119.7 120.0
C4 C3 H3 119.8 119.9
C3 C4 C5 119.0 120.3
C3 C4 S 120.9 119.9
C5 C4 S 120.1 119.9
C4 C5 C6 120.5 120.2
C4 C5 H5 119.8 119.9
C4 S O1S 114.6 105.8
C4 S O2S 101.4 105.8
C4 S N3S 104.9 107.4
C6 C5 H5 119.7 119.9
C5 C6 H6 120.0 120.1
O7 C7 N 115.6 120.0
C7 N C1' 118.3 120.0
C7 N HN 120.3 120.0
C1' N HN 121.4 120.0
N C1' C2' 111.1 109.4
N C1' H1'1 111.6 109.5
N C1' H1'2 111.6 109.5
C2' C1' H1'1 111.6 109.5
C2' C1' H1'2 111.6 109.4
C1' C2' C3' 111.5 109.4
C1' C2' H2'1 111.5 109.4
C1' C2' H2'2 111.4 109.5
H1'1 C1' H1'2 98.8 109.5
C3' C2' H2'1 111.5 109.5
C3' C2' H2'2 111.5 109.5
C2' C3' C4' 111.8 109.5
C2' C3' H3'1 111.3 109.5
C2' C3' H3'2 111.3 109.5
H2'1 C2' H2'2 98.9 109.5
C4' C3' H3'1 111.4 109.5
C4' C3' H3'2 111.3 109.4
C3' C4' N5' 110.9 109.5
C3' C4' H4'1 111.7 109.5
C3' C4' H4'2 111.7 109.4
H3'1 C3' H3'2 99.0 109.5
N5' C4' H4'1 111.7 109.5
N5' C4' H4'2 111.7 109.5
C4' N5' C6' 105.3 106.7
C4' N5' HN5 113.7 106.7
H4'1 C4' H4'2 98.8 109.5
C6' N5' HN5 113.8 106.7
N5' C6' S7' 125.3 109.5
N5' C6' H6'1 106.6 109.5
N5' C6' H6'2 106.6 109.5
S7' C6' H6'1 106.7 109.4
S7' C6' H6'2 106.7 109.4
C6' S7' HS7 125.2 100.0
H6'1 C6' H6'2 103.0 109.5
O1S S O2S 114.4 125.3
O1S S N3S 106.7 105.7
O2S S N3S 114.6 105.8
S N3S HN31 105.0 120.1
S N3S HN32 113.9 120.0
HN31 N3S HN32 113.9 119.9

Torsion Angles for STB

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 C1 C2 C7 176.2 180.1
C2 C1 C6 C5 359.4 359.7
C2 C1 C6 H6 179.3 180.0
C2 C1 C7 O7 351.8 360.0
C2 C1 C7 N 171.0 180.0
C3 C2 C1 H2 179.9 179.9
C1 C2 C3 C4 359.9 0.0
C1 C2 C3 H3 180.0 180.0
C2 C1 C6 C7 183.8 179.9
C6 C1 C2 C3 0.8 0.0
C6 C1 C2 H2 180.8 180.1
C6 C1 C7 O7 175.6 179.9
C6 C1 C7 N 354.8 360.0
C4 C5 C6 C1 359.8 0.6
C1 C6 C5 H5 179.8 180.0
C5 C6 C1 H6 180.1 179.7
C2 C1 C7 C6 176.2 180.1
C7 C1 C2 C3 184.6 179.9
C7 C1 C2 H2 4.6 0.1
C7 C1 C6 C5 175.6 179.8
C7 C1 C6 H6 355.5 0.1
O7 C7 C1 N 180.8 180.0
C1 C7 N C1' 179.8 180.0
C1 C7 N HN 359.9 360.0
C3 C2 C1 C6 0.8 0.0
C3 C2 C1 C7 184.6 179.9
C1 C2 C3 H2 180.1 180.1
C4 C3 C2 H3 179.9 180.0
C2 C3 C4 C5 359.3 0.2
C2 C3 C4 S 176.1 179.9
H2 C2 C1 C6 180.8 180.1
H2 C2 C1 C7 4.6 0.1
C1 C2 H2 C3 179.9 179.9
H2 C2 C3 C4 179.8 179.9
H2 C2 C3 H3 359.9 359.9
C4 C3 C2 H2 179.8 179.9
C2 C3 C4 H3 180.1 180.0
C5 C4 C3 S 183.2 180.3
C3 C4 C5 C6 0.8 359.5
C3 C4 C5 H5 180.8 180.0
C3 C4 S O1S 262.7 337.4
C3 C4 S O2S 26.3 202.6
C3 C4 S N3S 145.9 90.0
H3 C3 C2 H2 359.9 359.9
C2 C3 H3 C4 179.9 180.0
H3 C3 C4 C5 179.3 180.2
H3 C3 C4 S 356.1 360.0
C1 C6 C5 C4 359.8 0.6
C5 C4 C3 H3 179.3 180.2
C3 C4 C5 S 176.9 179.7
C5 C4 S O1S 79.4 157.1
C5 C4 S O2S 203.1 22.3
C5 C4 S N3S 322.7 269.7
C6 C5 C4 H5 180.0 179.5
C4 C5 C6 H6 179.9 180.2
S C4 C3 H3 356.1 360.0
C3 C4 S C5 183.2 180.3
S C4 C5 C6 184.0 179.8
S C4 C5 H5 4.0 0.3
O1S S C4 O2S 236.3 134.8
O1S S C4 N3S 116.7 247.4
O2S S C4 N3S 240.4 112.6
C4 S N3S HN31 180.0 180.0
C4 S N3S HN32 54.7 359.7
C5 C6 C1 C7 175.6 179.8
C1 C6 C5 H6 179.9 180.3
C6 C5 C4 S 184.0 179.8
C4 C5 C6 H5 180.0 180.5
H5 C5 C4 S 4.0 0.3
C4 C5 H5 C6 180.0 179.5
H5 C5 C6 H6 359.9 359.7
H6 C6 C1 C7 355.5 0.1
C1 C6 H6 C5 180.1 179.7
H6 C6 C5 H5 359.9 359.7
C1 C7 O7 N 179.2 180.0
O7 C7 N C1' 359.1 0.0
O7 C7 N HN 179.1 180.0
C1 C7 N O7 180.7 180.0
C1' N C7 HN 179.9 180.0
C7 N C1' C2' 108.4 180.0
C7 N C1' H1'1 233.6 300.0
C7 N C1' H1'2 343.1 60.0
C7 N C1' HN 180.1 180.0
C2' C1' N H1'1 234.8 240.0
C2' C1' N H1'2 125.3 119.9
N C1' C2' C3' 207.7 180.0
N C1' C2' H2'1 333.0 300.0
N C1' C2' H2'2 82.5 60.0
H1'1 C1' N H1'2 250.5 240.0
C7 N HN C1' 179.9 180.0
HN N C1' C2' 288.4 360.0
HN N C1' H1'1 53.6 120.0
HN N C1' H1'2 163.0 240.0
C2' C1' N HN 288.4 360.0
N C1' C2' H1'1 125.2 120.0
N C1' C2' H1'2 234.7 240.0
H1'1 C1' C2' H1'2 109.5 120.0
C3' C2' C1' H2'1 234.7 240.1
C3' C2' C1' H2'2 125.2 120.0
C1' C2' C3' C4' 166.8 180.0
C1' C2' C3' H3'1 292.1 300.0
C1' C2' C3' H3'2 41.6 60.0
H2'1 C2' C1' H2'2 250.5 240.0
H1'1 C1' N HN 53.6 120.0
N C1' H1'1 C2' 235.0 240.0
N C1' H1'1 H1'2 117.5 120.0
C2' C1' H1'1 H1'2 242.5 240.0
H1'1 C1' C2' C3' 82.5 60.0
H1'1 C1' C2' H2'1 207.8 179.9
H1'1 C1' C2' H2'2 317.2 299.9
H1'2 C1' N HN 163.0 240.0
N C1' H1'2 C2' 125.0 120.0
N C1' H1'2 H1'1 242.5 239.9
C2' C1' H1'2 H1'1 117.5 120.0
H1'2 C1' C2' C3' 333.0 300.0
H1'2 C1' C2' H2'1 98.3 60.0
H1'2 C1' C2' H2'2 207.8 180.0
C3' C2' C1' H1'1 82.5 60.0
C3' C2' C1' H1'2 333.0 300.0
C1' C2' C3' H2'1 125.3 119.9
C1' C2' C3' H2'2 234.8 240.0
H2'1 C2' C3' H2'2 109.5 120.1
C4' C3' C2' H3'1 234.7 240.0
C4' C3' C2' H3'2 125.3 120.0
C2' C3' C4' N5' 111.4 180.0
C2' C3' C4' H4'1 236.6 300.0
C2' C3' C4' H4'2 346.1 60.0
H3'1 C3' C2' H3'2 250.6 240.0
H2'1 C2' C1' H1'1 207.8 179.9
H2'1 C2' C1' H1'2 98.3 60.0
C1' C2' H2'1 C3' 234.7 240.1
C1' C2' H2'1 H2'2 117.3 120.0
C3' C2' H2'1 H2'2 242.6 239.9
H2'1 C2' C3' C4' 41.6 60.1
H2'1 C2' C3' H3'1 166.9 180.1
H2'1 C2' C3' H3'2 276.3 300.1
H2'2 C2' C1' H1'1 317.2 299.9
H2'2 C2' C1' H1'2 207.8 180.0
C1' C2' H2'2 C3' 125.2 120.0
C1' C2' H2'2 H2'1 242.7 240.0
C3' C2' H2'2 H2'1 117.4 120.0
H2'2 C2' C3' C4' 292.0 300.0
H2'2 C2' C3' H3'1 57.3 60.0
H2'2 C2' C3' H3'2 166.8 180.0
C4' C3' C2' H2'1 41.6 60.1
C4' C3' C2' H2'2 292.0 300.0
C2' C3' C4' H3'1 125.2 120.0
C2' C3' C4' H3'2 234.7 240.0
H3'1 C3' C4' H3'2 109.5 120.0
N5' C4' C3' H4'1 234.8 240.0
N5' C4' C3' H4'2 125.2 120.1
C3' C4' N5' C6' 243.7 180.0
C3' C4' N5' HN5 118.4 293.8
H4'1 C4' C3' H4'2 250.5 240.0
H3'1 C3' C2' H2'1 166.9 180.1
H3'1 C3' C2' H2'2 57.3 60.0
C2' C3' H3'1 C4' 234.4 240.0
C2' C3' H3'1 H3'2 117.2 120.1
C4' C3' H3'1 H3'2 242.8 240.1
H3'1 C3' C4' N5' 346.1 60.0
H3'1 C3' C4' H4'1 111.4 180.0
H3'1 C3' C4' H4'2 220.9 299.9
H3'2 C3' C2' H2'1 276.3 300.1
H3'2 C3' C2' H2'2 166.8 180.0
C2' C3' H3'2 C4' 125.6 120.0
C2' C3' H3'2 H3'1 242.8 239.9
C4' C3' H3'2 H3'1 117.3 120.0
H3'2 C3' C4' N5' 236.6 300.0
H3'2 C3' C4' H4'1 1.9 60.0
H3'2 C3' C4' H4'2 111.4 180.0
N5' C4' C3' H3'1 346.1 60.0
N5' C4' C3' H3'2 236.6 300.0
C3' C4' N5' H4'1 125.2 120.0
C3' C4' N5' H4'2 234.8 240.0
H4'1 C4' N5' H4'2 109.5 120.0
C6' N5' C4' HN5 125.3 246.2
C4' N5' C6' S7' 155.9 90.0
C4' N5' C6' H6'1 281.1 210.0
C4' N5' C6' H6'2 30.6 330.0
H4'1 C4' C3' H3'1 111.4 180.0
H4'1 C4' C3' H3'2 1.9 60.0
C3' C4' H4'1 N5' 235.2 240.0
C3' C4' H4'1 H4'2 117.6 119.9
N5' C4' H4'1 H4'2 242.4 239.9
H4'1 C4' N5' C6' 118.5 60.0
H4'1 C4' N5' HN5 353.1 173.8
H4'2 C4' C3' H3'1 220.9 299.9
H4'2 C4' C3' H3'2 111.4 180.0
C3' C4' H4'2 N5' 124.8 120.0
C3' C4' H4'2 H4'1 242.4 240.0
N5' C4' H4'2 H4'1 117.6 120.0
H4'2 C4' N5' C6' 8.9 300.0
H4'2 C4' N5' HN5 243.6 53.8
C6' N5' C4' H4'1 118.5 60.0
C6' N5' C4' H4'2 8.9 300.0
C4' N5' C6' HN5 234.7 113.8
S7' C6' N5' H6'1 234.7 240.0
S7' C6' N5' H6'2 125.2 119.9
N5' C6' S7' HS7 180.0 180.0
H6'1 C6' N5' H6'2 250.5 239.9
HN5 N5' C4' H4'1 353.1 173.8
HN5 N5' C4' H4'2 243.6 53.8
C4' N5' HN5 C6' 120.6 246.2
HN5 N5' C6' S7' 281.1 336.2
HN5 N5' C6' H6'1 46.4 96.2
HN5 N5' C6' H6'2 155.9 216.3
S7' C6' N5' HN5 281.1 336.2
N5' C6' S7' H6'1 125.2 120.1
N5' C6' S7' H6'2 234.8 240.0
H6'1 C6' S7' H6'2 109.5 120.0
H6'1 C6' N5' HN5 46.4 96.2
N5' C6' H6'1 S7' 224.1 240.0
N5' C6' H6'1 H6'2 112.0 120.0
S7' C6' H6'1 H6'2 247.9 240.1
H6'1 C6' S7' HS7 54.8 60.0
H6'2 C6' N5' HN5 155.9 216.3
N5' C6' H6'2 S7' 135.9 120.0
N5' C6' H6'2 H6'1 248.0 239.9
S7' C6' H6'2 H6'1 112.1 119.9
H6'2 C6' S7' HS7 305.2 300.0
HS7 S7' C6' H6'1 54.8 60.0
HS7 S7' C6' H6'2 305.2 300.0
C4 S O1S O2S 116.4 236.8
C4 S O1S N3S 244.3 113.8
O2S S O1S N3S 127.9 236.9
O1S S N3S HN31 58.0 292.7
O1S S N3S HN32 292.7 112.4
C4 S O2S O1S 236.1 123.2
C4 S O2S N3S 112.4 246.2
O1S S O2S N3S 236.3 123.1
O2S S N3S HN31 290.3 67.4
O2S S N3S HN32 165.0 247.1
C4 S N3S O1S 122.0 247.4
C4 S N3S O2S 249.7 112.6
O1S S N3S O2S 127.7 225.3
HN31 N3S S HN32 125.3 180.3
S N3S HN31 HN32 234.7 179.7
S N3S HN32 HN31 120.4 180.3