PDB Chemical Component PNT

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 PNT

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C1 C2 1.350 1.389
C1 C6 1.404 1.389
C1 O1 1.298 1.358
C2 C3 1.377 1.378
C2 H2 1.080 1.080
C3 C4 1.393 1.395
C3 H3 1.080 1.080
C4 C5 1.368 1.396
C4 C9 1.355 1.479
C5 C6 1.345 1.378
C5 H5 1.080 1.080
C6 H6 1.080 1.080
C7 C8 1.519 1.530
C7 O1 1.483 1.428
C7 H71 1.100 1.090
C7 H72 1.100 1.090
C8 C10 1.500 1.530
C8 H81 1.100 1.090
C8 H82 1.100 1.091
C9 N1 1.350 1.303
C9 N2 1.378 1.378
C10 C8' 1.498 1.530
C10 H101 1.099 1.090
C10 H102 1.100 1.091
C1' C2' 1.338 1.389
C1' C6' 1.385 1.389
C1' O1' 1.295 1.358
C2' C3' 1.368 1.378
C2' H2' 1.080 1.080
C3' C4' 1.391 1.395
C3' H3' 1.080 1.080
C4' C5' 1.341 1.396
C4' C9' 1.350 1.479
C5' C6' 1.377 1.378
C5' H5' 1.080 1.080
C6' H6' 1.080 1.080
C7' C8' 1.536 1.530
C7' O1' 1.459 1.428
C7' H7'1 1.100 1.090
C7' H7'2 1.100 1.091
C8' H8'1 1.100 1.090
C8' H8'2 1.100 1.090
C9' N1' 1.353 1.303
C9' N2' 1.384 1.378
N1 HN1 1.000 0.970
N2 HN2 1.000 0.970
N2 HN3 0.999 0.969
N1' HN'1 1.000 0.970
N2' HN'2 1.000 0.970
N2' HN'3 1.000 0.969

Bond Angles for PNT

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 C1 C6 119.4 120.1
C2 C1 O1 118.4 119.9
C1 C2 C3 119.0 120.1
C1 C2 H2 120.5 119.9
C6 C1 O1 122.2 119.9
C1 C6 C5 120.4 120.1
C1 C6 H6 119.8 120.0
C1 O1 C7 107.2 117.0
C3 C2 H2 120.5 120.0
C2 C3 C4 122.2 119.9
C2 C3 H3 118.9 120.0
C4 C3 H3 118.9 120.1
C3 C4 C5 117.0 119.9
C3 C4 C9 122.6 120.1
C5 C4 C9 120.4 120.0
C4 C5 C6 121.8 119.9
C4 C5 H5 119.1 120.1
C4 C9 N1 118.9 120.0
C4 C9 N2 121.4 120.0
C6 C5 H5 119.1 120.0
C5 C6 H6 119.8 119.9
C8 C7 O1 96.4 109.5
C8 C7 H71 114.1 109.5
C8 C7 H72 116.7 109.4
C7 C8 C10 93.6 109.5
C7 C8 H81 115.2 109.4
C7 C8 H82 118.3 109.4
O1 C7 H71 114.1 109.5
O1 C7 H72 116.7 109.5
H71 C7 H72 99.9 109.5
C10 C8 H81 115.2 109.5
C10 C8 H82 118.2 109.5
C8 C10 C8' 113.7 109.5
C8 C10 H101 108.1 109.5
C8 C10 H102 107.1 109.5
H81 C8 H82 97.9 109.5
N1 C9 N2 119.5 120.0
C9 N1 HN1 109.8 120.0
C9 N2 HN2 109.9 120.0
C9 N2 HN3 125.1 120.0
C8' C10 H101 108.1 109.5
C8' C10 H102 107.1 109.5
C10 C8' C7' 111.2 109.5
C10 C8' H8'1 108.9 109.5
C10 C8' H8'2 108.5 109.5
H101 C10 H102 112.8 109.5
C2' C1' C6' 120.5 120.1
C2' C1' O1' 119.8 119.9
C1' C2' C3' 118.3 120.1
C1' C2' H2' 120.8 119.9
C6' C1' O1' 119.7 119.9
C1' C6' C5' 120.6 120.1
C1' C6' H6' 119.7 120.0
C1' O1' C7' 111.8 117.0
C3' C2' H2' 120.8 120.0
C2' C3' C4' 122.2 119.9
C2' C3' H3' 118.9 120.0
C4' C3' H3' 118.9 120.1
C3' C4' C5' 118.7 119.9
C3' C4' C9' 121.7 120.1
C5' C4' C9' 119.5 120.0
C4' C5' C6' 119.6 119.9
C4' C5' H5' 120.2 120.1
C4' C9' N1' 119.2 120.0
C4' C9' N2' 120.8 120.0
C6' C5' H5' 120.2 120.0
C5' C6' H6' 119.7 119.9
C8' C7' O1' 106.5 109.5
C8' C7' H7'1 110.5 109.4
C8' C7' H7'2 111.2 109.4
C7' C8' H8'1 108.9 109.4
C7' C8' H8'2 108.5 109.5
O1' C7' H7'1 110.5 109.5
O1' C7' H7'2 111.1 109.5
H7'1 C7' H7'2 107.2 109.5
H8'1 C8' H8'2 110.8 109.5
N1' C9' N2' 120.0 120.0
C9' N1' HN'1 109.9 120.0
C9' N2' HN'2 109.9 120.0
C9' N2' HN'3 125.0 120.0
HN2 N2 HN3 125.1 120.0
HN'2 N2' HN'3 125.1 120.0

Torsion Angles for PNT

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 C1 C2 O1 180.2 180.2
C2 C1 C6 C5 3.3 0.0
C2 C1 C6 H6 183.4 180.0
C2 C1 O1 C7 339.2 180.0
C3 C2 C1 H2 180.0 180.0
C1 C2 C3 C4 4.1 0.1
C1 C2 C3 H3 184.1 180.0
C2 C1 C6 O1 179.8 179.8
C6 C1 C2 C3 355.6 360.0
C6 C1 C2 H2 175.6 180.0
C6 C1 O1 C7 158.9 359.8
C4 C5 C6 C1 358.2 0.0
C1 C6 C5 H5 178.2 180.0
C5 C6 C1 H6 180.0 180.0
C2 C1 O1 C6 180.2 180.2
O1 C1 C2 C3 175.4 179.7
O1 C1 C2 H2 355.4 359.7
O1 C1 C6 C5 183.6 180.2
O1 C1 C6 H6 3.6 0.3
C8 C7 O1 C1 171.8 180.0
C1 O1 C7 H71 51.8 60.0
C1 O1 C7 H72 296.0 299.9
C3 C2 C1 C6 355.6 360.0
C3 C2 C1 O1 175.4 179.7
C1 C2 C3 H2 180.0 180.0
C4 C3 C2 H3 180.0 180.1
C2 C3 C4 C5 357.5 360.0
C2 C3 C4 C9 179.0 179.9
H2 C2 C1 C6 175.6 180.0
H2 C2 C1 O1 355.4 359.7
C1 C2 H2 C3 180.0 180.0
H2 C2 C3 C4 184.1 180.0
H2 C2 C3 H3 4.1 359.9
C4 C3 C2 H2 184.1 180.0
C2 C3 C4 H3 180.0 179.9
C5 C4 C3 C9 178.5 180.1
C3 C4 C5 C6 1.3 360.0
C3 C4 C5 H5 181.3 180.0
C3 C4 C9 N1 6.8 0.0
C3 C4 C9 N2 181.3 180.0
H3 C3 C2 H2 4.1 359.9
C2 C3 H3 C4 180.0 180.1
H3 C3 C4 C5 177.5 180.1
H3 C3 C4 C9 359.0 0.0
C1 C6 C5 C4 358.2 0.0
C5 C4 C3 H3 177.5 180.1
C3 C4 C5 C9 181.4 179.9
C5 C4 C9 N1 188.3 179.9
C5 C4 C9 N2 2.8 359.9
C6 C5 C4 H5 180.0 179.9
C4 C5 C6 H6 178.2 180.0
C9 C4 C3 H3 359.0 0.0
C3 C4 C9 C5 178.5 180.1
C9 C4 C5 C6 179.9 180.0
C9 C4 C5 H5 359.9 0.1
N1 C9 C4 N2 185.5 180.0
C4 C9 N1 HN1 180.0 180.0
C4 C9 N2 HN2 2.9 0.0
C4 C9 N2 HN3 182.9 180.0
C5 C6 C1 O1 183.6 180.2
C1 C6 C5 H6 180.0 180.0
C6 C5 C4 C9 179.9 180.0
C4 C5 C6 H5 180.0 180.1
H5 C5 C4 C9 359.9 0.1
C4 C5 H5 C6 180.0 179.9
H5 C5 C6 H6 358.2 359.9
H6 C6 C1 O1 3.6 0.3
C1 C6 H6 C5 180.0 180.0
H6 C6 C5 H5 358.2 359.9
C1 O1 C7 C8 171.8 180.0
O1 C7 C8 H71 240.0 239.9
O1 C7 C8 H72 124.2 120.0
H71 C7 C8 H72 244.2 240.1
C10 C8 C7 H81 240.0 239.9
C10 C8 C7 H82 124.8 120.0
C7 C8 C10 C8' 204.3 180.0
C7 C8 C10 H101 324.3 300.0
C7 C8 C10 H102 86.1 60.0
H81 C8 C7 H82 244.9 240.1
C8 C7 O1 H71 120.0 120.0
C8 C7 O1 H72 235.8 240.1
O1 C7 C8 C10 199.3 180.0
O1 C7 C8 H81 319.4 300.0
O1 C7 C8 H82 74.5 60.0
H71 C7 O1 H72 115.8 120.0
C8 C7 H71 O1 250.6 240.0
C8 C7 H71 H72 125.3 119.9
H71 C7 C8 C10 319.3 300.0
H71 C7 C8 H81 79.3 60.1
H71 C7 C8 H82 194.5 180.0
O1 C7 H71 H72 234.7 240.0
C8 C7 H72 O1 113.1 120.0
C8 C7 H72 H71 236.6 240.1
H72 C7 C8 C10 75.1 60.0
H72 C7 C8 H81 195.1 180.0
H72 C7 C8 H82 310.3 300.0
O1 C7 H72 H71 123.5 120.1
C10 C8 C7 O1 199.3 180.0
C10 C8 C7 H71 319.3 300.0
C10 C8 C7 H72 75.1 60.0
C7 C8 C10 H81 120.0 120.0
C7 C8 C10 H82 235.1 240.0
H81 C8 C10 H82 115.1 120.0
C8' C10 C8 H101 240.0 240.0
C8' C10 C8 H102 118.1 120.0
C8 C10 C8' C7' 183.8 180.0
C8 C10 C8' H8'1 303.8 300.0
C8 C10 C8' H8'2 64.5 60.0
H101 C10 C8 H102 238.1 240.0
H81 C8 C7 O1 319.4 300.0
H81 C8 C7 H71 79.3 60.1
H81 C8 C7 H72 195.1 180.0
C7 C8 H81 C10 252.7 240.0
C7 C8 H81 H82 126.4 119.9
C10 C8 H81 H82 233.6 240.0
H81 C8 C10 C8' 84.3 60.0
H81 C8 C10 H101 204.3 180.0
H81 C8 C10 H102 326.1 300.0
H82 C8 C7 O1 74.5 60.0
H82 C8 C7 H71 194.5 180.0
H82 C8 C7 H72 310.3 300.0
C7 C8 H82 C10 111.6 120.0
C7 C8 H82 H81 235.8 240.1
C10 C8 H82 H81 124.2 120.1
H82 C8 C10 C8' 329.1 300.0
H82 C8 C10 H101 89.1 60.0
H82 C8 C10 H102 211.0 180.0
C4 C9 N1 N2 174.6 180.0
N1 C9 N2 HN2 177.4 180.0
N1 C9 N2 HN3 357.4 0.0
C4 C9 N2 N1 185.5 180.0
N2 C9 N1 HN1 5.3 360.0
HN2 N2 C9 HN3 180.0 180.0
C8' C10 C8 H81 84.3 60.0
C8' C10 C8 H82 329.1 300.0
C8 C10 C8' H101 120.0 120.0
C8 C10 C8' H102 241.9 240.0
H101 C10 C8' H102 121.9 120.0
C10 C8' C7' O1' 175.2 180.0
C10 C8' C7' H7'1 295.2 300.0
C10 C8' C7' H7'2 54.1 60.0
C7' C8' C10 H8'1 240.0 240.0
C7' C8' C10 H8'2 119.3 120.0
H8'1 C8' C10 H8'2 239.3 240.0
H101 C10 C8 H81 204.3 180.0
H101 C10 C8 H82 89.1 60.0
C8 C10 H101 C8' 236.5 240.0
C8 C10 H101 H102 118.3 120.0
C8' C10 H101 H102 241.7 240.0
H101 C10 C8' C7' 63.8 60.0
H101 C10 C8' H8'1 183.8 180.0
H101 C10 C8' H8'2 304.5 300.0
H102 C10 C8 H81 326.1 300.0
H102 C10 C8 H82 211.0 180.0
C8 C10 H102 C8' 122.3 120.0
C8 C10 H102 H101 241.2 240.0
C8' C10 H102 H101 118.8 120.0
H102 C10 C8' C7' 301.9 300.0
H102 C10 C8' H8'1 61.9 60.0
H102 C10 C8' H8'2 182.6 180.0
C6' C1' C2' O1' 181.4 180.3
C2' C1' C6' C5' 359.5 360.0
C2' C1' C6' H6' 179.6 180.0
C2' C1' O1' C7' 14.8 180.0
C3' C2' C1' H2' 180.0 179.9
C1' C2' C3' C4' 0.6 0.1
C1' C2' C3' H3' 180.6 179.9
C2' C1' C6' O1' 178.6 179.7
C6' C1' C2' C3' 359.7 360.0
C6' C1' C2' H2' 179.7 180.1
C6' C1' O1' C7' 193.4 359.7
C4' C5' C6' C1' 1.0 0.0
C1' C6' C5' H5' 181.0 180.1
C5' C6' C1' H6' 180.0 180.0
C2' C1' O1' C6' 181.4 180.3
O1' C1' C2' C3' 178.2 179.7
O1' C1' C2' H2' 358.3 359.7
O1' C1' C6' C5' 181.0 180.3
O1' C1' C6' H6' 1.0 0.3
C8' C7' O1' C1' 180.9 180.0
C1' O1' C7' H7'1 60.9 60.0
C1' O1' C7' H7'2 302.1 300.0
C3' C2' C1' C6' 359.7 360.0
C3' C2' C1' O1' 178.2 179.7
C1' C2' C3' H2' 180.0 180.1
C4' C3' C2' H3' 180.0 180.1
C2' C3' C4' C5' 359.9 359.9
C2' C3' C4' C9' 178.7 179.9
H2' C2' C1' C6' 179.7 180.1
H2' C2' C1' O1' 358.3 359.7
C1' C2' H2' C3' 180.0 179.9
H2' C2' C3' C4' 180.6 180.0
H2' C2' C3' H3' 0.6 359.9
C4' C3' C2' H2' 180.6 180.0
C2' C3' C4' H3' 180.0 179.9
C5' C4' C3' C9' 181.3 180.0
C3' C4' C5' C6' 359.3 0.0
C3' C4' C5' H5' 179.3 180.0
C3' C4' C9' N1' 354.4 0.0
C3' C4' C9' N2' 175.9 180.0
H3' C3' C2' H2' 0.6 359.9
C2' C3' H3' C4' 180.0 180.1
H3' C3' C4' C5' 179.9 180.1
H3' C3' C4' C9' 358.7 0.1
C1' C6' C5' C4' 1.0 0.0
C5' C4' C3' H3' 179.9 180.1
C3' C4' C5' C9' 178.8 180.0
C5' C4' C9' N1' 173.1 180.0
C5' C4' C9' N2' 354.6 360.0
C6' C5' C4' H5' 180.0 180.0
C4' C5' C6' H6' 181.0 180.0
C9' C4' C3' H3' 358.7 0.1
C3' C4' C9' C5' 181.3 180.0
C9' C4' C5' C6' 180.5 180.0
C9' C4' C5' H5' 0.5 0.0
N1' C9' C4' N2' 178.5 180.0
C4' C9' N1' HN'1 180.0 180.1
C4' C9' N2' HN'2 359.3 360.0
C4' C9' N2' HN'3 179.3 180.0
C5' C6' C1' O1' 181.0 180.3
C1' C6' C5' H6' 180.0 180.0
C6' C5' C4' C9' 180.5 180.0
C4' C5' C6' H5' 180.0 180.0
H5' C5' C4' C9' 0.5 0.0
C4' C5' H5' C6' 180.0 180.0
H5' C5' C6' H6' 1.0 0.0
H6' C6' C1' O1' 1.0 0.3
C1' C6' H6' C5' 180.0 180.0
H6' C6' C5' H5' 1.0 0.0
C7' C8' C10 H101 63.8 60.0
C7' C8' C10 H102 301.9 300.0
C10 C8' C7' H8'1 120.0 120.0
C10 C8' C7' H8'2 240.7 239.9
C1' O1' C7' C8' 180.9 180.0
O1' C7' C8' H7'1 240.0 240.0
O1' C7' C8' H7'2 121.2 120.0
H7'1 C7' C8' H7'2 241.2 240.1
H8'1 C8' C7' H8'2 120.7 119.9
C8' C7' O1' H7'1 120.0 120.0
C8' C7' O1' H7'2 238.8 240.0
O1' C7' C8' H8'1 55.2 60.0
O1' C7' C8' H8'2 294.5 300.1
H7'1 C7' O1' H7'2 118.8 120.0
C8' C7' H7'1 O1' 242.4 240.0
C8' C7' H7'1 H7'2 121.2 119.9
H7'1 C7' C8' H8'1 175.2 180.0
H7'1 C7' C8' H8'2 54.5 60.1
O1' C7' H7'1 H7'2 238.8 239.9
C8' C7' H7'2 O1' 118.4 120.0
C8' C7' H7'2 H7'1 239.2 240.1
H7'2 C7' C8' H8'1 294.1 300.0
H7'2 C7' C8' H8'2 173.4 180.0
O1' C7' H7'2 H7'1 120.8 120.1
H8'1 C8' C10 H101 183.8 180.0
H8'1 C8' C10 H102 61.9 60.0
C10 C8' H8'1 C7' 238.6 240.0
C10 C8' H8'1 H8'2 119.3 120.0
H8'1 C8' C7' O1' 55.2 60.0
H8'1 C8' C7' H7'1 175.2 180.0
H8'1 C8' C7' H7'2 294.1 300.0
C7' C8' H8'1 H8'2 240.7 240.1
H8'2 C8' C10 H101 304.5 300.0
H8'2 C8' C10 H102 182.6 180.0
C10 C8' H8'2 C7' 120.9 120.1
C10 C8' H8'2 H8'1 240.4 240.0
H8'2 C8' C7' O1' 294.5 300.1
H8'2 C8' C7' H7'1 54.5 60.1
H8'2 C8' C7' H7'2 173.4 180.0
C7' C8' H8'2 H8'1 119.5 119.9
C4' C9' N1' N2' 181.4 180.0
N1' C9' N2' HN'2 180.7 180.0
N1' C9' N2' HN'3 0.7 360.0
C4' C9' N2' N1' 178.5 180.0
N2' C9' N1' HN'1 358.5 0.1
HN'2 N2' C9' HN'3 180.0 180.0
HN1 N1 C9 N2 5.3 360.0
C9 N2 HN2 HN3 180.0 180.0
C9 N2 HN3 HN2 180.0 180.0
HN'1 N1' C9' N2' 358.5 0.1
C9' N2' HN'2 HN'3 180.0 180.0
C9' N2' HN'3 HN'2 180.0 180.0