PDB Chemical Component HE3

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 HE3

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
C9 C8 1.526 1.530
C9 H91 1.115 1.090
C9 H92 1.115 1.090
C9 H93 1.115 1.090
C8 O9 1.525 1.429
C8 C2 1.572 1.530
C8 H8 1.116 1.091
O9 HO9 0.950 0.967
C2 N4' 1.611 1.469
C2 N3 1.588 1.493
C2 S1 1.769 1.835
N4' C4' 1.542 1.388
N4' H4' 1.020 0.970
C4' N3' 1.442 1.332
C4' C5' 1.504 1.391
N3' C2' 1.413 1.317
C2' CM2 1.425 1.506
C2' N1' 1.468 1.318
CM2 HM21 1.115 1.090
CM2 HM22 1.115 1.090
CM2 HM23 1.115 1.091
N1' C6' 1.499 1.325
C6' C5' 1.472 1.382
C6' H6' 1.103 1.079
C5' C7' 1.529 1.509
C7' N3 1.534 1.480
C7' H7'1 1.115 1.090
C7' H7'2 1.115 1.090
N3 C4 1.545 1.377
C4 CM4 1.542 1.507
C4 C5 1.485 1.322
CM4 HM41 1.115 1.091
CM4 HM42 1.115 1.090
CM4 HM43 1.115 1.089
C5 C6 1.427 1.507
C5 S1 1.728 1.813
C6 C7 1.471 1.530
C6 H61 1.115 1.090
C6 H62 1.115 1.090
C7 O7 1.419 1.429
C7 H71 1.115 1.090
C7 H72 1.115 1.089
O7 PA 1.457 1.609
PA O2A 1.431 1.610
PA O3A 1.487 1.480
PA O1A 1.603 1.610
O2A H2A 0.950 0.968
O1A PB 1.560 1.611
PB O1B 1.435 1.609
PB O2B 1.504 1.610
PB O3B 1.492 1.480
O1B H1B 0.950 0.967
O2B H2B 0.950 0.967

Bond Angles for HE3

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C8 C9 H91 119.5 109.5
C8 C9 H92 91.1 109.5
C8 C9 H93 119.5 109.5
C9 C8 O9 91.1 109.5
C9 C8 C2 117.4 109.5
C9 C8 H8 123.1 109.5
H91 C9 H92 119.5 109.5
H91 C9 H93 90.6 109.4
H92 C9 H93 119.5 109.5
O9 C8 C2 124.5 109.5
O9 C8 H8 115.7 109.5
C8 O9 HO9 91.1 106.8
C2 C8 H8 88.4 109.5
C8 C2 N4' 98.6 113.1
C8 C2 N3 104.5 113.5
C8 C2 S1 105.3 113.3
N4' C2 N3 119.5 105.5
N4' C2 S1 108.7 109.5
C2 N4' C4' 110.9 118.5
C2 N4' H4' 111.7 120.7
N3 C2 S1 117.3 101.2
C2 N3 C7' 116.2 119.1
C2 N3 C4 97.0 114.7
C2 S1 C5 86.9 97.0
C4' N4' H4' 111.7 120.7
N4' C4' N3' 111.4 119.0
N4' C4' C5' 122.1 122.1
N3' C4' C5' 126.6 118.8
C4' N3' C2' 120.1 120.7
C4' C5' C6' 113.0 118.6
C4' C5' C7' 121.6 122.0
N3' C2' CM2 116.1 119.1
N3' C2' N1' 116.9 121.8
CM2 C2' N1' 127.0 119.1
C2' CM2 HM21 109.8 109.5
C2' CM2 HM22 116.1 109.5
C2' CM2 HM23 109.8 109.5
C2' N1' C6' 123.9 121.0
HM21 CM2 HM22 109.8 109.5
HM21 CM2 HM23 100.4 109.4
HM22 CM2 HM23 109.8 109.5
N1' C6' C5' 119.6 119.1
N1' C6' H6' 121.1 120.5
C5' C6' H6' 119.3 120.4
C6' C5' C7' 125.4 119.4
C5' C7' N3 109.0 107.7
C5' C7' H7'1 112.4 109.8
C5' C7' H7'2 112.4 109.8
N3 C7' H7'1 112.4 109.9
N3 C7' H7'2 112.4 109.8
C7' N3 C4 121.2 126.3
H7'1 C7' H7'2 98.1 109.8
N3 C4 CM4 118.3 118.5
N3 C4 C5 114.3 123.0
CM4 C4 C5 127.4 118.5
C4 CM4 HM41 109.0 109.5
C4 CM4 HM42 118.2 109.5
C4 CM4 HM43 109.0 109.5
C4 C5 C6 120.9 128.1
C4 C5 S1 115.4 103.9
HM41 CM4 HM42 109.1 109.5
HM41 CM4 HM43 101.0 109.5
HM42 CM4 HM43 109.0 109.5
C6 C5 S1 123.6 127.9
C5 C6 C7 120.2 109.5
C5 C6 H61 108.4 109.5
C5 C6 H62 108.4 109.5
C7 C6 H61 108.4 109.5
C7 C6 H62 108.4 109.5
C6 C7 O7 120.8 109.5
C6 C7 H71 108.2 109.5
C6 C7 H72 108.2 109.5
H61 C6 H62 101.6 109.5
O7 C7 H71 108.2 109.4
O7 C7 H72 108.2 109.5
C7 O7 PA 138.7 106.8
H71 C7 H72 101.8 109.4
O7 PA O2A 104.7 109.5
O7 PA O3A 102.3 109.5
O7 PA O1A 100.8 109.5
O2A PA O3A 121.4 109.5
O2A PA O1A 113.2 109.4
PA O2A H2A 104.7 106.8
O3A PA O1A 111.3 109.5
PA O1A PB 132.9 106.8
O1A PB O1B 101.7 109.5
O1A PB O2B 105.7 109.5
O1A PB O3B 104.4 109.4
O1B PB O2B 115.3 109.5
O1B PB O3B 116.9 109.5
PB O1B H1B 101.7 106.8
O2B PB O3B 111.1 109.5
PB O2B H2B 105.7 106.8

Torsion Angles for HE3

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
H91 C9 C8 H92 234.8 240.0
H91 C9 C8 H93 109.5 120.0
H92 C9 C8 H93 234.7 240.0
O9 C8 C9 C2 130.4 120.0
O9 C8 C9 H8 237.9 240.0
C9 C8 O9 HO9 180.0 300.0
C2 C8 C9 H8 107.5 120.0
C9 C8 C2 N4' 180.1 300.7
C9 C8 C2 N3 56.5 180.6
C9 C8 C2 S1 292.4 66.0
C8 C9 H91 H92 110.2 120.0
C8 C9 H91 H93 235.1 240.0
H91 C9 C8 O9 54.8 60.0
H91 C9 C8 C2 284.3 300.0
H91 C9 C8 H8 176.9 180.0
H92 C9 H91 H93 124.9 120.0
C8 C9 H92 H91 234.7 240.0
C8 C9 H92 H93 125.2 120.0
H92 C9 C8 O9 180.0 180.0
H92 C9 C8 C2 49.6 60.0
H92 C9 C8 H8 302.1 300.0
H91 C9 H92 H93 250.5 240.0
C8 C9 H93 H91 124.9 120.0
C8 C9 H93 H92 249.8 240.0
H93 C9 C8 O9 305.2 300.0
H93 C9 C8 C2 174.8 180.0
H93 C9 C8 H8 67.4 60.0
H91 C9 H93 H92 124.9 120.0
O9 C8 C9 H91 54.8 60.0
O9 C8 C9 H92 180.0 180.0
O9 C8 C9 H93 305.2 300.0
C9 C8 O9 C2 235.2 240.0
C9 C8 O9 H8 128.1 120.0
C2 C8 O9 H8 252.9 240.0
O9 C8 C2 N4' 67.7 180.7
O9 C8 C2 N3 304.0 60.5
O9 C8 C2 S1 179.9 305.9
C2 C8 C9 H91 284.3 300.0
C2 C8 C9 H92 49.6 60.0
C2 C8 C9 H93 174.8 180.0
C9 C8 C2 O9 112.5 120.0
C9 C8 C2 H8 233.0 240.0
O9 C8 C2 H8 120.6 120.0
C2 C8 O9 HO9 304.8 60.0
N4' C2 C8 N3 123.6 120.2
N4' C2 C8 S1 247.8 234.8
C8 C2 N4' C4' 236.7 278.3
C8 C2 N4' H4' 111.4 98.3
N3 C2 C8 S1 124.1 114.6
C8 C2 N3 C7' 82.7 65.1
C8 C2 N3 C4 212.6 243.5
C8 C2 S1 C5 144.6 117.9
H8 C8 C9 H91 176.9 180.0
H8 C8 C9 H92 302.1 300.0
H8 C8 C9 H93 67.4 60.0
C9 C8 H8 O9 250.1 240.0
C9 C8 H8 C2 122.1 120.0
O9 C8 H8 C2 232.0 240.0
H8 C8 O9 HO9 52.0 180.0
H8 C8 C2 N4' 307.1 60.7
H8 C8 C2 N3 183.5 300.5
H8 C8 C2 S1 59.3 185.9
HO9 O9 C8 C2 304.8 60.0
HO9 O9 C8 H8 52.0 180.0
N4' C2 C8 H8 307.1 60.7
C8 C2 N4' N3 247.9 235.4
C8 C2 N4' S1 109.5 127.3
N3 C2 N4' S1 221.6 251.9
N4' C2 N3 C7' 333.8 300.8
N4' C2 N3 C4 103.7 119.1
N4' C2 S1 C5 249.5 245.1
C4' N4' C2 H4' 125.3 180.0
C2 N4' C4' N3' 204.6 162.3
C2 N4' C4' C5' 24.4 342.3
N3 C2 C8 H8 183.5 300.5
C8 C2 N3 N4' 108.9 124.3
C8 C2 N3 S1 243.9 238.4
N4' C2 N3 S1 135.0 114.0
N3 C2 N4' C4' 348.8 42.9
N3 C2 N4' H4' 223.5 222.9
N3 C2 S1 C5 29.0 356.2
C5' C7' N3 C2 49.1 44.0
C2 N3 C7' H7'1 174.4 284.4
C2 N3 C7' H7'2 283.8 163.5
C7' N3 C2 C4 230.1 181.6
C2 N3 C4 CM4 197.7 175.3
C2 N3 C4 C5 18.0 355.3
S1 C2 C8 H8 59.3 185.9
C8 C2 S1 N4' 255.1 232.8
C8 C2 S1 N3 115.6 121.8
N4' C2 S1 N3 220.6 248.9
S1 C2 N4' C4' 127.2 151.0
S1 C2 N4' H4' 1.9 331.1
S1 C2 N3 C7' 198.8 186.8
S1 C2 N3 C4 328.7 5.1
C4 C5 S1 C2 344.4 1.8
C6 C5 S1 C2 164.6 182.2
C4' N4' C2 N3 348.8 42.9
C4' N4' C2 S1 127.2 151.0
C2 N4' C4' H4' 234.7 180.0
N3' C4' N4' C5' 180.2 180.0
N4' C4' N3' C2' 179.8 179.8
N4' C4' C5' C6' 180.3 180.3
N4' C4' C5' C7' 0.3 0.6
H4' N4' C2 N3 223.5 222.9
H4' N4' C2 S1 1.9 331.1
C2 N4' H4' C4' 124.9 179.9
H4' N4' C4' N3' 329.9 342.2
H4' N4' C4' C5' 149.7 162.3
N3' C4' N4' H4' 329.9 342.2
N4' C4' N3' C5' 179.8 180.0
N3' C4' C5' C6' 0.1 0.3
N3' C4' C5' C7' 180.0 180.6
C4' N3' C2' CM2 180.0 180.0
C4' N3' C2' N1' 359.8 359.9
C5' C4' N4' H4' 149.7 162.3
N4' C4' C5' N3' 180.2 180.0
C5' C4' N3' C2' 0.1 359.8
N1' C6' C5' C4' 359.9 359.7
C4' C5' C6' H6' 179.9 179.7
C6' C5' C4' C7' 180.1 179.7
C4' C5' C7' N3 322.1 347.4
C4' C5' C7' H7'1 196.9 107.1
C4' C5' C7' H7'2 87.4 227.9
C2' N3' C4' C5' 0.1 359.8
CM2 C2' N3' N1' 180.1 180.0
N3' C2' CM2 HM21 54.7 90.0
N3' C2' CM2 HM22 180.0 210.0
N3' C2' CM2 HM23 305.3 330.0
N3' C2' N1' C6' 0.2 0.1
N3' C2' CM2 N1' 179.9 180.0
CM2 C2' N1' C6' 180.0 180.1
HM21 CM2 C2' HM22 234.7 240.0
HM21 CM2 C2' HM23 109.5 119.9
HM22 CM2 C2' HM23 234.7 240.0
N3' C2' N1' CM2 180.1 180.0
N1' C2' CM2 HM21 234.9 270.0
N1' C2' CM2 HM22 0.1 30.0
N1' C2' CM2 HM23 125.4 150.0
C2' N1' C6' C5' 359.9 0.0
C2' N1' C6' H6' 179.9 180.1
HM21 CM2 C2' N1' 234.9 270.0
C2' CM2 HM21 HM22 128.8 120.0
C2' CM2 HM21 HM23 244.4 240.0
HM22 CM2 HM21 HM23 115.6 120.0
HM22 CM2 C2' N1' 0.1 30.0
C2' CM2 HM22 HM21 234.7 240.0
C2' CM2 HM22 HM23 125.3 120.0
HM21 CM2 HM22 HM23 250.5 240.0
HM23 CM2 C2' N1' 125.4 150.0
C2' CM2 HM23 HM21 115.6 120.0
C2' CM2 HM23 HM22 231.2 240.0
HM21 CM2 HM23 HM22 115.6 120.0
C4' C5' C6' N1' 359.9 359.7
C5' C6' N1' H6' 180.0 180.0
N1' C6' C5' C7' 180.0 179.4
C4' C5' C6' C7' 179.9 180.3
N1' C6' C5' H6' 180.0 180.0
C6' C5' C7' N3 142.1 167.7
C6' C5' C7' H7'1 16.8 287.4
C6' C5' C7' H7'2 267.3 48.2
N1' C6' H6' C5' 180.0 180.0
H6' C6' C5' C7' 360.0 359.4
C2 N3 C7' C5' 49.1 44.0
C4' C5' C7' C6' 180.1 179.7
C7' C5' C6' H6' 360.0 359.4
N3 C7' C5' H7'1 125.3 240.4
N3 C7' C5' H7'2 234.8 119.5
C5' C7' N3 C4 291.9 225.9
H7'1 C7' C5' H7'2 109.5 239.1
C7' N3 C2 S1 198.8 186.8
C2 N3 C7' C4 117.2 178.1
C5' C7' N3 H7'1 234.7 119.6
C5' C7' N3 H7'2 125.3 240.5
H7'1 C7' N3 H7'2 250.5 120.9
C7' N3 C4 CM4 324.2 353.5
C7' N3 C4 C5 144.4 173.5
C5' C7' H7'1 N3 123.4 241.7
C5' C7' H7'1 H7'2 241.7 120.8
N3 C7' H7'1 H7'2 118.3 239.1
H7'1 C7' N3 C4 57.2 106.3
C5' C7' H7'2 N3 236.6 118.2
C5' C7' H7'2 H7'1 118.3 239.1
N3 C7' H7'2 H7'1 241.7 120.9
H7'2 C7' N3 C4 166.6 345.4
C4 N3 C2 S1 328.7 5.1
C2 N3 C4 C7' 233.5 181.8
C4 N3 C7' H7'1 57.2 106.3
C4 N3 C7' H7'2 166.6 345.4
CM4 C4 N3 C5 179.7 179.9
N3 C4 CM4 HM41 54.7 90.0
N3 C4 CM4 HM42 180.0 210.0
N3 C4 CM4 HM43 305.3 330.0
N3 C4 C5 C6 179.5 180.9
N3 C4 C5 S1 359.7 1.2
N3 C4 CM4 C5 180.3 180.1
CM4 C4 C5 C6 359.8 0.9
CM4 C4 C5 S1 180.0 181.3
HM41 CM4 C4 HM42 234.7 240.0
HM41 CM4 C4 HM43 109.5 120.0
HM42 CM4 C4 HM43 234.8 240.0
C2 S1 C5 C4 344.4 1.8
N3 C4 C5 CM4 179.7 179.9
C5 C4 CM4 HM41 234.4 270.0
C5 C4 CM4 HM42 359.7 29.9
C5 C4 CM4 HM43 125.0 150.0
C6 C5 C4 S1 179.8 179.6
C4 C5 C6 C7 268.7 95.0
C4 C5 C6 H61 143.4 215.0
C4 C5 C6 H62 34.0 335.0
HM41 CM4 C4 C5 234.4 270.0
C4 CM4 HM41 HM42 130.5 120.0
C4 CM4 HM41 HM43 245.2 240.0
HM42 CM4 HM41 HM43 114.8 120.0
HM42 CM4 C4 C5 359.7 29.9
C4 CM4 HM42 HM41 234.7 240.0
C4 CM4 HM42 HM43 125.3 120.0
HM41 CM4 HM42 HM43 250.5 240.0
HM43 CM4 C4 C5 125.0 150.0
C4 CM4 HM43 HM41 114.8 120.0
C4 CM4 HM43 HM42 229.6 240.0
HM41 CM4 HM43 HM42 114.8 120.0
C2 S1 C5 C6 164.6 182.2
C4 C5 C6 S1 180.3 180.5
C7 C6 C5 H61 125.3 240.0
C7 C6 C5 H62 234.7 120.0
C5 C6 C7 O7 179.4 180.0
C5 C6 C7 H71 54.1 300.0
C5 C6 C7 H72 304.6 60.0
H61 C6 C5 H62 109.5 240.0
C4 C5 S1 C6 179.8 179.6
S1 C5 C6 C7 88.4 274.5
S1 C5 C6 H61 323.2 34.5
S1 C5 C6 H62 213.7 154.5
C7 C6 C5 S1 88.4 274.5
C5 C6 C7 H61 234.7 120.0
C5 C6 C7 H62 125.3 240.0
H61 C6 C7 H62 250.5 120.0
O7 C7 C6 H71 125.2 240.0
O7 C7 C6 H72 234.7 120.1
C6 C7 O7 PA 77.2 180.0
H71 C7 C6 H72 109.5 240.0
H61 C6 C5 S1 323.2 34.5
C5 C6 H61 C7 131.9 240.0
C5 C6 H61 H62 246.0 120.0
C7 C6 H61 H62 114.0 240.0
H61 C6 C7 O7 304.6 60.0
H61 C6 C7 H71 179.4 180.0
H61 C6 C7 H72 69.9 300.0
H62 C6 C5 S1 213.7 154.5
C5 C6 H62 C7 228.1 120.0
C5 C6 H62 H61 114.0 240.0
C7 C6 H62 H61 246.0 120.0
H62 C6 C7 O7 54.1 300.0
H62 C6 C7 H71 288.9 60.0
H62 C6 C7 H72 179.4 180.0
O7 C7 C6 H61 304.6 60.0
O7 C7 C6 H62 54.1 300.0
C6 C7 O7 H71 234.8 120.0
C6 C7 O7 H72 125.3 239.9
H71 C7 O7 H72 250.5 119.9
C7 O7 PA O2A 180.1 295.0
C7 O7 PA O3A 307.7 55.0
C7 O7 PA O1A 62.5 175.0
H71 C7 C6 H61 179.4 180.0
H71 C7 C6 H62 288.9 60.0
C6 C7 H71 O7 132.4 240.0
C6 C7 H71 H72 246.2 120.0
O7 C7 H71 H72 113.8 240.0
H71 C7 O7 PA 202.5 60.0
H72 C7 C6 H61 69.9 300.0
H72 C7 C6 H62 179.4 180.0
C6 C7 H72 O7 227.6 120.1
C6 C7 H72 H71 113.8 240.0
O7 C7 H72 H71 246.2 120.0
H72 C7 O7 PA 312.0 300.1
PA O7 C7 H71 202.5 60.0
PA O7 C7 H72 312.0 300.1
O2A PA O7 O3A 232.5 240.0
O2A PA O7 O1A 117.6 119.9
O7 PA O2A H2A 180.0 300.0
O3A PA O7 O1A 245.2 240.0
O7 PA O1A PB 72.7 200.0
O7 PA O2A O3A 114.8 120.1
O7 PA O2A O1A 251.2 240.0
O3A PA O2A O1A 136.5 120.0
O2A PA O1A PB 321.5 80.0
O7 PA O3A O2A 244.0 240.0
O7 PA O3A O1A 106.9 120.0
O2A PA O3A O1A 222.8 240.0
O3A PA O2A H2A 65.2 180.0
O3A PA O1A PB 180.6 320.1
O7 PA O1A O2A 111.2 120.0
O7 PA O1A O3A 252.1 239.9
O2A PA O1A O3A 140.9 120.0
O1A PA O2A H2A 288.8 60.0
PA O1A PB O1B 122.3 79.9
PA O1A PB O2B 243.0 200.0
PA O1A PB O3B 0.3 319.9
H2A O2A PA O3A 65.2 180.0
H2A O2A PA O1A 288.8 60.0
O1B PB O1A O2B 239.3 240.0
O1B PB O1A O3B 122.0 120.0
O1A PB O1B H1B 180.0 60.0
O2B PB O1A O3B 242.7 240.0
O1A PB O2B H2B 180.0 179.9
O1A PB O1B O2B 113.7 120.0
O1A PB O1B O3B 247.1 240.0
O2B PB O1B O3B 133.3 120.0
O1B PB O2B H2B 291.4 300.0
O1A PB O2B O1B 248.6 240.0
O1A PB O2B O3B 112.6 119.9
O1B PB O2B O3B 224.1 240.0
O2B PB O1B H1B 66.3 300.0
O1A PB O3B O1B 111.4 120.0
O1A PB O3B O2B 246.6 240.0
O1B PB O3B O2B 135.2 120.0
O3B PB O1B H1B 292.9 180.0
O3B PB O2B H2B 67.4 60.0
H1B O1B PB O2B 66.3 300.0
H1B O1B PB O3B 292.9 180.0
H2B O2B PB O3B 67.4 60.0