PDB Chemical Component 77Y

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 77Y

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O3' C3' 1.375 1.429
OP1 P 1.483 1.480
C3' C4' 1.510 1.550
C3' C2' 1.490 1.548
C4' C5' 1.465 1.530
C4' O4' 1.433 1.446
C2' C1' 1.614 1.541
C5' O5' 1.445 1.429
P O5' 1.589 1.610
P OP2 1.542 1.610
O4' C1' 1.427 1.438
C1' N1 1.487 1.465
O2 C2 1.222 1.216
N1 C2 1.379 1.344
N1 C6 1.344 1.365
C2 N3 1.332 1.344
C28 C29 1.384 1.388
C28 C27 1.398 1.378
C6 C5 1.406 1.365
C29 C30 1.395 1.367
C27 C14 1.384 1.391
N3 C4 1.322 1.349
C30 C13 1.359 1.395
C5 C4 1.462 1.470
C5 C7 1.455 1.477
C4 O4 1.285 1.218
C1 C7 1.364 1.326
C1 C3 1.482 1.507
C14 C13 1.428 1.407
C14 N15 1.339 1.377
C13 C12 1.428 1.465
C3 N9 1.485 1.464
N15 C16 1.354 1.368
O34 C32 1.244 1.213
C12 C16 1.425 1.342
C12 C33 1.498 1.506
N9 C32 1.303 1.348
C32 C33 1.551 1.507
C6 H1 1.081 1.080
C1 H2 1.080 1.080
C29 H3 1.080 1.080
C28 H4 1.080 1.081
C27 H5 1.080 1.079
C30 H6 1.080 1.080
C3 H7 1.100 1.090
C3 H8 1.100 1.090
C16 H9 1.080 1.080
C33 H10 1.100 1.090
C33 H11 1.100 1.090
N15 H12 1.000 0.970
N9 H13 1.000 0.970
C7 H14 1.080 1.080
N3 H15 1.000 0.970
C1' H16 1.099 1.090
C2' H17 1.100 1.089
C2' H18 1.100 1.090
C3' H19 1.100 1.090
O3' H20 0.951 0.967
C4' H21 1.100 1.090
C5' H22 1.100 1.089
C5' H23 1.100 1.091
OP2 H25 0.950 0.967
P OP3 1.557 1.609
OP3 H27 0.951 0.966

Bond Angles for 77Y

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
O3' C3' C4' 117.9 110.9
O3' C3' H19 109.6 110.8
OP1 P OP2 120.7 109.4
OP1 P OP3 108.5 109.5
C3' C4' C5' 116.4 110.6
C3' C4' O4' 98.8 103.6
C4' C3' H19 107.8 110.9
C3' C4' H21 108.5 110.6
C3' C2' H17 113.3 110.5
C3' C2' H18 113.3 110.6
C4' C5' O5' 109.0 109.5
C5' C4' H21 109.1 110.6
C4' C5' H22 109.6 109.5
C4' C5' H23 109.6 109.5
C2' C1' H16 109.0 109.9
O5' C5' H22 109.6 109.5
O5' C5' H23 109.6 109.4
P OP2 H25 109.5 114.0
OP2 P OP3 105.1 109.5
O4' C1' H16 111.6 109.9
N1 C6 H1 120.8 120.2
C2 N3 H15 119.6 119.8
C28 C29 C30 115.0 120.5
C28 C29 H3 122.5 119.7
C28 C27 C14 122.6 119.7
C27 C28 H4 118.8 119.7
C28 C27 H5 118.7 120.1
C6 C5 C4 115.8 118.3
C6 C5 C7 123.5 120.9
C5 C6 H1 120.9 120.3
C29 C30 C13 123.3 119.7
C30 C29 H3 122.5 119.7
C29 C30 H6 118.3 120.1
C27 C14 C13 114.3 119.3
C27 C14 N15 136.5 133.5
C14 C27 H5 118.7 120.2
C30 C13 C14 122.2 120.0
C30 C13 C12 132.3 134.0
C13 C30 H6 118.4 120.1
C4 C5 C7 120.1 120.9
C5 C4 O4 116.9 120.7
C1 C7 C5 126.8 120.0
C5 C7 H14 116.6 120.0
C3 C1 C7 124.9 120.0
C7 C1 H2 117.6 120.0
C1 C7 H14 116.6 120.0
C1 C3 N9 111.2 109.5
C3 C1 H2 117.6 120.0
C1 C3 H7 109.1 109.4
C1 C3 H8 109.1 109.4
N15 C14 C13 109.1 107.2
C14 C13 C12 105.4 106.0
C14 N15 C16 110.7 109.9
C14 N15 H12 124.7 125.1
C3 N9 C32 117.3 120.0
N9 C3 H7 109.0 109.4
N9 C3 H8 109.1 109.5
C3 N9 H13 121.4 120.0
N15 C16 H9 125.9 125.0
O34 C32 C33 118.2 120.0
C12 C16 H9 126.0 125.0
C12 C33 H10 108.8 109.5
C12 C33 H11 108.8 109.5
C32 C33 H10 108.8 109.4
C32 C33 H11 108.8 109.4
H7 C3 H8 109.4 109.5
H10 C33 H11 109.5 109.5
H17 C2' H18 109.5 110.5
H22 C5' H23 109.5 109.5
P OP3 H27 109.5 114.1

Torsion Angles for 77Y

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O3' C3' C4' C5' 154.3 86.2
O3' C3' C4' O4' 276.8 204.8
C4' C3' O3' H19 236.3 236.3
O3' C3' C4' H21 30.9 323.3
O3' C3' C2' H17 199.6 20.4
O3' C3' C2' H18 325.0 257.8
OP1 P OP2 H25 0.0 299.9
OP2 P OP1 OP3 121.3 120.0
OP1 P OP3 H27 0.0 180.0
O3' C3' C4' H19 124.6 123.6
C4' C3' C2' H17 73.0 262.2
C4' C3' C2' H18 198.4 139.6
C3' C4' C5' O5' 48.4 185.0
C5' C4' C3' H21 123.4 122.8
C3' C4' C5' H22 168.4 305.0
C3' C4' C5' H23 288.5 65.1
C3' C2' C1' H16 278.3 242.4
H17 C2' C3' H18 234.5 122.6
C3' C4' C5' O4' 114.1 114.2
C5' C4' C3' H19 29.7 322.6
C3' C4' C5' H21 236.9 237.1
O5' C5' C4' H22 240.1 240.0
O5' C5' C4' H23 119.9 119.9
H22 C5' C4' H23 239.8 239.9
C3' C4' O4' C5' 235.8 241.4
O4' C4' C3' H19 152.2 81.2
C3' C4' O4' H21 113.3 118.6
C4' O4' C1' H16 96.7 93.2
O4' C1' C2' H16 118.8 119.6
O5' C5' C4' H21 171.6 307.9
C4' C5' O5' H22 119.9 120.1
C4' C5' O5' H23 240.1 240.0
H22 C5' O5' H23 120.2 120.0
P O5' C5' H22 107.0 59.9
P O5' C5' H23 346.8 300.0
OP1 P OP2 OP3 237.1 239.9
OP2 P OP3 H27 229.6 60.0
C2' C1' O4' H16 243.0 240.5
C1' N1 C6 H1 2.9 0.4
O2 C2 N3 H15 359.2 0.3
C2 N1 C6 H1 177.4 179.7
N1 C2 N3 H15 177.6 179.9
C5 C6 N1 H1 180.0 179.7
C28 C29 C30 C13 2.0 359.7
C30 C29 C28 H3 180.0 180.3
C28 C29 C30 H6 182.0 179.7
C27 C28 C29 C30 359.1 0.0
C27 C28 C29 H3 179.1 179.7
C28 C27 C14 C13 1.4 0.3
C28 C27 C14 N15 179.5 180.0
C14 C27 C28 H5 180.0 180.0
N1 C6 C5 H1 180.0 180.3
C4 C5 C6 C7 189.0 180.0
C6 C5 C4 O4 179.8 180.0
C1 C7 C5 C6 335.2 185.6
C6 C5 C7 H14 155.2 5.5
C28 C29 C30 H3 180.0 179.7
C29 C30 C13 C14 358.6 0.5
C29 C30 C13 C12 174.5 180.0
C13 C30 C29 H6 180.0 180.0
C14 C27 C28 H4 179.1 180.0
C28 C27 C14 H5 180.0 180.0
C30 C13 C14 C27 359.7 359.5
N15 C14 C27 C13 178.1 179.7
C27 C14 C13 C12 182.8 179.8
C27 C14 N15 C16 178.3 180.1
C27 C14 N15 H12 358.3 360.0
C13 C30 C29 H3 182.0 180.0
C29 C30 C13 H6 180.0 180.0
C27 C14 C13 C30 359.7 359.5
N15 C14 C13 C30 181.1 179.7
C14 C13 C30 C12 184.1 180.5
C6 C5 C4 C7 171.3 180.0
C4 C5 C6 H1 181.5 179.9
C1 C7 C5 C4 145.8 5.6
C4 C5 C7 H14 325.8 185.5
C6 C5 C7 C4 189.4 180.0
C7 C5 C6 H1 352.5 360.0
C7 C5 C4 O4 8.5 0.0
C3 C1 C7 C5 185.0 174.9
C5 C7 C1 H2 5.0 354.9
C1 C7 C5 H14 180.0 180.1
O4 C4 C5 C7 8.5 0.0
C6 C5 C7 C1 335.2 185.6
C4 C5 C7 C1 145.8 5.6
C5 C7 C1 H14 180.0 179.9
C7 C1 C3 N9 106.0 125.0
C3 C1 C7 H2 180.0 180.0
C7 C1 C3 H7 226.2 245.0
C7 C1 C3 H8 345.7 5.0
C7 C1 C3 H2 180.0 180.0
C3 C1 C7 H14 5.0 355.0
C1 C3 N9 C32 131.3 180.0
N9 C3 C1 H7 239.8 240.1
N9 C3 C1 H8 120.3 120.0
C1 C3 N9 H13 311.2 359.9
H7 C3 C1 H8 240.5 240.0
C27 C14 C13 N15 178.6 179.8
C13 C14 C27 H5 181.5 180.3
C30 C13 C14 C12 176.8 179.6
C14 C13 C30 H6 178.6 180.6
C13 C14 N15 C16 356.4 359.8
C13 C14 N15 H12 176.4 179.7
C27 C14 N15 C13 181.9 180.3
N15 C14 C27 H5 359.5 360.0
C30 C13 C14 N15 181.1 179.7
N15 C14 C13 C12 4.2 0.1
C14 N15 C16 H9 181.5 180.2
C30 C13 C12 C14 183.6 180.4
C12 C13 C30 H6 354.5 0.1
C13 C12 C16 H9 181.2 179.9
C13 C12 C33 H10 50.1 325.0
C13 C12 C33 H11 169.3 205.0
N9 C3 C1 C7 106.0 125.0
N9 C3 C1 H2 286.0 305.0
C1 C3 N9 H7 120.3 119.9
C1 C3 N9 H8 239.7 240.0
H7 C3 N9 H8 119.4 120.1
C16 N15 C14 C13 356.4 359.8
C14 N15 C16 H12 180.0 179.9
C12 C16 N15 H9 180.0 180.1
C3 N9 C32 O34 354.6 359.9
O34 C32 C33 H10 201.1 120.1
O34 C32 C33 H11 82.0 240.0
C30 C13 C12 C16 180.4 180.5
C14 C13 C12 C16 356.8 0.1
C14 N15 C16 C12 1.5 0.3
N15 C16 C12 H9 180.0 179.9
C30 C13 C12 C33 8.9 0.5
C14 C13 C12 C33 185.3 180.1
C33 C12 C16 H9 353.1 359.9
C32 C33 C12 H10 239.6 120.0
C32 C33 C12 H11 120.4 240.0
H10 C33 C12 H11 240.8 120.0
C32 N9 C3 H7 11.0 60.1
C32 N9 C3 H8 251.6 300.0
C3 N9 C32 H13 180.0 179.9
N9 C32 C33 H10 16.5 300.0
N9 C32 C33 H11 257.3 59.9
C3 N9 C32 C33 179.9 180.0
C12 C33 C32 H10 120.4 240.0
C12 C33 C32 H11 239.6 120.0
H10 C33 C32 H11 119.2 240.1
H1 C6 C5 C4 181.5 179.9
H1 C6 C5 C7 352.5 360.0
H2 C1 C7 C5 5.0 354.9
C3 C1 H2 C7 180.0 180.0
H2 C1 C7 H14 185.1 175.0
H2 C1 C3 N9 286.0 305.0
H2 C1 C3 H7 46.2 64.9
H2 C1 C3 H8 165.7 185.0
C28 C29 H3 C30 180.0 180.3
H3 C29 C30 C13 182.0 180.0
H3 C29 C30 H6 2.0 360.0
H4 C28 C29 C30 179.1 180.0
H4 C28 C29 H3 359.2 359.7
H4 C28 C27 C14 179.1 180.0
H4 C28 C27 H5 359.1 0.0
C28 C27 H5 C14 180.0 180.0
H5 C27 C28 H4 359.1 0.0
H5 C27 C14 C13 181.5 180.3
H5 C27 C14 N15 359.5 360.0
C29 C30 H6 C13 180.0 180.0
H6 C30 C29 H3 2.0 360.0
H6 C30 C13 C14 178.6 180.6
H6 C30 C13 C12 354.5 0.1
H7 C3 C1 C7 226.2 245.0
C1 C3 H7 N9 238.4 240.0
H7 C3 C1 H2 46.2 64.9
C1 C3 H7 H8 119.2 120.0
H7 C3 N9 C32 11.0 60.1
N9 C3 H7 H8 240.8 239.9
H7 C3 N9 H13 191.0 240.0
H8 C3 C1 C7 345.7 5.0
C1 C3 H8 N9 121.6 120.0
H8 C3 C1 H2 165.7 185.0
C1 C3 H8 H7 240.8 240.0
H8 C3 N9 C32 251.6 300.0
N9 C3 H8 H7 119.2 120.0
H8 C3 N9 H13 71.5 119.9
C12 C33 H10 H11 118.8 239.9
C32 C33 H10 H11 241.3 119.9
C12 C33 H11 H10 241.2 120.0
C32 C33 H11 H10 118.7 240.1
H12 N15 C14 C13 176.4 179.7
C14 N15 H12 C16 180.0 180.1
H12 N15 C16 H9 1.5 0.3
C3 N9 H13 C32 180.0 180.1
H13 N9 C3 H7 191.0 240.0
H13 N9 C3 H8 71.5 119.9
C1 C7 H14 C5 180.0 179.9
H14 C7 C1 H2 185.1 175.0
C3' C2' H17 H18 127.5 237.3
H17 C2' C1' H16 161.0 1.1
C3' C2' H18 H17 232.5 122.6
H18 C2' C1' H16 35.5 123.6
O3' C3' H19 C4' 230.5 236.3
H19 C3' C4' C5' 29.7 322.6
H19 C3' C4' O4' 152.2 81.2
H19 C3' C4' H21 266.3 199.7
H19 C3' C2' H17 315.6 144.0
H19 C3' C2' H18 81.0 21.4
H20 O3' C3' C4' 180.0 180.0
H20 O3' C3' H19 303.7 303.7
C3' C4' H21 C5' 127.7 122.9
C3' C4' H21 O4' 253.2 245.8
H21 C4' C3' H19 266.3 199.7
H21 C4' C5' O5' 171.6 307.9
H21 C4' C5' H22 291.5 67.9
H21 C4' C5' H23 51.7 188.0
C4' C5' H22 O5' 240.5 240.0
H22 C5' C4' H21 291.5 67.9
C4' C5' H22 H23 120.2 120.1
O5' C5' H22 H23 239.8 240.1
C4' C5' H23 O5' 119.5 120.0
H23 C5' C4' H21 51.7 188.0
C4' C5' H23 H22 239.8 239.9
O5' C5' H23 H22 120.2 119.9
H25 OP2 P OP3 122.9 60.0
OP1 P OP3 OP2 130.4 120.0
OP3 P OP2 H25 122.9 60.0