PDB Chemical Component J5H

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 J5H

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
SBO CBA 1.843 1.810
SBO CBR 1.842 1.762
CBA CAY 1.570 1.529
CAV CAR 1.397 1.360
CAV CBW 1.409 1.407
CBT CBW 1.399 1.403
CBT CBU 1.405 1.385
CBR OAF 1.206 1.216
CBR CBU 1.534 1.478
CAR CAQ 1.400 1.393
CBW CBV 1.402 1.419
CBU CAT 1.403 1.407
OAD CBP 1.196 1.213
CAQ CAU 1.400 1.361
CBV CAU 1.418 1.406
CBV CAW 1.422 1.407
CAT CAW 1.394 1.358
CBP CBB 1.542 1.507
CBP NBH 1.493 1.347
CAY NBH 1.481 1.466
OAE CBQ 1.195 1.213
CBB CAZ 1.559 1.530
CAB CCF 1.549 1.530
CAZ NBI 1.446 1.465
CBQ NBI 1.485 1.348
CBQ CBZ 1.540 1.507
CAA CCF 1.545 1.530
CCF CBZ 1.566 1.530
CCF CBD 1.563 1.531
CBZ OAK 1.397 1.429
OBK CBD 1.410 1.428
OBK PCI 1.673 1.610
OAP PCI 1.522 1.481
O2' C2' 1.474 1.429
OAI PCI 1.512 1.610
PCI OBN 1.682 1.610
N6 C6 1.436 1.384
C2' C1' 1.671 1.554
C2' C3' 1.288 1.548
C6 C5 1.413 1.405
C6 N1 1.333 1.329
N7 C5 1.346 1.355
N7 C8 1.321 1.302
C5 C4 1.390 1.406
N1 C2 1.339 1.321
C8 N9 1.334 1.363
OAN PCG 1.515 1.480
N9 C4 1.358 1.372
N9 C1' 1.429 1.465
C4 N3 1.353 1.329
C2 N3 1.336 1.316
C1' O4' 1.302 1.443
O3' C3' 1.496 1.429
O3' PCG 1.647 1.610
OBN PCH 1.680 1.610
C3' C4' 1.589 1.541
OAG PCG 1.513 1.611
PCG OAM 1.517 1.609
OAO PCH 1.524 1.480
O4' C4' 1.551 1.438
PCH O5' 1.705 1.609
PCH OAH 1.515 1.611
C4' C5' 1.419 1.530
O5' C5' 1.448 1.429
CBT H1 1.080 1.080
CAV H2 1.080 1.080
CAR H3 1.080 1.080
CAQ H4 1.080 1.081
CAU H5 1.080 1.080
CAW H6 1.080 1.080
CAT H7 1.080 1.080
CBA H8 1.099 1.090
CBA H9 1.100 1.089
CAY H10 1.100 1.090
CAY H11 1.100 1.090
NBH H12 1.000 0.970
CBB H13 1.100 1.089
CBB H14 1.100 1.090
CAZ H15 1.100 1.090
CAZ H16 1.100 1.090
NBI H17 1.000 0.971
CBZ H18 1.100 1.090
OAK H19 0.950 0.966
CAA H20 1.100 1.091
CAA H21 1.100 1.090
CAA H22 1.100 1.090
CAB H23 1.100 1.090
CAB H24 1.100 1.089
CAB H25 1.100 1.090
CBD H26 1.100 1.091
CBD H27 1.100 1.090
OAI H28 0.950 0.967
OAH H29 0.951 0.967
C5' H30 1.100 1.091
C5' H31 1.100 1.090
C4' H32 1.100 1.090
C3' H33 1.100 1.090
OAM H34 0.950 0.967
OAG H35 0.950 0.967
C2' H36 1.100 1.090
O2' H37 0.950 0.967
C1' H38 1.100 1.090
C8 H39 1.080 1.080
C2 H40 1.080 1.080
N6 H41 1.000 0.971
N6 H42 1.000 0.970

Bond Angles for J5H

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
SBO CBA CAY 108.8 109.5
SBO CBA H8 109.6 109.4
SBO CBA H9 109.6 109.5
CBA CAY NBH 109.0 109.5
CAY CBA H8 109.6 109.5
CAY CBA H9 109.6 109.5
CBA CAY H10 109.6 109.5
CBA CAY H11 109.6 109.5
CAV CAR CAQ 120.4 121.0
CAR CAV H2 120.7 120.2
CAV CAR H3 119.8 119.5
CAV CBW CBV 121.6 119.3
CBW CBT CBU 118.7 119.5
CBT CBW CBV 119.4 119.5
CBW CBT H1 120.7 120.2
CBT CBU CAT 122.7 120.5
CBU CBT H1 120.6 120.3
CAR CAQ CAU 121.2 121.0
CAQ CAR H3 119.8 119.6
CAR CAQ H4 119.4 119.5
CBW CBV CAU 119.2 119.3
CBW CBV CAW 121.0 119.7
CBU CAT H7 120.9 119.6
OAD CBP CBB 118.3 119.9
CAU CAQ H4 119.4 119.4
CAQ CAU H5 120.5 120.2
CBV CAU H5 120.5 120.1
CBV CAW H6 120.2 120.0
CAT CAW H6 120.2 119.9
CBP CBB CAZ 113.7 109.5
CBP CBB H13 108.4 109.5
CBP CBB H14 108.4 109.4
CBP NBH H12 120.3 120.0
NBH CAY H10 109.6 109.4
NBH CAY H11 109.6 109.4
CAY NBH H12 120.3 120.0
OAE CBQ CBZ 121.8 120.0
CBB CAZ NBI 108.3 109.5
CAZ CBB H13 108.4 109.5
CAZ CBB H14 108.4 109.4
CBB CAZ H15 109.8 109.5
CBB CAZ H16 109.8 109.4
CAB CCF CBD 106.9 109.5
NBI CAZ H15 109.8 109.5
NBI CAZ H16 109.8 109.5
CAZ NBI H17 119.7 120.0
CBQ NBI H17 119.7 120.0
CBQ CBZ OAK 110.1 109.5
CBQ CBZ H18 106.0 109.5
CAA CCF CBD 108.6 109.4
CCF CBZ H18 105.8 109.4
CCF CBD H26 109.8 109.4
CCF CBD H27 109.8 109.5
OAK CBZ H18 107.8 109.5
CBZ OAK H19 109.5 114.0
OBK CBD H26 109.7 109.5
OBK CBD H27 109.7 109.5
OBK PCI OBN 105.4 109.5
OAP PCI OBN 108.1 109.5
O2' C2' C1' 110.9 110.9
O2' C2' H36 107.7 110.8
OAI PCI OBN 111.1 109.4
PCI OBN PCH 126.7 134.1
C1' C2' H36 105.6 110.9
C2' C1' H38 107.1 110.6
C2' C3' H33 114.2 110.5
N7 C5 C4 107.2 107.1
N7 C8 H39 125.1 125.0
N9 C4 C5 106.4 106.0
C5 C4 N3 119.7 119.0
N1 C2 H40 119.5 118.8
C8 N9 C4 108.0 107.5
N9 C4 N3 133.8 135.0
N9 C1' H38 110.2 110.7
O3' C3' H33 110.7 110.4
O3' PCG OAM 110.0 109.5
OBN PCH O5' 108.4 109.5
OBN PCH OAH 105.8 109.4
C3' C4' H32 108.0 109.9
PCG OAM H34 109.5 114.1
OAO PCH O5' 110.8 109.5
OAO PCH OAH 109.3 109.4
O4' C4' H32 108.4 109.9
OAH PCH O5' 110.9 109.5
PCH O5' C5' 117.5 123.0
PCH OAH H29 109.5 113.9
C4' C5' H30 108.1 109.5
C4' C5' H31 108.1 109.4
O5' C5' H30 108.2 109.5
O5' C5' H31 108.2 109.5
H8 CBA H9 109.5 109.5
H10 CAY H11 109.5 109.5
H13 CBB H14 109.5 109.5
H15 CAZ H16 109.5 109.5
H20 CAA H21 109.5 109.5
H20 CAA H22 109.5 109.4
H21 CAA H22 109.5 109.5
H23 CAB H24 109.5 109.5
H23 CAB H25 109.4 109.5
H24 CAB H25 109.5 109.5
H26 CBD H27 109.5 109.5
H30 C5' H31 109.5 109.5
H41 N6 H42 109.5 120.0

Torsion Angles for J5H

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
SBO CBA CAY NBH 303.7 180.0
CAY CBA SBO H8 240.1 240.0
CAY CBA SBO H9 119.9 120.1
SBO CBA CAY H10 63.6 299.9
SBO CBA CAY H11 183.7 60.0
H8 CBA SBO H9 239.8 240.0
SBO CBA CAY H8 119.9 120.0
SBO CBA CAY H9 240.1 240.0
NBH CAY CBA H10 240.1 240.0
NBH CAY CBA H11 119.9 119.9
CBA CAY NBH H12 106.9 0.0
H8 CBA CAY H9 120.2 120.0
H10 CAY CBA H11 239.9 239.9
CAR CAV CBW CBV 0.8 360.0
CAV CAR CAQ CAU 0.3 0.0
CAQ CAR CAV H3 180.0 180.1
CAV CAR CAQ H4 180.3 180.0
CAV CBW CBT CBU 178.9 180.0
CBT CBW CAV CBV 177.4 180.0
CAV CBW CBT H1 358.9 359.8
CAV CBW CBV CAU 0.3 360.0
CAV CBW CBV CAW 181.7 180.0
CAV CBW CBT CBV 182.6 180.0
CBW CBT CBU CAT 4.2 359.9
CBU CBT CBW H1 180.0 180.3
CBT CBW CBV CAU 182.9 180.0
CBT CBW CBV CAW 4.3 0.0
CBU CBT CBW CBV 356.3 0.0
CBW CBT CBU H1 180.0 179.7
CBT CBU CAT H7 174.9 180.1
CBR CBU CBT H1 0.2 0.3
CBR CBU CAT H7 359.1 359.9
CAQ CAR CAV H2 179.0 180.0
CAV CAR CAQ H3 180.0 179.9
CAU CAQ CAR H4 180.0 180.0
CAR CAQ CAU H5 180.8 179.9
CBV CBW CBT CBU 356.3 0.0
CBV CBW CBT H1 176.4 179.7
CBW CBV CAU H5 178.9 180.1
CBW CBV CAW H6 174.8 180.0
CAT CBU CBT H1 184.1 180.1
CBU CAT CAW H6 185.4 179.9
OAD CBP CBB CAZ 315.0 360.0
OAD CBP CBB H13 75.6 120.0
OAD CBP CBB H14 194.4 240.0
OAD CBP NBH H12 178.1 180.0
CAU CAQ CAR H3 180.3 180.1
CAR CAQ CAU H4 180.0 180.0
CBW CBV CAU CAQ 358.9 0.0
CBV CAU CAQ H5 180.0 180.0
CBW CBV CAU CAW 181.4 180.0
CBV CAU CAQ H4 180.8 180.0
CAQ CAU CBV H5 180.0 180.0
CBW CBV CAW CAU 178.6 180.0
CAW CBV CAU H5 357.5 0.0
CAT CAW CBV H6 180.0 180.0
CBT CBU CAT CAW 355.0 0.2
CBV CAW CAT H6 180.0 180.0
CBB CBP NBH H12 359.9 360.0
CBP CBB CAZ NBI 209.6 180.0
CAZ CBB CBP H13 239.4 239.9
CAZ CBB CBP H14 120.6 120.0
CBP CBB CAZ H15 329.4 300.0
CBP CBB CAZ H16 89.8 60.0
H13 CBB CBP H14 241.2 240.0
CBP NBH CAY H10 166.9 60.0
CBP NBH CAY H11 46.8 300.0
CAY NBH CBP H12 180.0 180.0
NBH CAY CBA H8 183.8 60.0
NBH CAY CBA H9 63.6 300.0
CBA CAY NBH H10 119.9 120.0
CBA CAY NBH H11 240.1 240.0
CBP NBH CAY H12 180.0 180.0
H10 CAY NBH H11 120.2 120.0
OAE CBQ NBI H17 177.8 174.9
OAE CBQ CBZ OAK 187.2 191.8
OAE CBQ CBZ H18 303.5 311.8
CBP CBB CAZ H13 120.6 120.0
CBP CBB CAZ H14 239.4 240.0
NBI CAZ CBB H15 240.2 240.0
NBI CAZ CBB H16 119.8 120.0
CBB CAZ NBI H17 92.7 360.0
H13 CBB CAZ H14 118.8 120.0
H15 CAZ CBB H16 239.6 240.0
CAA CCF CAB CBD 117.5 240.1
CAB CCF CBZ H18 56.8 174.1
CAB CCF CBD H26 69.3 60.0
CAB CCF CBD H27 189.7 180.0
NBI CAZ CBB H13 89.0 60.0
NBI CAZ CBB H14 330.2 300.0
CBB CAZ NBI H15 119.8 120.0
CBB CAZ NBI H16 240.2 240.0
CBQ NBI CAZ H17 180.0 180.0
H15 CAZ NBI H16 120.4 120.0
CBQ NBI CAZ H15 152.9 60.0
CBQ NBI CAZ H16 32.5 300.0
CAZ NBI CBQ H17 180.0 180.0
CBZ CBQ NBI H17 359.6 354.9
CCF CBZ CBQ H18 116.7 120.0
OAK CBZ CBQ H18 243.7 240.0
CBQ CBZ OAK H19 180.0 300.0
CAB CCF CAA CBD 243.6 120.0
CAA CCF CBZ H18 179.7 54.0
CAA CCF CBD H26 311.2 180.0
CAA CCF CBD H27 71.6 300.0
CBQ CBZ CCF H18 243.2 240.0
OAK CBZ CCF H18 116.8 120.0
CCF CBZ OAK H19 309.2 60.0
CBD CCF CBZ H18 299.5 294.1
OBK CBD CCF H26 240.2 240.0
OBK CBD CCF H27 119.8 120.0
H26 CBD CCF H27 239.6 240.0
CBQ CBZ OAK H18 115.2 120.1
CCF CBZ OAK H18 244.4 240.0
CCF CBD OBK H26 119.8 119.9
CCF CBD OBK H27 240.2 240.0
H26 CBD OBK H27 120.3 120.0
PCI OBK CBD H26 45.7 60.0
PCI OBK CBD H27 285.3 300.0
OAP PCI OBK OBN 116.6 120.0
OAI PCI OBK OBN 240.1 240.0
OBK PCI OBN PCH 189.1 165.0
OBK PCI OAP OBN 245.0 239.9
OAI PCI OAP OBN 122.3 119.9
OAP PCI OBN PCH 70.7 44.9
C1' C2' O2' H36 115.1 123.7
O2' C2' C1' H38 23.1 36.8
O2' C2' C3' H33 88.5 102.3
OBK PCI OAI OBN 116.3 120.0
OAP PCI OAI OBN 239.5 240.1
OAI PCI OBN PCH 308.2 285.0
PCI OBN PCH O5' 252.8 200.0
PCI OBN PCH OAH 133.9 80.0
O2' C2' C1' H36 243.6 236.4
C1' C2' C3' H33 212.0 220.5
N9 C1' C2' H38 238.6 237.0
O3' C3' C2' H33 234.8 237.4
C2' C3' C4' H32 143.4 117.6
C6 N1 C2 H40 179.7 180.4
C5 N7 C8 H39 180.1 180.0
N9 C4 C5 N7 356.7 360.0
N7 C5 C4 N3 179.1 180.2
N7 C8 N9 C4 357.8 360.0
C8 N9 C4 C5 3.4 0.0
N9 C4 C5 N3 177.6 179.8
C8 N9 C4 N3 180.5 179.7
C8 N9 C1' H38 204.8 142.4
OAN PCG OAM H34 0.0 60.0
N7 C5 C4 N9 356.7 360.0
C5 C4 N9 N3 182.9 180.3
C4 N9 C1' H38 33.9 322.1
N9 C1' C2' H36 18.1 37.4
C2' C1' N9 H38 119.6 122.9
N9 C4 N3 C5 183.2 180.3
C1' O4' C4' H32 228.6 266.9
C2' C3' O3' H33 127.2 122.7
O3' C3' C4' H32 26.4 358.7
PCG O3' C3' H33 25.9 2.5
O3' PCG OAM H34 239.4 180.0
OAO PCH OBN O5' 122.2 120.0
OAO PCH OBN OAH 241.2 240.1
OAH PCH OBN O5' 241.0 240.0
OBN PCH O5' C5' 299.5 175.0
OBN PCH OAH H29 239.7 60.1
O4' C4' C3' H32 245.5 240.5
C3' C4' C5' H30 89.4 64.6
C3' C4' C5' H31 207.8 304.7
OAG PCG OAM H34 121.0 300.0
OBN PCH OAO O5' 239.1 240.0
OBN PCH OAO OAH 116.7 119.9
OAH PCH OAO O5' 122.5 120.0
OAO PCH O5' C5' 176.8 55.0
OAO PCH OAH H29 360.0 180.0
C3' C4' O4' H32 114.2 119.5
O4' C4' C5' H30 332.8 306.7
O4' C4' C5' H31 91.3 186.7
OBN PCH O5' OAH 244.3 240.0
OAO PCH O5' OAH 121.6 120.0
O5' PCH OAH H29 122.4 300.0
PCH O5' C5' H30 20.6 300.0
PCH O5' C5' H31 262.1 60.0
OBN PCH OAH O5' 117.3 120.0
OAO PCH OAH O5' 237.6 240.0
OAH PCH O5' C5' 55.2 295.0
O5' C5' C4' H30 239.2 120.0
O5' C5' C4' H31 120.8 240.0
H30 C5' C4' H31 241.5 120.0
C4' C5' O5' H30 120.8 240.0
C4' C5' O5' H31 239.2 120.0
H30 C5' O5' H31 118.5 240.0
CBW CBT H1 CBU 180.0 180.3
H1 CBT CBW CBV 176.4 179.7
H1 CBT CBU CAT 184.1 180.1
H2 CAV CAR CAQ 179.0 180.0
H2 CAV CAR H3 359.0 360.0
H2 CAV CBW CBV 180.8 180.0
CAV CAR H3 CAQ 180.0 180.1
H3 CAR CAV H2 359.0 360.0
H3 CAR CAQ CAU 180.3 180.1
H3 CAR CAQ H4 0.2 0.0
CAR CAQ H4 CAU 180.0 180.0
H4 CAQ CAR H3 0.2 0.0
H4 CAQ CAU H5 0.8 360.0
H5 CAU CAQ H4 0.8 360.0
H7 CAT CAW H6 5.4 360.0
SBO CBA H8 CAY 240.6 240.0
SBO CBA H8 H9 120.3 120.0
H8 CBA CAY NBH 183.8 60.0
CAY CBA H8 H9 239.7 240.0
H8 CBA CAY H10 303.7 180.0
H8 CBA CAY H11 63.8 300.1
SBO CBA H9 CAY 119.4 120.0
SBO CBA H9 H8 239.7 240.0
H9 CBA CAY NBH 63.6 300.0
CAY CBA H9 H8 120.3 120.0
H9 CBA CAY H10 183.5 60.0
H9 CBA CAY H11 303.6 180.1
CBA CAY H10 NBH 240.4 240.0
H10 CAY CBA H8 303.7 180.0
H10 CAY CBA H9 183.5 60.0
CBA CAY H10 H11 120.2 120.1
NBH CAY H10 H11 239.8 240.1
H10 CAY NBH H12 347.0 240.0
CBA CAY H11 NBH 119.6 120.0
H11 CAY CBA H8 63.8 300.1
H11 CAY CBA H9 303.6 180.1
CBA CAY H11 H10 239.8 239.9
NBH CAY H11 H10 120.2 120.0
H11 CAY NBH H12 226.8 120.0
H12 NBH CAY H10 347.0 240.0
H12 NBH CAY H11 226.8 120.0
CBP CBB H13 CAZ 236.2 239.9
CBP CBB H13 H14 118.1 120.0
H13 CBB CAZ NBI 89.0 60.0
CAZ CBB H13 H14 241.9 240.0
H13 CBB CAZ H15 208.8 180.0
H13 CBB CAZ H16 329.2 300.0
CBP CBB H14 CAZ 123.8 120.0
CBP CBB H14 H13 241.9 240.0
H14 CBB CAZ NBI 330.2 300.0
CAZ CBB H14 H13 118.1 120.0
H14 CBB CAZ H15 90.0 60.0
H14 CBB CAZ H16 210.4 180.0
CBB CAZ H15 NBI 241.1 240.0
H15 CAZ CBB H13 208.8 180.0
H15 CAZ CBB H14 90.0 60.0
CBB CAZ H15 H16 120.6 120.0
NBI CAZ H15 H16 239.5 240.0
H15 CAZ NBI H17 332.9 240.0
CBB CAZ H16 NBI 118.9 120.0
H16 CAZ CBB H13 329.2 300.0
H16 CAZ CBB H14 210.4 180.0
CBB CAZ H16 H15 239.4 240.0
NBI CAZ H16 H15 120.5 120.0
H16 CAZ NBI H17 212.5 120.0
H17 NBI CAZ H15 332.9 240.0
H17 NBI CAZ H16 212.5 120.0
CBQ CBZ H18 OAK 242.1 240.0
H18 CBZ OAK H19 64.8 180.0
H19 OAK CBZ H18 64.8 180.0
H20 CAA CCF CBD 296.4 184.4
H21 CAA H20 H22 120.0 120.0
H21 CAA CCF CBD 56.4 304.4
H20 CAA H21 H22 240.0 240.1
H22 CAA CCF CBD 176.4 64.4
H20 CAA H22 H21 120.0 119.9
H23 CAB CCF CBD 62.5 300.0
H24 CAB H23 H25 120.0 120.0
H24 CAB CCF CBD 182.5 60.0
H23 CAB H24 H25 240.0 240.0
H25 CAB CCF CBD 302.5 180.0
H23 CAB H25 H24 120.0 120.0
CCF CBD H26 H27 120.5 120.0
OBK CBD H26 H27 239.5 240.0
CCF CBD H27 H26 239.5 240.0
OBK CBD H27 H26 120.5 120.0
H28 OAI PCI OBN 120.5 299.9
H29 OAH PCH O5' 122.4 300.0
C4' C5' H30 H31 117.6 240.1
O5' C5' H30 H31 242.4 120.0
C4' C5' H31 H30 242.4 120.0
O5' C5' H31 H30 117.6 240.0
H32 C4' C5' H30 214.0 185.7
H32 C4' C5' H31 332.4 65.7
H33 C3' C4' H32 267.0 236.2
O2' C2' H36 C1' 118.6 123.7
H36 C2' C1' H38 139.5 160.4
H36 C2' C3' H33 326.2 338.7
H37 O2' C2' C1' 180.0 61.4
H37 O2' C2' H36 64.9 297.8
H38 C1' C2' H36 139.5 160.4
H39 C8 N9 C4 177.7 180.0