PDB Chemical Component E1X

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 E1X

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
P OP1 1.489 1.501
P OP2 1.483 1.617
P O5' 1.590 1.619
P OP3   1.617
OP2 HOP2 0.949 0.981
O5' C5' 1.422 1.417
N9 C4 1.368 1.358
N9 C8 1.373 1.374
N9 C1' 1.456 1.459
C4 N3 1.336 1.362
C4 C5 1.376 1.362
N3 C2 1.336 1.399
N3 HN3 1.021 1.015
C2 O2 1.363 1.234
C2 N1 1.396 1.442
N1 C10 1.483 1.458
N1 C6 1.412 1.424
C10 C11 1.517 1.491
C10 H101 1.115 1.094
C10 H102 1.116 1.093
C11 H111 1.115 1.096
C11 H112 1.115 1.095
C11 H113 1.115 1.096
O6 C6 1.230 1.226
C6 C5 1.422 1.437
C5 N7 1.389 1.368
N7 C8 1.307 1.320
C8 H8 1.103 1.082
C2' C1' 1.518 1.522
C2' C3' 1.516 1.512
C2' H2' 1.115 1.097
C2' H2'' 1.115 1.094
C5' C4' 1.510 1.523
C5' H5' 1.116 1.090
C5' H5'' 1.115 1.091
C4' O4' 1.446 1.443
C4' C3' 1.524 1.525
C4' H4' 1.116 1.095
O4' C1' 1.413 1.439
C1' H1' 1.115 1.095
C3' O3' 1.427 1.425
C3' H1 1.115 1.093
O3' HO3' 0.951 0.969
OP3 HOP3   0.981

Bond Angles for E1X

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP2 119.8 115.3
OP1 P O5' 108.4 115.0
OP1 P OP3   115.0
OP2 P O5' 108.9 103.7
OP2 P OP3   103.3
P OP2 HOP2 119.7 118.9
O5' P OP3   102.9
P O5' C5' 119.9 118.5
P OP3 HOP3   118.9
O5' C5' C4' 110.6 108.7
O5' C5' H5' 111.8 109.2
O5' C5' H5'' 111.8 109.2
C4 N9 C8 106.4 106.1
C4 N9 C1' 125.1 127.8
N9 C4 N3 132.1 127.7
N9 C4 C5 105.7 106.3
C8 N9 C1' 128.4 126.1
N9 C8 N7 113.0 112.3
N9 C8 H8 125.6 122.1
N9 C1' C2' 116.7 114.3
N9 C1' O4' 108.7 110.0
N9 C1' H1' 104.3 105.9
N3 C4 C5 122.1 126.0
C4 N3 C2 121.1 118.5
C4 N3 HN3 108.0 120.4
C4 C5 C6 119.2 120.9
C4 C5 N7 110.6 111.1
C2 N3 HN3 108.1 121.2
N3 C2 O2 119.6 120.9
N3 C2 N1 120.6 115.8
O2 C2 N1 119.8 123.3
C2 N1 C10 118.1 116.6
C2 N1 C6 119.9 126.7
C10 N1 C6 122.1 116.7
N1 C10 C11 113.3 111.1
N1 C10 H101 110.8 107.8
N1 C10 H102 110.8 107.7
N1 C6 O6 117.5 126.2
N1 C6 C5 117.2 112.2
C11 C10 H101 110.9 110.5
C11 C10 H102 110.9 110.8
C10 C11 H111 113.2 110.9
C10 C11 H112 110.8 110.9
C10 C11 H113 110.8 109.9
H101 C10 H102 99.5 108.8
H111 C11 H112 110.8 109.2
H111 C11 H113 110.9 107.9
H112 C11 H113 99.5 108.0
O6 C6 C5 125.4 121.7
C6 C5 N7 130.3 128.0
C5 N7 C8 104.3 104.2
N7 C8 H8 121.4 125.7
C1' C2' C3' 101.4 101.6
C1' C2' H2' 115.3 110.5
C1' C2' H2'' 115.3 111.7
C2' C1' O4' 106.9 106.7
C2' C1' H1' 106.1 111.7
C3' C2' H2' 115.3 110.0
C3' C2' H2'' 115.3 114.2
C2' C3' C4' 102.4 103.2
C2' C3' O3' 111.0 108.4
C2' C3' H1 113.1 113.7
H2' C2' H2'' 95.2 108.7
C4' C5' H5' 111.8 110.1
C4' C5' H5'' 111.8 110.1
C5' C4' O4' 109.5 108.0
C5' C4' C3' 111.9 112.7
C5' C4' H4' 106.6 109.4
H5' C5' H5'' 98.5 109.6
O4' C4' C3' 105.4 106.8
O4' C4' H4' 113.0 107.7
C4' O4' C1' 109.8 108.7
C3' C4' H4' 110.6 112.0
C4' C3' O3' 109.4 109.6
C4' C3' H1 114.6 114.0
O4' C1' H1' 114.5 108.1
O3' C3' H1 106.5 107.8
C3' O3' HO3' 111.0 106.5

Torsion Angles for E1X

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 O5' 125.7 120.6
OP2 P OP1 OP3   239.9
OP1 P OP2 HOP2 180.0 48.8
O5' P OP1 OP3   119.3
OP1 P O5' C5' 332.1 180.0
OP1 P OP3 HOP3   312.0
OP1 P OP2 O5' 234.5 233.4
OP1 P OP2 OP3   126.3
O5' P OP2 OP3   252.9
OP2 P O5' C5' 200.3 53.2
OP2 P OP3 HOP3   78.5
OP1 P O5' OP2 131.8 126.8
OP1 P O5' OP3   234.2
OP2 P O5' OP3   107.4
O5' P OP2 HOP2 305.4 175.4
O5' P OP3 HOP3   186.1
P O5' C5' C4' 202.7 180.0
P O5' C5' H5' 328.0 300.1
P O5' C5' H5'' 77.4 59.9
OP1 P OP3 OP2   233.5
OP1 P OP3 O5'   125.8
OP2 P OP3 O5'   252.3
OP3 P OP2 HOP2   282.5
OP3 P O5' C5'   305.8
HOP2 OP2 P O5' 305.4 175.4
HOP2 OP2 P OP3   282.5
C5' O5' P OP3   305.8
C4' C5' O5' H5' 234.7 239.9
C4' C5' O5' H5'' 125.3 120.1
O5' C5' C4' O4' 290.1 61.8
O5' C5' C4' C3' 46.5 179.5
O5' C5' C4' H4' 167.6 304.8
H5' C5' O5' H5'' 250.6 240.2
C8 N9 C4 C1' 178.8 180.1
C4 N9 C8 N7 358.8 360.0
C4 N9 C8 H8 178.8 179.8
C4 N9 C1' C2' 124.8 93.6
C4 N9 C1' O4' 245.7 213.6
C4 N9 C1' H1' 8.2 330.1
N3 C4 N9 C5 179.1 179.9
N9 C4 N3 C2 181.1 180.0
N9 C4 N3 HN3 55.8 0.0
N9 C4 C5 C6 179.0 180.0
N9 C4 C5 N7 358.7 359.9
C4 N9 C8 C1' 181.3 179.9
C8 N9 C4 N3 180.5 179.9
C8 N9 C4 C5 1.4 0.0
C8 N9 C1' C2' 306.3 273.5
C8 N9 C1' O4' 67.2 33.5
C8 N9 C1' H1' 189.7 150.0
C5 N7 C8 N9 0.4 360.0
N7 C8 N9 H8 180.0 180.2
C4 N9 C1' C8 178.5 180.1
C1' N9 C4 N3 1.7 359.8
C1' N9 C4 C5 182.7 179.9
C1' N9 C8 N7 177.5 180.1
C1' N9 C8 H8 357.5 359.9
N9 C1' C2' C3' 153.6 154.5
N9 C1' C2' H2' 278.8 37.8
N9 C1' C2' H2'' 28.3 276.7
C2' C1' N9 O4' 239.1 240.0
C2' C1' N9 H1' 116.6 123.5
C4' O4' C1' N9 219.9 218.2
O4' C1' N9 H1' 237.5 243.5
N3 C4 N9 C8 180.5 179.9
N3 C4 N9 C1' 1.7 359.8
N9 C4 N3 C5 181.1 180.1
N3 C4 C5 C6 359.8 0.1
N3 C4 C5 N7 179.6 180.0
C2 N3 C4 HN3 125.3 180.0
C4 N3 C2 O2 180.4 180.1
C4 N3 C2 N1 0.3 0.1
C5 C4 N9 C8 1.4 0.0
C5 C4 N9 C1' 182.7 179.9
N9 C4 C5 N3 179.2 179.9
C5 C4 N3 C2 0.0 359.9
C5 C4 N3 HN3 234.7 179.9
N1 C6 C5 C4 0.1 360.0
O6 C6 C5 C4 180.7 180.1
C6 C5 C4 N7 180.2 180.1
C4 C5 N7 C8 0.5 0.1
C2 N3 C4 C5 0.0 359.9
C4 N3 C2 HN3 234.7 180.0
O2 C2 N3 N1 180.2 179.9
N3 C2 N1 C10 179.8 180.0
N3 C2 N1 C6 359.7 360.0
HN3 N3 C4 C5 234.7 179.9
C4 N3 HN3 C2 132.7 180.0
HN3 N3 C2 O2 305.7 0.0
HN3 N3 C2 N1 125.5 180.1
O2 C2 N3 HN3 305.7 0.0
N3 C2 O2 N1 179.8 180.1
O2 C2 N1 C10 359.6 0.0
O2 C2 N1 C6 179.5 180.0
N1 C2 N3 HN3 125.5 180.1
N3 C2 N1 O2 180.2 179.9
C10 N1 C2 C6 180.1 180.0
C2 N1 C10 C11 181.8 270.0
C2 N1 C10 H101 307.1 31.2
C2 N1 C10 H102 56.6 148.5
C2 N1 C6 O6 179.6 179.9
C2 N1 C6 C5 0.1 360.0
C2 N1 C10 C6 179.9 180.0
C10 N1 C6 O6 359.5 359.9
C10 N1 C6 C5 180.0 180.0
C11 C10 N1 H101 234.7 238.8
C11 C10 N1 H102 125.3 121.5
N1 C10 C11 H111 180.0 298.6
N1 C10 C11 H112 305.3 60.1
N1 C10 C11 H113 54.7 179.4
H101 C10 N1 H102 250.6 242.7
C4 C5 C6 N1 0.1 360.0
C2 N1 C6 C10 180.1 180.0
C6 N1 C10 C11 1.9 90.0
C6 N1 C10 H101 127.2 211.2
C6 N1 C10 H102 236.7 328.5
O6 C6 N1 C5 179.5 179.9
N1 C6 C5 N7 180.4 180.1
C11 C10 N1 C6 1.9 90.0
N1 C10 C11 H101 125.2 119.6
N1 C10 C11 H102 234.8 240.3
H101 C10 C11 H102 109.5 120.7
H111 C11 C10 H112 234.8 238.5
H111 C11 C10 H113 125.3 119.2
H112 C11 C10 H113 250.6 240.7
H101 C10 N1 C6 127.2 211.2
N1 C10 H101 C11 233.4 238.4
N1 C10 H101 H102 116.6 116.6
C11 C10 H101 H102 243.2 238.2
H101 C10 C11 H111 54.8 179.1
H101 C10 C11 H112 180.0 300.5
H101 C10 C11 H113 289.5 59.8
H102 C10 N1 C6 236.7 328.5
N1 C10 H102 C11 126.6 121.8
N1 C10 H102 H101 243.4 243.4
C11 C10 H102 H101 116.8 121.6
H102 C10 C11 H111 305.3 58.4
H102 C10 C11 H112 70.5 179.9
H102 C10 C11 H113 179.9 299.2
H111 C11 C10 H101 54.8 179.1
H111 C11 C10 H102 305.3 58.4
C10 C11 H111 H112 125.2 122.5
C10 C11 H111 H113 234.7 239.6
H112 C11 H111 H113 109.5 117.2
H112 C11 C10 H101 180.0 300.5
H112 C11 C10 H102 70.5 179.9
C10 C11 H112 H111 233.4 237.5
C10 C11 H112 H113 116.7 120.4
H111 C11 H112 H113 243.3 242.9
H113 C11 C10 H101 289.5 59.8
H113 C11 C10 H102 179.9 299.2
C10 C11 H113 H111 126.6 121.0
C10 C11 H113 H112 243.3 239.0
H111 C11 H113 H112 116.7 118.0
C4 C5 C6 O6 180.7 180.1
N1 C6 O6 C5 180.6 180.1
O6 C6 C5 N7 1.0 0.1
C4 C5 C6 N7 179.7 179.9
N1 C6 C5 O6 179.4 179.9
C6 C5 N7 C8 180.3 180.0
N9 C8 N7 C5 0.4 360.0
C4 C5 N7 C6 180.3 180.1
C5 N7 C8 H8 180.4 180.1
N7 C8 N9 C1' 177.5 180.1
N9 C8 N7 H8 180.0 179.8
H8 C8 N9 C1' 357.5 359.9
N9 C8 H8 N7 180.0 180.2
N9 C1' C2' O4' 121.8 121.8
N9 C1' C2' H1' 244.4 239.7
C3' C2' C1' H2' 234.8 116.7
C3' C2' C1' H2'' 125.2 237.8
C1' C2' C3' C4' 323.1 325.2
C1' C2' C3' O3' 79.7 81.3
C1' C2' C3' H1 199.3 201.2
H2' C2' C1' H2'' 250.5 121.1
C4' O4' C1' C2' 346.7 342.7
O4' C1' C2' H1' 122.6 117.9
C1' C2' C3' H2' 125.3 243.0
C1' C2' C3' H2'' 234.8 120.4
C3' C2' C1' O4' 31.7 32.7
C3' C2' C1' H1' 269.2 274.8
H2' C2' C3' H2'' 109.5 237.5
C5' C4' C3' C2' 271.3 267.4
O4' C4' C3' C2' 30.2 25.9
C2' C3' C4' H4' 152.6 143.6
C4' C3' C2' O3' 243.4 243.8
C4' C3' C2' H1 123.8 123.9
O3' C3' C2' H1 240.4 240.1
C2' C3' O3' HO3' 180.0 209.0
C1' C2' H2' C3' 242.3 111.4
C1' C2' H2' H2'' 121.2 237.1
H2' C2' C1' O4' 157.0 276.0
H2' C2' C1' H1' 34.4 158.1
C3' C2' H2' H2'' 238.9 125.7
H2' C2' C3' C4' 197.9 82.2
H2' C2' C3' O3' 314.5 198.4
H2' C2' C3' H1 74.1 318.3
C1' C2' H2'' C3' 117.7 245.4
C1' C2' H2'' H2' 238.8 122.1
H2'' C2' C1' O4' 266.5 154.9
H2'' C2' C1' H1' 143.9 37.0
C3' C2' H2'' H2' 121.1 236.7
H2'' C2' C3' C4' 88.4 204.8
H2'' C2' C3' O3' 205.0 320.9
H2'' C2' C3' H1 324.6 80.8
O5' C5' C4' H5' 125.3 119.6
O5' C5' C4' H5'' 234.7 240.5
C2' C3' C4' C5' 271.3 267.4
H5' C5' C4' H5'' 109.4 120.9
O4' C4' C5' C3' 243.5 242.3
O4' C4' C5' H4' 122.5 117.0
C5' C4' O4' C1' 109.7 116.0
C3' C4' C5' H4' 238.9 234.7
C5' C4' C3' O3' 153.5 152.1
C5' C4' C3' H1 34.1 31.2
O5' C5' H5' C4' 235.4 240.8
O5' C5' H5' H5'' 117.7 119.6
C4' C5' H5' H5'' 242.3 238.8
H5' C5' C4' O4' 164.8 302.2
H5' C5' C4' C3' 281.2 60.0
H5' C5' C4' H4' 42.3 185.3
O5' C5' H5'' C4' 124.6 119.2
O5' C5' H5'' H5' 242.3 240.4
C4' C5' H5'' H5' 117.7 121.2
H5'' C5' C4' O4' 55.4 181.3
H5'' C5' C4' C3' 171.8 299.1
H5'' C5' C4' H4' 292.9 64.3
N9 C1' O4' C4' 219.9 218.2
C2' C1' O4' C4' 346.7 342.7
C2' C3' C4' O4' 30.2 25.9
O4' C4' C5' H5' 164.8 302.2
O4' C4' C5' H5'' 55.4 181.3
C5' C4' O4' C3' 120.5 121.5
C5' C4' O4' H4' 241.4 242.0
C3' C4' O4' H4' 120.9 120.5
O4' C4' C3' O3' 272.4 270.6
O4' C4' C3' H1 153.0 149.7
C4' O4' C1' H1' 103.8 103.1
C4' C3' C2' H2' 197.9 82.2
C4' C3' C2' H2'' 88.4 204.8
C2' C3' C4' O3' 117.8 115.3
C2' C3' C4' H1 237.2 236.3
C3' C4' C5' H5' 281.2 60.0
C3' C4' C5' H5'' 171.8 299.1
C5' C4' C3' O4' 241.1 241.5
C5' C4' C3' H4' 118.7 123.8
O4' C4' C3' H4' 237.6 242.3
C3' C4' O4' C1' 349.2 354.5
O3' C3' C4' H1 119.4 120.9
C4' C3' O3' HO3' 292.2 321.0
H4' C4' C5' H5' 42.3 185.3
H4' C4' C5' H5'' 292.9 64.3
C5' C4' H4' O4' 120.3 117.2
C5' C4' H4' C3' 238.1 234.3
O4' C4' H4' C3' 117.9 117.2
H4' C4' O4' C1' 228.3 234.0
H4' C4' C3' O3' 34.8 28.3
H4' C4' C3' H1 275.4 267.4
N9 C1' O4' C2' 233.2 235.5
N9 C1' O4' H1' 116.1 115.2
O4' C1' C2' C3' 31.7 32.7
O4' C1' C2' H2' 157.0 276.0
O4' C1' C2' H2'' 266.5 154.9
C2' C1' O4' H1' 242.8 239.7
C1' O4' C4' C3' 349.2 354.5
C1' O4' C4' H4' 228.3 234.0
N9 C1' H1' C2' 123.8 125.1
N9 C1' H1' O4' 241.4 242.2
H1' C1' C2' C3' 269.2 274.8
H1' C1' C2' H2' 34.4 158.1
H1' C1' C2' H2'' 143.9 37.0
C2' C1' H1' O4' 117.6 117.1
O3' C3' C2' H2' 314.5 198.4
O3' C3' C2' H2'' 205.0 320.9
C2' C3' O3' C4' 247.8 248.1
C2' C3' O3' H1 123.5 123.5
O3' C3' C4' H4' 34.8 28.3
C4' C3' O3' H1 235.7 235.4
H1 C3' C2' H2' 74.1 318.3
H1 C3' C2' H2'' 324.6 80.8
C2' C3' H1 C4' 116.8 117.9
C2' C3' H1 O3' 237.8 239.8
H1 C3' C4' H4' 275.4 267.4
C4' C3' H1 O3' 121.0 121.9
H1 C3' O3' HO3' 56.5 85.6
HO3' O3' C3' H1 56.5 85.6