PDB Chemical Component 5MU

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 5MU

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.366 1.344
N1 C6 1.383 1.368
N1 C1' 1.475 1.465
C2 N3 1.381 1.345
C2 O2 1.225 1.216
N3 C4 1.386 1.348
N3 HN3 1.020 0.971
C4 C5 1.450 1.415
C4 O4 1.249 1.217
C5 C5M 1.498 1.507
C5 C6 1.348 1.350
C5M H71 1.114 1.091
C5M H72 1.115 1.089
C5M H73 1.116 1.090
C6 H6 1.102 1.079
C1' C2' 1.540 1.545
C1' O4' 1.416 1.444
C1' H1' 1.115 1.090
C2' O2' 1.415 1.429
C2' C3' 1.524 1.545
C2' H2' 1.115 1.090
O2' HO2' 0.950 0.966
C3' C4' 1.519 1.544
C3' O3' 1.430 1.428
C3' H3' 1.115 1.091
C4' O4' 1.459 1.444
C4' C5' 1.507 1.529
C4' H4' 1.114 1.090
O3' HO3' 0.950 0.968
C5' O5' 1.406 1.428
C5' H5' 1.115 1.090
C5' H5'' 1.114 1.090
O5' P 1.587 1.610
P OP1 1.489 1.480
P OP2 1.485 1.611
P OP3 1.639 1.609
OP2 HOP2 0.950 0.967
OP3 HOP3 0.950 0.966

Bond Angles for 5MU

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C6 121.3 120.7
C2 N1 C1' 116.1 119.7
N1 C2 N3 115.3 120.9
N1 C2 O2 121.8 119.5
C6 N1 C1' 122.6 119.6
N1 C6 C5 122.8 119.6
N1 C6 H6 120.0 120.2
N1 C1' C2' 112.9 110.4
N1 C1' O4' 108.1 110.4
N1 C1' H1' 107.1 110.3
N3 C2 O2 122.9 119.6
C2 N3 C4 127.2 120.3
C2 N3 HN3 116.2 119.9
C4 N3 HN3 116.6 119.8
N3 C4 C5 114.1 119.3
N3 C4 O4 119.5 120.4
C5 C4 O4 126.3 120.3
C4 C5 C5M 118.5 120.4
C4 C5 C6 119.2 119.2
C5M C5 C6 122.3 120.4
C5 C5M H71 118.5 109.4
C5 C5M H72 109.0 109.5
C5 C5M H73 109.0 109.5
C5 C6 H6 117.2 120.2
H71 C5M H72 109.0 109.4
H71 C5M H73 108.9 109.4
H72 C5M H73 101.0 109.5
C2' C1' O4' 106.4 104.9
C2' C1' H1' 108.8 110.3
C1' C2' O2' 111.2 110.8
C1' C2' C3' 100.8 104.0
C1' C2' H2' 114.9 110.4
O4' C1' H1' 113.6 110.4
C1' O4' C4' 109.7 105.3
O2' C2' C3' 112.4 110.5
O2' C2' H2' 104.0 110.4
C2' O2' HO2' 111.2 106.8
C3' C2' H2' 113.8 110.6
C2' C3' C4' 100.9 104.1
C2' C3' O3' 113.6 110.6
C2' C3' H3' 113.4 110.6
C4' C3' O3' 112.0 110.6
C4' C3' H3' 114.9 110.5
C3' C4' O4' 102.8 104.8
C3' C4' C5' 115.4 110.5
C3' C4' H4' 109.7 110.3
O3' C3' H3' 102.6 110.4
C3' O3' HO3' 113.5 106.8
O4' C4' C5' 108.0 110.4
O4' C4' H4' 116.8 110.4
C5' C4' H4' 104.6 110.3
C4' C5' O5' 109.7 109.5
C4' C5' H5' 112.1 109.5
C4' C5' H5'' 112.1 109.5
O5' C5' H5' 112.1 109.5
O5' C5' H5'' 112.1 109.4
C5' O5' P 120.9 106.8
H5' C5' H5'' 98.3 109.5
O5' P OP1 108.4 109.5
O5' P OP2 107.3 109.4
O5' P OP3 106.0 109.5
OP1 P OP2 120.0 109.4
OP1 P OP3 110.8 109.5
OP2 P OP3 103.4 109.4
P OP2 HOP2 107.3 106.8
P OP3 HOP3 106.0 106.8

Torsion Angles for 5MU

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C6 N1 C2 C1' 179.2 180.1
C2 N1 C6 C5 359.6 359.9
C2 N1 C6 H6 179.6 180.0
C2 N1 C1' C2' 86.4 301.6
C2 N1 C1' O4' 203.9 57.1
C2 N1 C1' H1' 326.6 179.4
N3 C2 N1 O2 179.7 180.1
N1 C2 N3 C4 359.9 359.7
N1 C2 N3 HN3 179.9 180.0
C2 N1 C6 C1' 180.8 179.9
C6 N1 C2 N3 359.8 0.1
C6 N1 C2 O2 180.1 180.1
C6 N1 C1' C2' 267.2 121.5
C6 N1 C1' O4' 24.7 237.0
C6 N1 C1' H1' 147.4 359.3
C4 C5 C6 N1 1.2 0.3
C5M C5 C6 N1 182.1 180.0
C5 C6 N1 H6 180.0 179.9
C2 N1 C1' C6 179.2 180.1
C1' N1 C2 N3 180.6 180.0
C1' N1 C2 O2 0.9 360.0
C1' N1 C6 C5 178.8 180.0
C1' N1 C6 H6 358.8 0.1
C2' C1' N1 O4' 242.5 244.5
C2' C1' N1 H1' 119.8 122.2
N1 C1' C2' O2' 210.9 261.5
N1 C1' C2' C3' 91.5 142.7
N1 C1' C2' H2' 328.6 24.1
O4' C1' N1 H1' 237.2 237.8
N1 C1' O4' C4' 239.5 200.7
N3 C2 N1 C6 359.8 0.1
N3 C2 N1 C1' 180.6 180.0
N1 C2 N3 O2 180.3 179.9
C4 N3 C2 HN3 180.0 179.7
C2 N3 C4 C5 0.9 0.5
C2 N3 C4 O4 178.7 180.0
O2 C2 N1 C6 180.1 180.1
O2 C2 N1 C1' 0.9 360.0
N1 C2 O2 N3 179.7 180.1
O2 C2 N3 C4 179.6 179.7
O2 C2 N3 HN3 359.6 0.0
C4 N3 C2 O2 179.6 179.7
C2 N3 C4 HN3 180.0 180.3
C5 C4 N3 O4 182.2 180.5
N3 C4 C5 C5M 177.7 179.8
N3 C4 C5 C6 358.6 359.5
HN3 N3 C2 O2 359.6 0.0
C2 N3 HN3 C4 180.0 179.7
HN3 N3 C4 C5 180.9 180.2
HN3 N3 C4 O4 358.7 359.7
N1 C6 C5 C4 1.2 0.3
C5 C4 N3 HN3 180.9 180.2
N3 C4 C5 O4 177.6 179.5
C5M C5 C4 C6 179.1 180.3
C4 C5 C5M H71 180.0 359.7
C4 C5 C5M H72 305.3 119.7
C4 C5 C5M H73 54.7 239.8
C4 C5 C6 H6 181.2 180.2
O4 C4 N3 HN3 358.7 359.7
N3 C4 O4 C5 182.5 180.5
O4 C4 C5 C5M 0.1 0.3
O4 C4 C5 C6 181.0 180.0
N1 C6 C5 C5M 182.1 180.0
C5M C5 C4 O4 0.1 0.3
C4 C5 C5M C6 180.9 179.7
C5M C5 C6 H6 2.1 359.9
H71 C5M C5 H72 234.6 240.0
H71 C5M C5 H73 125.2 119.9
H72 C5M C5 H73 250.6 239.9
C5 C6 N1 C1' 178.8 180.0
N1 C6 C5 H6 180.0 180.1
C6 C5 C4 O4 181.0 180.0
C4 C5 C6 C5M 179.1 180.3
C6 C5 C5M H71 359.0 180.0
C6 C5 C5M H72 124.4 300.0
C6 C5 C5M H73 233.8 60.1
H71 C5M C5 C6 359.0 180.0
C5 C5M H71 H72 125.4 120.0
C5 C5M H71 H73 234.7 240.0
H72 C5M H71 H73 109.4 120.0
H72 C5M C5 C6 124.4 300.0
C5 C5M H72 H71 229.3 240.0
C5 C5M H72 H73 114.7 120.1
H71 C5M H72 H73 245.4 240.1
H73 C5M C5 C6 233.8 60.1
C5 C5M H73 H71 130.7 119.9
C5 C5M H73 H72 245.3 239.9
H71 C5M H73 H72 114.7 120.0
H6 C6 N1 C1' 358.8 0.1
N1 C6 H6 C5 180.0 179.9
N1 C1' C2' O4' 118.4 118.9
N1 C1' C2' H1' 241.2 237.8
O4' C1' C2' H1' 122.8 118.9
C2' C1' O4' C4' 1.1 319.6
O2' C2' C1' C3' 119.4 118.8
O2' C2' C1' H2' 242.2 237.4
C1' C2' O2' HO2' 180.0 183.9
C3' C2' C1' H2' 122.8 118.6
C1' C2' C3' C4' 41.2 0.1
C1' C2' C3' O3' 161.2 118.8
C1' C2' C3' H3' 277.8 241.4
N1 C1' O4' C2' 238.4 241.1
N1 C1' O4' H1' 118.7 122.2
C2' C1' O4' H1' 240.3 241.2
O4' C1' C2' O2' 92.4 142.6
O4' C1' C2' C3' 333.0 23.9
O4' C1' C2' H2' 210.2 265.2
C3' C4' O4' C1' 25.5 40.4
C1' O4' C4' C5' 147.9 159.5
C1' O4' C4' H4' 265.4 281.7
N1 C1' H1' C2' 122.4 122.3
N1 C1' H1' O4' 240.7 237.8
C2' C1' H1' O4' 118.3 115.5
H1' C1' C2' O2' 329.7 23.7
H1' C1' C2' C3' 210.3 265.0
H1' C1' C2' H2' 87.4 146.4
H1' C1' O4' C4' 120.8 78.4
O2' C2' C1' O4' 92.4 142.6
O2' C2' C1' H1' 329.7 23.7
C1' C2' O2' C3' 247.8 245.3
C1' C2' O2' H2' 124.2 122.6
C3' C2' O2' H2' 236.4 237.3
O2' C2' C3' C4' 282.7 241.1
O2' C2' C3' O3' 42.7 359.9
O2' C2' C3' H3' 159.3 122.5
C3' C2' C1' O4' 333.0 23.9
C3' C2' C1' H1' 210.3 265.0
C1' C2' C3' O2' 118.5 119.0
C1' C2' C3' H2' 236.4 241.5
O2' C2' C3' H2' 117.9 122.6
C3' C2' O2' HO2' 292.2 298.6
C4' C3' C2' O3' 240.0 241.3
C4' C3' C2' H3' 123.4 118.7
C2' C3' C4' O4' 318.6 336.0
C2' C3' C4' C5' 201.2 217.0
C2' C3' C4' H4' 83.5 94.8
O3' C3' C2' H3' 243.4 237.4
C2' C3' O3' HO3' 180.0 65.3
H2' C2' C1' O4' 210.2 265.2
H2' C2' C1' H1' 87.4 146.4
C1' C2' H2' O2' 238.2 237.1
C1' C2' H2' C3' 115.6 114.5
O2' C2' H2' C3' 237.3 237.4
H2' C2' O2' HO2' 55.8 61.3
H2' C2' C3' C4' 164.8 118.6
H2' C2' C3' O3' 284.8 237.3
H2' C2' C3' H3' 41.4 359.9
HO2' O2' C2' C3' 292.2 298.6
HO2' O2' C2' H2' 55.8 61.3
C1' O4' C4' C3' 25.5 40.4
C4' C3' C2' H2' 164.8 118.6
C2' C3' C4' O3' 121.1 118.8
C2' C3' C4' H3' 237.7 241.3
O3' C3' C4' H3' 116.5 122.5
C4' C3' O3' HO3' 293.5 180.0
O4' C4' C3' C5' 117.4 118.9
O4' C4' C3' H4' 235.1 241.2
C5' C4' C3' H4' 117.7 122.3
C3' C4' C5' O5' 58.0 176.9
C3' C4' C5' H5' 183.3 296.9
C3' C4' C5' H5'' 292.8 57.0
O3' C3' C2' H2' 284.8 237.3
C2' C3' O3' C4' 246.5 245.2
C2' C3' O3' H3' 122.8 122.7
C4' C3' O3' H3' 236.2 237.4
O3' C3' C4' O4' 197.5 217.2
O3' C3' C4' C5' 80.1 98.3
O3' C3' C4' H4' 322.4 336.0
H3' C3' C2' H2' 41.4 359.9
C2' C3' H3' C4' 115.3 114.7
C2' C3' H3' O3' 237.1 237.3
C4' C3' H3' O3' 121.8 122.6
H3' C3' C4' O4' 80.9 94.7
H3' C3' C4' C5' 323.6 335.8
H3' C3' C4' H4' 205.8 213.5
H3' C3' O3' HO3' 57.2 302.6
C4' O4' C1' H1' 120.8 78.4
O4' C4' C3' O3' 197.5 217.2
O4' C4' C3' H3' 80.9 94.7
C3' C4' O4' C5' 237.6 241.0
C3' C4' O4' H4' 120.1 118.8
C5' C4' O4' H4' 242.5 237.8
O4' C4' C5' O5' 303.6 61.4
O4' C4' C5' H5' 68.9 181.5
O4' C4' C5' H5'' 178.4 301.5
C5' C4' C3' O3' 80.1 98.3
C5' C4' C3' H3' 323.6 335.8
C3' C4' C5' O4' 114.4 115.5
C3' C4' C5' H4' 239.4 237.7
O4' C4' C5' H4' 125.1 122.3
O5' C5' C4' H5' 234.8 240.0
O5' C5' C4' H5'' 125.3 120.0
C4' C5' O5' P 192.4 180.0
H5' C5' C4' H5'' 250.5 240.0
H4' C4' C3' O3' 322.4 336.0
H4' C4' C3' H3' 205.8 213.5
C3' C4' H4' O4' 243.6 244.7
C3' C4' H4' C5' 124.3 122.4
O4' C4' H4' C5' 240.7 237.7
H4' C4' C5' O5' 178.6 299.2
H4' C4' C5' H5' 303.8 59.2
H4' C4' C5' H5'' 53.3 179.2
HO3' O3' C3' H3' 57.2 302.6
O5' C5' C4' H4' 178.6 299.2
C4' C5' O5' H5' 125.3 120.0
C4' C5' O5' H5'' 234.7 240.0
H5' C5' O5' H5'' 109.5 120.0
C5' O5' P OP1 155.4 60.0
C5' O5' P OP2 24.4 180.0
C5' O5' P OP3 274.4 300.0
H5' C5' C4' H4' 303.8 59.2
C4' C5' H5' O5' 236.1 240.0
C4' C5' H5' H5'' 118.1 120.0
O5' C5' H5' H5'' 242.0 240.0
H5' C5' O5' P 67.2 60.0
H5'' C5' C4' H4' 53.3 179.2
C4' C5' H5'' O5' 123.9 120.0
C4' C5' H5'' H5' 241.9 240.0
O5' C5' H5'' H5' 118.0 120.0
H5'' C5' O5' P 317.7 300.0
P O5' C5' H5' 67.2 60.0
P O5' C5' H5'' 317.7 300.0
OP1 P O5' OP2 131.0 240.0
OP1 P O5' OP3 241.1 120.1
OP2 P O5' OP3 110.0 240.0
O5' P OP2 HOP2 180.0 180.1
O5' P OP3 HOP3 180.1 300.0
O5' P OP1 OP2 236.3 120.0
O5' P OP1 OP3 115.9 239.9
OP2 P OP1 OP3 239.6 120.0
OP1 P OP2 HOP2 55.7 300.1
OP1 P OP3 HOP3 297.5 180.0
O5' P OP2 OP1 124.3 240.0
O5' P OP2 OP3 248.2 120.0
OP1 P OP2 OP3 124.0 240.0
OP2 P OP3 HOP3 67.3 60.0
O5' P OP3 OP1 242.6 120.1
O5' P OP3 OP2 112.8 240.0
OP1 P OP3 OP2 230.2 120.0
OP3 P OP2 HOP2 291.8 60.1
HOP2 OP2 P OP3 291.8 60.1