PDB Chemical Component RMB

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 RMB

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N3 C2 1.338 1.302
N3 C3A 1.382 1.358
N1 C2 1.357 1.360
N1 C7A 1.408 1.380
N1 C1' 1.487 1.465
C2 H21 1.103 1.080
C7A C3A 1.394 1.405
C7A C7 1.407 1.388
C3A C4 1.394 1.397
C4 C5 1.388 1.366
C4 H41 1.103 1.080
C5 C6 1.421 1.387
C5 C8 1.527 1.507
C6 C7 1.390 1.379
C6 H61 1.103 1.080
C7 H71 1.103 1.079
C8 H81 1.114 1.090
C8 H82 1.115 1.090
C8 H83 1.115 1.090
P O1P 1.494 1.480
P O2P 1.496 1.610
P O3P 1.488 1.608
P O5' 1.612 1.610
O2P HOP2 0.949 0.967
O3P HOP3 0.949 0.967
O5' C5' 1.436 1.428
C5' C4' 1.517 1.530
C5' H5'1 1.115 1.090
C5' H5'2 1.115 1.090
C4' O4' 1.465 1.435
C4' C3' 1.509 1.549
C4' H4' 1.115 1.091
O4' C1' 1.416 1.432
C3' O3' 1.432 1.428
C3' C2' 1.538 1.553
C3' H3' 1.115 1.091
O3' HO3' 0.950 0.967
C2' O2' 1.442 1.428
C2' C1' 1.525 1.543
C2' H2' 1.116 1.090
O2' HO2' 0.950 0.967
C1' H1' 1.115 1.091

Bond Angles for RMB

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N3 C3A 105.8 109.6
N3 C2 N1 114.5 110.1
N3 C2 H21 122.1 124.9
N3 C3A C7A 107.6 106.9
N3 C3A C4 131.1 133.6
C2 N1 C7A 103.2 107.3
C2 N1 C1' 128.6 126.3
N1 C2 H21 123.4 125.0
C7A N1 C1' 128.2 126.4
N1 C7A C3A 108.8 106.0
N1 C7A C7 130.9 134.1
N1 C1' O4' 113.7 109.9
N1 C1' C2' 113.1 109.8
N1 C1' H1' 102.2 109.8
C3A C7A C7 120.2 119.8
C7A C3A C4 121.3 119.5
C7A C7 C6 118.8 119.7
C7A C7 H71 121.2 120.1
C3A C4 C5 118.9 119.9
C3A C4 H41 120.7 120.1
C5 C4 H41 120.4 120.0
C4 C5 C6 120.2 120.6
C4 C5 C8 119.2 119.7
C6 C5 C8 120.5 119.7
C5 C6 C7 120.5 120.5
C5 C6 H61 120.9 119.8
C5 C8 H81 119.2 109.5
C5 C8 H82 108.6 109.5
C5 C8 H83 108.7 109.5
C7 C6 H61 118.6 119.8
C6 C7 H71 120.1 120.2
H81 C8 H82 108.8 109.5
H81 C8 H83 108.7 109.5
H82 C8 H83 101.4 109.4
O1P P O2P 119.9 109.4
O1P P O3P 110.3 109.5
O1P P O5' 103.3 109.4
O2P P O3P 114.2 109.5
O2P P O5' 107.0 109.5
P O2P HOP2 119.9 106.8
O3P P O5' 99.4 109.5
P O3P HOP3 110.3 106.8
P O5' C5' 121.0 106.9
O5' C5' C4' 109.4 109.5
O5' C5' H5'1 112.2 109.5
O5' C5' H5'2 112.2 109.4
C4' C5' H5'1 112.2 109.6
C4' C5' H5'2 112.3 109.4
C5' C4' O4' 110.9 110.4
C5' C4' C3' 114.2 110.4
C5' C4' H4' 103.7 110.2
H5'1 C5' H5'2 98.1 109.4
O4' C4' C3' 104.7 105.2
O4' C4' H4' 113.4 110.3
C4' O4' C1' 110.7 110.0
C3' C4' H4' 110.1 110.2
C4' C3' O3' 112.6 111.2
C4' C3' C2' 97.8 101.0
C4' C3' H3' 115.8 111.1
O4' C1' C2' 103.3 107.7
O4' C1' H1' 112.1 109.8
O3' C3' C2' 111.8 111.2
O3' C3' H3' 102.8 110.9
C3' O3' HO3' 112.5 106.9
C2' C3' H3' 116.5 111.1
C3' C2' O2' 107.6 110.8
C3' C2' C1' 103.7 102.2
C3' C2' H2' 114.6 110.9
O2' C2' C1' 110.3 111.0
O2' C2' H2' 108.5 110.7
C2' O2' HO2' 107.6 106.8
C1' C2' H2' 112.0 111.0
C2' C1' H1' 112.7 109.9

Torsion Angles for RMB

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 N3 C3A C7A 359.2 0.0
C2 N3 C3A C4 177.6 180.3
N3 C2 N1 C7A 2.9 0.0
N3 C2 N1 C1' 183.5 180.0
N1 C2 N3 H21 180.0 179.9
C3A N3 C2 N1 358.6 360.0
C3A N3 C2 H21 178.6 180.0
N1 C7A C3A N3 2.6 0.0
N3 C3A C7A C7 180.0 180.0
C7A C3A N3 C4 181.6 179.7
N3 C3A C4 C5 180.5 180.2
N3 C3A C4 H41 0.5 360.0
N1 C2 N3 C3A 358.6 360.0
N3 C2 N1 H21 180.0 180.1
C7A N1 C2 C1' 179.4 180.0
C2 N1 C7A C3A 356.7 360.0
C2 N1 C7A C7 179.7 180.0
C2 N1 C1' O4' 188.8 331.6
C2 N1 C1' C2' 306.3 89.8
C2 N1 C1' H1' 67.7 210.7
N3 C3A C7A N1 2.6 0.0
C2 N1 C7A C1' 180.6 180.0
C7A N1 C2 H21 182.9 180.0
C7A N1 C1' O4' 9.5 151.6
C7A N1 C1' C2' 127.0 269.8
C7A N1 C1' H1' 248.5 30.7
C3A C7A N1 C7 177.0 180.0
N1 C7A C3A C4 184.0 179.7
N1 C7A C7 C6 175.5 180.0
N1 C7A C7 H71 355.5 0.0
C2 N1 C1' C7A 179.3 180.0
C1' N1 C2 H21 3.5 360.0
C1' N1 C7A C3A 176.1 180.0
C1' N1 C7A C7 359.1 360.0
C4' O4' C1' N1 116.0 117.9
O4' C1' N1 C2' 242.5 241.7
O4' C1' N1 H1' 121.0 120.9
C3' C2' C1' N1 268.6 219.2
O2' C2' C1' N1 23.5 337.3
N1 C1' C2' H2' 144.5 100.9
C2' C1' N1 H1' 238.5 239.1
H21 C2 N3 C3A 178.6 180.0
N3 C2 H21 N1 180.0 179.9
H21 C2 N1 C7A 182.9 180.0
H21 C2 N1 C1' 3.5 360.0
N3 C3A C7A C4 178.6 180.3
C3A C7A N1 C1' 176.1 180.0
N1 C7A C3A C7 182.6 180.0
C3A C7A C7 C6 358.8 360.0
C3A C7A C7 H71 178.8 180.0
C7A C3A C4 C5 358.7 0.6
C7A C3A C4 H41 178.7 180.3
C7 C7A N1 C1' 359.1 360.0
N1 C7A C7 C3A 176.7 180.0
C7 C7A C3A C4 1.5 359.7
C5 C6 C7 C7A 0.9 360.0
C7A C7 C6 H61 180.9 180.0
C6 C7 C7A H71 180.0 179.9
N3 C3A C4 C7A 181.8 179.6
C4 C3A C7A C7 1.5 359.7
C5 C4 C3A H41 180.0 180.2
C3A C4 C5 C6 0.9 359.4
C3A C4 C5 C8 180.3 179.8
C3A C4 C5 H41 180.0 179.8
C6 C5 C4 C8 180.6 179.6
C4 C5 C6 C7 359.2 0.3
C4 C5 C6 H61 179.3 180.3
C4 C5 C8 H81 180.0 269.7
C4 C5 C8 H82 305.3 29.7
C4 C5 C8 H83 54.7 149.7
C3A C4 H41 C5 180.0 180.2
H41 C4 C5 C6 180.9 179.7
H41 C4 C5 C8 0.3 0.0
C7A C7 C6 C5 0.9 360.0
C6 C5 C4 H41 180.9 179.7
C4 C5 C6 C8 179.4 180.4
C6 C5 C8 H81 359.4 90.0
C6 C5 C8 H82 124.7 210.1
C6 C5 C8 H83 234.1 330.0
C7 C6 C5 H61 180.0 180.0
C5 C6 C7 H71 180.9 179.9
C8 C5 C4 H41 0.3 0.0
C4 C5 C8 C6 180.6 179.7
C8 C5 C6 C7 179.8 180.0
C8 C5 C6 H61 359.9 360.0
H81 C8 C5 H82 234.7 239.9
H81 C8 C5 H83 125.2 120.0
H82 C8 C5 H83 250.5 240.1
C7A C7 C6 H71 180.0 180.1
C7 C6 C5 C8 179.8 180.0
C5 C6 C7 H61 180.0 180.0
H61 C6 C5 C8 359.9 360.0
C5 C6 H61 C7 180.0 180.0
H61 C6 C7 H71 0.8 360.0
C7A C7 H71 C6 180.0 179.9
H71 C7 C6 H61 0.8 360.0
C5 C8 H81 H82 125.2 120.0
C5 C8 H81 H83 234.8 240.0
H82 C8 H81 H83 109.6 120.0
C5 C8 H82 H81 228.8 240.0
C5 C8 H82 H83 114.3 120.0
H81 C8 H82 H83 245.5 240.0
C5 C8 H83 H81 131.2 120.0
C5 C8 H83 H82 245.7 240.0
H81 C8 H83 H82 114.5 120.0
O2P P O1P O3P 135.7 120.0
O2P P O1P O5' 241.1 240.0
O1P P O2P HOP2 180.0 300.0
O3P P O1P O5' 105.5 120.0
O1P P O3P HOP3 180.0 180.0
O1P P O5' C5' 54.3 60.1
O1P P O2P O3P 225.9 240.0
O1P P O2P O5' 117.0 119.9
O3P P O2P O5' 251.0 239.9
O2P P O3P HOP3 41.6 60.0
O2P P O5' C5' 181.7 180.0
O1P P O3P O2P 138.4 120.0
O1P P O3P O5' 251.9 240.0
O2P P O3P O5' 113.5 120.1
O3P P O2P HOP2 314.1 60.0
O3P P O5' C5' 300.7 300.1
O1P P O5' O2P 232.6 240.1
O1P P O5' O3P 113.6 120.0
O2P P O5' O3P 241.0 239.9
O5' P O2P HOP2 63.0 180.0
O5' P O3P HOP3 288.1 299.9
P O5' C5' C4' 101.4 180.0
P O5' C5' H5'1 226.7 59.9
P O5' C5' H5'2 336.1 300.0
HOP2 O2P P O3P 314.1 60.0
HOP2 O2P P O5' 63.0 180.0
HOP3 O3P P O5' 288.1 299.9
C4' C5' O5' H5'1 234.7 120.1
C4' C5' O5' H5'2 125.3 240.0
O5' C5' C4' O4' 59.2 61.4
O5' C5' C4' C3' 177.3 177.2
O5' C5' C4' H4' 297.1 299.3
H5'1 C5' O5' H5'2 250.6 119.9
O5' C5' C4' H5'1 125.3 239.9
O5' C5' C4' H5'2 234.7 119.9
H5'1 C5' C4' H5'2 109.4 240.0
O4' C4' C5' C3' 241.9 244.1
O4' C4' C5' H4' 122.1 122.1
C5' C4' O4' C1' 102.6 143.5
C3' C4' C5' H4' 240.2 238.0
C5' C4' C3' O3' 159.6 86.5
C5' C4' C3' C2' 277.1 204.6
C5' C4' C3' H3' 41.7 322.5
O5' C5' H5'1 C4' 236.3 120.1
O5' C5' H5'1 H5'2 118.1 240.1
C4' C5' H5'1 H5'2 241.8 120.0
H5'1 C5' C4' O4' 293.9 181.5
H5'1 C5' C4' C3' 52.0 297.3
H5'1 C5' C4' H4' 171.8 59.4
O5' C5' H5'2 C4' 123.7 240.0
O5' C5' H5'2 H5'1 241.9 119.9
C4' C5' H5'2 H5'1 118.2 239.9
H5'2 C5' C4' O4' 184.5 301.4
H5'2 C5' C4' C3' 302.5 57.3
H5'2 C5' C4' H4' 62.3 179.4
N1 C1' O4' C4' 116.0 117.9
O4' C4' C5' H5'1 293.9 181.5
O4' C4' C5' H5'2 184.5 301.4
C5' C4' O4' C3' 123.7 119.1
C5' C4' O4' H4' 243.7 238.0
C3' C4' O4' H4' 120.0 118.9
O4' C4' C3' O3' 281.1 205.6
O4' C4' C3' C2' 38.7 323.7
O4' C4' C3' H3' 163.2 81.5
C4' O4' C1' C2' 353.0 358.3
C4' O4' C1' H1' 231.3 238.7
C3' C4' C5' H5'1 52.0 297.3
C3' C4' C5' H5'2 302.5 57.3
C5' C4' C3' O4' 238.4 240.9
C5' C4' C3' H4' 116.2 122.0
O4' C4' C3' H4' 237.7 241.1
C3' C4' O4' C1' 338.9 24.3
O3' C3' C4' C2' 242.4 241.9
O3' C3' C4' H3' 117.9 124.1
C4' C3' O3' HO3' 180.0 180.0
C2' C3' C4' H3' 235.5 242.1
C4' C3' C2' O2' 200.0 275.7
C4' C3' C2' C1' 316.9 34.0
C4' C3' C2' H2' 79.3 152.3
H4' C4' C5' H5'1 171.8 59.4
H4' C4' C5' H5'2 62.3 179.4
C5' C4' H4' O4' 120.4 122.1
C5' C4' H4' C3' 237.4 237.9
O4' C4' H4' C3' 117.0 115.7
H4' C4' O4' C1' 218.9 265.5
H4' C4' C3' O3' 43.4 324.5
H4' C4' C3' C2' 160.9 82.6
H4' C4' C3' H3' 285.5 200.4
N1 C1' O4' C2' 123.0 119.6
N1 C1' O4' H1' 244.7 239.2
C1' O4' C4' C3' 338.9 24.3
C1' O4' C4' H4' 218.9 265.5
C3' C2' C1' O4' 32.0 338.8
O2' C2' C1' O4' 147.0 96.9
O4' C1' C2' H2' 267.9 220.5
C2' C1' O4' H1' 121.7 119.6
O3' C3' C4' H4' 43.4 324.5
C4' C3' O3' C2' 108.9 111.7
C4' C3' O3' H3' 234.7 235.9
C2' C3' O3' H3' 125.8 124.1
O3' C3' C2' O2' 318.2 33.8
O3' C3' C2' C1' 75.0 152.1
O3' C3' C2' H2' 197.4 270.4
N1 C1' C2' C3' 268.6 219.2
C2' C3' C4' H4' 160.9 82.6
C4' C3' C2' O3' 241.8 241.9
C4' C3' C2' H3' 124.0 117.9
O4' C1' C2' C3' 32.0 338.8
O3' C3' C2' H3' 242.2 236.0
C2' C3' O3' HO3' 71.1 68.3
O2' C2' C3' C1' 243.1 241.7
O2' C2' C3' H2' 120.7 123.4
C3' C2' O2' HO2' 180.1 298.6
C1' C2' C3' H2' 237.6 241.7
C3' C2' C1' H1' 153.3 98.3
H3' C3' C4' H4' 285.5 200.4
C4' C3' H3' O3' 123.2 124.2
C4' C3' H3' C2' 245.8 248.4
O3' C3' H3' C2' 122.7 124.2
H3' C3' O3' HO3' 305.3 304.2
H3' C3' C2' O2' 76.0 157.8
H3' C3' C2' C1' 192.9 276.1
H3' C3' C2' H2' 315.3 34.4
HO3' O3' C3' C2' 71.1 68.3
HO3' O3' C3' H3' 305.3 304.2
N1 C1' C2' O2' 23.5 337.3
O4' C1' C2' O2' 147.0 96.9
O2' C2' C3' H3' 76.0 157.8
C3' C2' O2' C1' 112.5 112.8
C3' C2' O2' H2' 235.5 236.5
C1' C2' O2' H2' 123.1 123.7
O2' C2' C1' H1' 268.2 216.5
N1 C1' C2' O4' 236.6 240.4
N1 C1' C2' H1' 115.3 120.8
O4' C1' C2' H1' 238.8 240.4
C1' C2' C3' H3' 192.9 276.1
C3' C2' C1' O2' 245.1 241.8
C3' C2' C1' H2' 124.1 118.2
O2' C2' C1' H2' 239.0 236.4
C1' C2' O2' HO2' 67.6 185.8
H2' C2' C3' H3' 315.3 34.4
C3' C2' H2' O2' 120.2 123.5
C3' C2' H2' C1' 242.2 247.2
O2' C2' H2' C1' 122.0 123.7
H2' C2' O2' HO2' 304.5 62.0
H2' C2' C1' H1' 29.2 340.1
HO2' O2' C2' C1' 67.6 185.8
HO2' O2' C2' H2' 304.5 62.0
N1 C1' H1' O4' 122.2 120.9
N1 C1' H1' C2' 238.3 239.1
O4' C1' H1' C2' 116.1 118.3
H1' C1' C2' H2' 29.2 340.1