PDB Chemical Component RBF

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 RBF

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
N1 C2 1.390 1.331
N1 C10 1.347 1.323
C2 O2 1.202 1.219
C2 N3 1.371 1.340
N3 C4 1.372 1.353
N3 HN3 1.001 0.971
C4 O4 1.220 1.216
C4 C4A 1.496 1.479
C4A N5 1.281 1.309
C4A C10 1.393 1.473
N5 C5A 1.391 1.339
C5A C6 1.391 1.409
C5A C9A 1.395 1.413
C6 C7 1.365 1.363
C6 HC6 1.080 1.080
C7 C7M 1.518 1.506
C7 C8 1.419 1.391
C7M HC71 1.100 1.091
C7M HC72 1.100 1.090
C7M HC73 1.100 1.090
C8 C8M 1.557 1.507
C8 C9 1.355 1.378
C8M HC81 1.100 1.090
C8M HC82 1.100 1.090
C8M HC83 1.099 1.090
C9 C9A 1.403 1.391
C9 HC9 1.080 1.080
C9A N10 1.375 1.379
N10 C10 1.337 1.362
N10 C1' 1.513 1.465
C1' C2' 1.541 1.530
C1' HC11 1.100 1.090
C1' HC12 1.100 1.089
C2' O2' 1.455 1.429
C2' C3' 1.502 1.530
C2' HC2' 1.100 1.090
O2' HO2' 0.950 0.967
C3' O3' 1.399 1.428
C3' C4' 1.466 1.530
C3' HC3' 1.100 1.090
O3' HO3' 0.950 0.968
C4' O4' 1.409 1.429
C4' C5' 1.586 1.530
C4' HC4' 1.100 1.090
O4' HO4' 0.950 0.967
C5' O5' 1.425 1.430
C5' HC51 1.100 1.090
C5' HC52 1.101 1.089
O5' HO5' 0.950 0.967

Bond Angles for RBF

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C10 126.6 121.5
N1 C2 O2 126.0 118.0
N1 C2 N3 116.2 124.1
N1 C10 C4A 119.2 118.7
N1 C10 N10 124.1 122.3
O2 C2 N3 117.8 118.0
C2 N3 C4 121.6 121.3
C2 N3 HN3 119.2 119.3
C4 N3 HN3 119.2 119.4
N3 C4 O4 124.3 121.4
N3 C4 C4A 120.7 117.1
O4 C4 C4A 114.9 121.5
C4 C4A N5 118.3 122.2
C4 C4A C10 115.7 117.3
N5 C4A C10 126.0 120.5
C4A N5 C5A 115.3 120.7
C4A C10 N10 116.7 119.0
N5 C5A C6 117.4 119.8
N5 C5A C9A 123.8 121.0
C6 C5A C9A 118.8 119.2
C5A C6 C7 119.3 119.9
C5A C6 HC6 120.4 120.0
C5A C9A C9 123.5 119.6
C5A C9A N10 115.0 120.3
C7 C6 HC6 120.4 120.1
C6 C7 C7M 125.5 119.6
C6 C7 C8 119.9 120.7
C7M C7 C8 114.6 119.7
C7 C7M HC71 109.5 109.5
C7 C7M HC72 109.5 109.5
C7 C7M HC73 109.5 109.5
C7 C8 C8M 117.0 119.7
C7 C8 C9 123.2 120.6
HC71 C7M HC72 109.4 109.4
HC71 C7M HC73 109.5 109.5
HC72 C7M HC73 109.5 109.5
C8M C8 C9 119.8 119.7
C8 C8M HC81 109.5 109.5
C8 C8M HC82 109.5 109.5
C8 C8M HC83 109.5 109.4
C8 C9 C9A 115.3 119.9
C8 C9 HC9 122.4 120.0
HC81 C8M HC82 109.5 109.5
HC81 C8M HC83 109.5 109.5
HC82 C8M HC83 109.4 109.4
C9A C9 HC9 122.4 120.1
C9 C9A N10 121.5 120.1
C9A N10 C10 123.1 118.5
C9A N10 C1' 122.1 120.7
C10 N10 C1' 114.8 120.7
N10 C1' C2' 104.8 109.5
N10 C1' HC11 110.7 109.5
N10 C1' HC12 110.6 109.5
C2' C1' HC11 110.6 109.4
C2' C1' HC12 110.6 109.4
C1' C2' O2' 111.0 109.4
C1' C2' C3' 110.7 109.5
C1' C2' HC2' 109.9 109.5
HC11 C1' HC12 109.5 109.5
O2' C2' C3' 103.5 109.5
O2' C2' HC2' 111.1 109.4
C2' O2' HO2' 109.5 114.0
C3' C2' HC2' 110.4 109.5
C2' C3' O3' 103.4 109.5
C2' C3' C4' 117.8 109.5
C2' C3' HC3' 106.5 109.4
O3' C3' C4' 113.8 109.5
O3' C3' HC3' 107.8 109.5
C3' O3' HO3' 109.5 114.0
C4' C3' HC3' 107.0 109.5
C3' C4' O4' 120.0 109.5
C3' C4' C5' 104.6 109.5
C3' C4' HC4' 110.9 109.5
O4' C4' C5' 99.0 109.5
O4' C4' HC4' 111.8 109.4
C4' O4' HO4' 109.5 113.9
C5' C4' HC4' 109.2 109.4
C4' C5' O5' 98.5 109.5
C4' C5' HC51 112.1 109.5
C4' C5' HC52 112.1 109.5
O5' C5' HC51 112.2 109.5
O5' C5' HC52 112.2 109.4
C5' O5' HO5' 109.5 114.0
HC51 C5' HC52 109.5 109.5

Torsion Angles for RBF

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
C2 N1 C10 C4A 359.4 0.1
C2 N1 C10 N10 179.1 180.1
O2 C2 N1 N3 181.3 180.1
N1 C2 N3 C4 0.9 0.1
N1 C2 N3 HN3 180.9 180.0
C10 N1 C2 O2 181.3 180.0
C10 N1 C2 N3 359.9 359.9
C4 C4A C10 N1 0.5 360.0
N5 C4A C10 N1 181.4 180.0
C4A C10 N1 N10 180.3 180.0
C9A N10 C10 N1 182.4 180.0
N1 C10 N10 C1' 1.5 0.0
O2 C2 N1 C10 181.3 180.0
N1 C2 O2 N3 178.6 179.9
O2 C2 N3 C4 179.7 180.0
O2 C2 N3 HN3 359.6 359.9
N3 C2 N1 C10 359.9 359.9
N1 C2 N3 O2 181.2 180.1
C4 N3 C2 HN3 180.0 180.1
C2 N3 C4 O4 177.6 180.0
C2 N3 C4 C4A 359.0 360.0
C2 N3 C4 HN3 180.0 179.9
O4 C4 N3 C4A 178.6 180.0
N3 C4 C4A N5 179.5 180.0
N3 C4 C4A C10 0.3 0.0
C2 N3 HN3 C4 180.0 180.1
HN3 N3 C4 O4 357.6 0.1
HN3 N3 C4 C4A 179.0 180.0
O4 C4 N3 HN3 357.6 0.1
N3 C4 O4 C4A 181.3 180.0
O4 C4 C4A N5 0.8 360.0
O4 C4 C4A C10 181.6 180.0
N1 C10 C4A C4 0.5 360.0
C4A C4 N3 HN3 179.0 180.0
N3 C4 C4A O4 178.7 180.0
N5 C4A C4 C10 179.2 180.0
C4 C4A N5 C5A 176.7 180.0
C4 C4A C10 N10 180.7 180.0
N1 C10 C4A N5 181.4 180.0
C4 C4A N5 C10 180.9 180.0
N5 C4A C10 N10 1.6 360.0
C4A N5 C5A C6 183.7 180.0
C4A N5 C5A C9A 3.6 359.9
N1 C10 C4A N10 179.7 180.0
C4 C4A C10 N5 179.1 180.0
C10 C4A N5 C5A 355.8 0.0
C9A N10 C10 C4A 2.1 0.0
C4A C10 N10 C1' 181.2 180.0
C5A N5 C4A C10 355.8 0.0
C6 C5A N5 C9A 180.1 180.0
N5 C5A C6 C7 179.4 179.9
N5 C5A C6 HC6 359.4 360.0
N5 C5A C9A C9 180.0 180.0
N5 C5A C9A N10 359.6 0.0
N5 C5A C6 C9A 179.9 180.0
C6 C5A C9A C9 359.9 0.0
C6 C5A C9A N10 179.5 180.0
C7 C6 C5A HC6 180.0 180.0
C5A C6 C7 C7M 179.5 180.0
C5A C6 C7 C8 1.2 0.0
N5 C5A C9A C6 180.1 180.0
C9A C5A C6 C7 359.5 360.0
C9A C5A C6 HC6 179.5 180.0
C8 C9 C9A C5A 0.1 0.0
C5A C9A C9 HC9 180.1 180.0
C9 C9A C5A N10 180.4 180.0
C5A C9A N10 C10 357.5 360.0
C5A C9A N10 C1' 178.4 180.0
C7 C6 C5A C9A 359.5 360.0
C5A C6 C7 HC6 180.0 180.0
C7M C7 C6 C8 178.3 180.0
C6 C7 C7M HC71 91.0 90.1
C6 C7 C7M HC72 211.0 210.0
C6 C7 C7M HC73 331.0 330.0
C6 C7 C8 C8M 178.7 180.0
C6 C7 C8 C9 358.7 0.0
HC6 C6 C5A C9A 179.5 180.0
C5A C6 HC6 C7 180.0 180.0
HC6 C6 C7 C7M 359.5 360.0
HC6 C6 C7 C8 181.2 180.0
C7M C7 C6 HC6 359.5 360.0
C6 C7 C7M C8 181.6 180.0
C7M C7 C8 C8M 0.2 0.0
C7M C7 C8 C9 180.2 180.0
HC71 C7M C7 HC72 240.0 240.1
HC71 C7M C7 HC73 120.0 120.0
HC72 C7M C7 HC73 240.0 239.9
C8 C7 C6 HC6 181.2 180.0
C6 C7 C8 C7M 178.5 180.0
C8 C7 C7M HC71 269.4 270.1
C8 C7 C7M HC72 29.4 30.0
C8 C7 C7M HC73 149.4 150.0
C8M C8 C7 C9 180.0 180.0
C7 C8 C8M HC81 90.0 90.0
C7 C8 C8M HC82 210.0 210.1
C7 C8 C8M HC83 330.0 330.0
C7 C8 C9 C9A 0.6 360.0
C7 C8 C9 HC9 180.6 179.9
HC71 C7M C7 C8 269.4 270.1
C7 C7M HC71 HC72 120.0 119.9
C7 C7M HC71 HC73 240.0 239.9
HC72 C7M HC71 HC73 120.0 120.0
HC72 C7M C7 C8 29.4 30.0
C7 C7M HC72 HC71 240.0 240.1
C7 C7M HC72 HC73 120.0 120.1
HC71 C7M HC72 HC73 240.0 240.0
HC73 C7M C7 C8 149.4 150.0
C7 C7M HC73 HC71 120.0 120.0
C7 C7M HC73 HC72 240.0 239.9
HC71 C7M HC73 HC72 120.0 119.9
C7 C8 C8M C9 180.0 180.0
C8M C8 C9 C9A 180.6 180.0
C8M C8 C9 HC9 0.6 360.0
HC81 C8M C8 HC82 240.0 240.0
HC81 C8M C8 HC83 120.0 120.0
HC82 C8M C8 HC83 240.0 240.1
C5A C9A C9 C8 0.1 0.0
C7 C8 C9 C8M 180.0 180.0
C9 C8 C8M HC81 270.0 270.0
C9 C8 C8M HC82 30.0 30.0
C9 C8 C8M HC83 150.0 150.0
C9A C9 C8 HC9 180.0 180.0
C8 C9 C9A N10 180.5 180.0
HC81 C8M C8 C9 270.0 270.0
C8 C8M HC81 HC82 120.0 120.0
C8 C8M HC81 HC83 240.0 240.0
HC82 C8M HC81 HC83 120.0 120.0
HC82 C8M C8 C9 30.0 30.0
C8 C8M HC82 HC81 240.0 240.0
C8 C8M HC82 HC83 120.0 119.9
HC81 C8M HC82 HC83 240.0 240.0
HC83 C8M C8 C9 150.0 150.0
C8 C8M HC83 HC81 120.0 120.0
C8 C8M HC83 HC82 240.0 240.0
HC81 C8M HC83 HC82 120.0 120.0
C5A C9A C9 N10 179.6 180.0
C8 C9 C9A HC9 180.0 180.0
C9 C9A N10 C10 177.1 180.0
C9 C9A N10 C1' 358.0 360.0
C8 C9 HC9 C9A 180.0 180.0
HC9 C9 C9A N10 0.5 0.0
N1 C10 N10 C9A 182.4 180.0
C4A C10 N10 C9A 2.1 0.0
C5A C9A N10 C9 180.4 180.0
N10 C9A C9 HC9 0.5 0.0
C10 N10 C9A C1' 179.1 180.0
C9A N10 C1' C2' 283.6 90.0
C9A N10 C1' HC11 42.8 210.0
C9A N10 C1' HC12 164.3 330.0
N1 C10 N10 C4A 180.3 180.0
C9A N10 C10 C1' 180.9 180.0
C10 N10 C1' C2' 104.4 270.0
C10 N10 C1' HC11 223.7 30.0
C10 N10 C1' HC12 345.2 150.0
C9A N10 C1' C10 179.1 180.0
C2' C1' N10 HC11 240.8 240.0
C2' C1' N10 HC12 119.2 120.0
N10 C1' C2' O2' 286.0 300.0
N10 C1' C2' C3' 171.6 180.0
N10 C1' C2' HC2' 49.3 59.9
HC11 C1' N10 HC12 238.5 240.0
N10 C1' C2' HC11 119.3 120.0
N10 C1' C2' HC12 240.7 240.0
HC11 C1' C2' HC12 121.5 120.0
O2' C2' C1' C3' 114.3 120.0
O2' C2' C1' HC2' 236.6 240.1
C1' C2' O2' HO2' 180.0 300.0
C3' C2' C1' HC2' 122.3 120.1
C1' C2' C3' O3' 73.9 300.0
C1' C2' C3' C4' 307.5 180.0
C1' C2' C3' HC3' 187.4 60.0
N10 C1' HC11 C2' 244.4 240.0
N10 C1' HC11 HC12 122.2 120.1
C2' C1' HC11 HC12 237.9 240.1
HC11 C1' C2' O2' 166.7 180.0
HC11 C1' C2' C3' 52.4 60.0
HC11 C1' C2' HC2' 290.1 299.9
N10 C1' HC12 C2' 115.6 120.0
N10 C1' HC12 HC11 237.8 240.0
C2' C1' HC12 HC11 122.1 120.0
HC12 C1' C2' O2' 45.2 60.0
HC12 C1' C2' C3' 290.9 300.0
HC12 C1' C2' HC2' 168.6 180.0
O2' C2' C1' HC11 166.7 180.0
O2' C2' C1' HC12 45.2 60.0
C1' C2' O2' C3' 241.2 240.0
C1' C2' O2' HC2' 122.7 120.0
C3' C2' O2' HC2' 241.5 240.0
O2' C2' C3' O3' 314.9 180.0
O2' C2' C3' C4' 188.5 60.0
O2' C2' C3' HC3' 68.4 300.0
C3' C2' C1' HC11 52.4 60.0
C3' C2' C1' HC12 290.9 300.0
C1' C2' C3' O2' 119.0 120.0
C1' C2' C3' HC2' 238.0 240.0
O2' C2' C3' HC2' 119.0 120.0
C3' C2' O2' HO2' 298.8 60.0
O3' C3' C2' C4' 126.4 120.0
O3' C3' C2' HC3' 246.5 240.0
C2' C3' O3' HO3' 180.0 300.0
C4' C3' C2' HC3' 120.1 120.0
C2' C3' C4' O4' 321.2 300.0
C2' C3' C4' C5' 211.5 180.0
C2' C3' C4' HC4' 93.9 60.0
HC2' C2' C1' HC11 290.1 299.9
HC2' C2' C1' HC12 168.6 180.0
C1' C2' HC2' O2' 236.7 240.1
C1' C2' HC2' C3' 122.4 120.0
O2' C2' HC2' C3' 245.7 240.0
HC2' C2' O2' HO2' 57.3 180.0
HC2' C2' C3' O3' 195.9 60.0
HC2' C2' C3' C4' 69.5 300.0
HC2' C2' C3' HC3' 309.4 180.0
HO2' O2' C2' C3' 298.8 60.0
HO2' O2' C2' HC2' 57.3 180.0
O3' C3' C2' HC2' 195.9 60.0
C2' C3' O3' C4' 231.1 240.0
C2' C3' O3' HC3' 112.6 120.0
C4' C3' O3' HC3' 241.5 240.0
O3' C3' C4' O4' 200.0 180.0
O3' C3' C4' C5' 90.3 60.0
O3' C3' C4' HC4' 332.7 300.0
C4' C3' C2' HC2' 69.5 300.0
C2' C3' C4' O3' 121.2 120.0
C2' C3' C4' HC3' 240.1 240.0
O3' C3' C4' HC3' 119.0 120.0
C4' C3' O3' HO3' 308.9 60.0
O4' C4' C3' C5' 109.7 120.0
O4' C4' C3' HC4' 227.3 240.0
C3' C4' O4' HO4' 180.0 300.0
C5' C4' C3' HC4' 117.6 120.0
C3' C4' C5' O5' 265.4 185.0
C3' C4' C5' HC51 23.6 305.0
C3' C4' C5' HC52 147.2 65.0
HC3' C3' C2' HC2' 309.4 180.0
C2' C3' HC3' O3' 249.6 240.0
C2' C3' HC3' C4' 126.8 120.0
O3' C3' HC3' C4' 237.3 239.9
HC3' C3' O3' HO3' 67.4 180.0
HC3' C3' C4' O4' 81.0 60.0
HC3' C3' C4' C5' 331.4 300.0
HC3' C3' C4' HC4' 213.8 180.0
HO3' O3' C3' C4' 308.9 60.0
HO3' O3' C3' HC3' 67.4 180.0
O4' C4' C3' HC3' 81.0 60.0
C3' C4' O4' C5' 247.3 240.0
C3' C4' O4' HC4' 132.4 120.0
C5' C4' O4' HC4' 245.1 240.1
O4' C4' C5' O5' 141.1 65.0
O4' C4' C5' HC51 259.3 184.9
O4' C4' C5' HC52 22.9 304.9
C5' C4' C3' HC3' 331.4 300.0
C3' C4' C5' O4' 124.3 120.1
C3' C4' C5' HC4' 241.3 240.0
O4' C4' C5' HC4' 116.9 119.9
C5' C4' O4' HO4' 292.7 60.0
O5' C5' C4' HC51 241.8 240.0
O5' C5' C4' HC52 118.2 120.0
C4' C5' O5' HO5' 180.0 179.9
HC51 C5' C4' HC52 236.4 240.0
HC4' C4' C3' HC3' 213.8 180.0
C3' C4' HC4' O4' 223.2 239.9
C3' C4' HC4' C5' 114.7 120.0
O4' C4' HC4' C5' 251.5 240.0
HC4' C4' O4' HO4' 47.6 180.0
HC4' C4' C5' O5' 24.2 305.0
HC4' C4' C5' HC51 142.3 65.0
HC4' C4' C5' HC52 266.0 185.0
HO4' O4' C4' C5' 292.7 60.0
HO4' O4' C4' HC4' 47.6 180.0
O5' C5' C4' HC4' 24.2 305.0
C4' C5' O5' HC51 118.2 120.0
C4' C5' O5' HC52 241.8 240.0
HC51 C5' O5' HC52 123.7 120.0
HC51 C5' C4' HC4' 142.3 65.0
C4' C5' HC51 O5' 250.3 240.0
C4' C5' HC51 HC52 125.1 120.0
O5' C5' HC51 HC52 234.8 240.0
HC51 C5' O5' HO5' 61.8 60.0
HC52 C5' C4' HC4' 266.0 185.0
C4' C5' HC52 O5' 109.7 120.0
C4' C5' HC52 HC51 234.9 240.0
O5' C5' HC52 HC51 125.2 120.0
HC52 C5' O5' HO5' 298.1 300.0
HO5' O5' C5' HC51 61.8 60.0
HO5' O5' C5' HC52 298.1 300.0