PDB Chemical Component 3DR

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 3DR

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
O5' P 1.606 1.610
O5' C5' 1.446 1.428
P OP1 1.499 1.480
P OP2 1.517 1.610
P OP3 1.528 1.609
OP2 HOP2 0.951 0.968
OP3 HOP3 0.951 0.967
C2' C1' 1.530 1.544
C2' C3' 1.508 1.545
C2' H2' 1.114 1.090
C2' H2'' 1.115 1.089
C5' C4' 1.502 1.530
C5' H5' 1.115 1.090
C5' H5'' 1.115 1.090
C4' O4' 1.449 1.447
C4' C3' 1.523 1.544
C4' H4'1 1.115 1.089
O4' C1' 1.415 1.445
C1' H1'1 1.115 1.090
C1' H1'2 1.115 1.089
C3' O3' 1.415 1.429
C3' H3' 1.115 1.090
O3' HO3' 0.950 0.966

Bond Angles for 3DR

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
P O5' C5' 118.0 106.8
O5' P OP1 107.6 109.5
O5' P OP2 105.0 109.5
O5' P OP3 104.0 109.5
O5' C5' C4' 109.3 109.5
O5' C5' H5' 112.2 109.5
O5' C5' H5'' 112.2 109.5
OP1 P OP2 114.2 109.4
OP1 P OP3 113.1 109.5
OP2 P OP3 111.9 109.5
P OP2 HOP2 105.0 106.8
P OP3 HOP3 104.1 106.8
C1' C2' C3' 101.5 104.1
C1' C2' H2' 115.2 110.5
C1' C2' H2'' 115.2 110.5
C2' C1' O4' 107.4 104.8
C2' C1' H1'1 113.0 110.4
C2' C1' H1'2 113.0 110.4
C3' C2' H2' 115.3 110.4
C3' C2' H2'' 115.2 110.6
C2' C3' C4' 102.7 104.2
C2' C3' O3' 111.6 110.5
C2' C3' H3' 113.2 110.5
H2' C2' H2'' 95.2 110.5
C4' C5' H5' 112.3 109.4
C4' C5' H5'' 112.3 109.5
C5' C4' O4' 109.6 110.3
C5' C4' C3' 117.6 110.7
C5' C4' H4'1 101.6 110.4
H5' C5' H5'' 98.2 109.5
O4' C4' C3' 102.0 104.7
O4' C4' H4'1 117.4 110.3
C4' O4' C1' 109.7 105.3
C3' C4' H4'1 109.4 110.3
C4' C3' O3' 111.5 110.5
C4' C3' H3' 113.3 110.5
O4' C1' H1'1 113.0 110.3
O4' C1' H1'2 113.0 110.4
H1'1 C1' H1'2 97.4 110.4
O3' C3' H3' 104.7 110.5
C3' O3' HO3' 111.6 106.8

Torsion Angles for 3DR

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
P O5' C5' C4' 168.6 180.0
P O5' C5' H5' 293.8 60.0
P O5' C5' H5'' 43.3 300.0
OP1 P O5' OP2 237.9 240.0
OP1 P O5' OP3 120.2 120.0
OP2 P O5' OP3 242.3 239.9
O5' P OP2 HOP2 179.9 180.0
O5' P OP3 HOP3 180.0 299.9
C5' O5' P OP1 307.3 60.0
C5' O5' P OP2 69.3 180.0
C5' O5' P OP3 187.0 300.0
C4' C5' O5' H5' 234.7 120.0
C4' C5' O5' H5'' 125.3 240.0
O5' C5' C4' O4' 60.2 61.5
O5' C5' C4' C3' 176.0 176.8
O5' C5' C4' H4'1 295.3 299.3
H5' C5' O5' H5'' 250.6 120.0
OP1 P O5' C5' 307.3 60.0
O5' P OP1 OP2 116.2 120.0
O5' P OP1 OP3 245.7 240.0
OP2 P OP1 OP3 129.5 120.0
OP1 P OP2 HOP2 297.6 299.9
OP1 P OP3 HOP3 63.5 180.0
OP2 P O5' C5' 69.3 180.0
O5' P OP2 OP1 242.3 240.0
O5' P OP2 OP3 112.2 120.0
OP1 P OP2 OP3 229.9 240.0
OP2 P OP3 HOP3 292.9 60.0
OP3 P O5' C5' 187.0 300.0
O5' P OP3 OP1 116.5 120.0
O5' P OP3 OP2 247.1 240.0
OP1 P OP3 OP2 130.6 120.0
OP3 P OP2 HOP2 67.7 59.9
HOP2 OP2 P OP3 67.7 59.9
C3' C2' C1' H2' 234.7 118.6
C3' C2' C1' H2'' 125.2 241.3
C1' C2' C3' C4' 323.6 360.0
C1' C2' C3' O3' 83.2 118.7
C1' C2' C3' H3' 201.1 241.3
H2' C2' C1' H2'' 250.5 122.7
C4' O4' C1' C2' 5.9 319.6
O4' C1' C2' H1'1 234.7 241.2
O4' C1' C2' H1'2 125.3 118.9
H1'1 C1' C2' H1'2 250.5 237.7
C1' C2' C3' H2' 125.3 241.4
C1' C2' C3' H2'' 234.8 118.7
C3' C2' C1' O4' 19.7 24.0
C3' C2' C1' H1'1 145.0 142.8
C3' C2' C1' H1'2 254.5 265.1
H2' C2' C3' H2'' 109.5 237.3
C5' C4' C3' C2' 280.5 217.3
O4' C4' C3' C2' 40.4 336.1
C2' C3' C4' H4'1 165.4 94.8
C4' C3' C2' O3' 240.4 241.3
C4' C3' C2' H3' 122.5 118.7
O3' C3' C2' H3' 242.1 237.4
C2' C3' O3' HO3' 180.1 63.3
C1' C2' H2' C3' 242.2 114.6
C1' C2' H2' H2'' 121.1 237.3
H2' C2' C1' O4' 145.0 265.4
H2' C2' C1' H1'1 270.3 24.2
H2' C2' C1' H1'2 19.7 146.5
C3' C2' H2' H2'' 238.9 122.7
H2' C2' C3' C4' 198.3 118.6
H2' C2' C3' O3' 317.9 237.3
H2' C2' C3' H3' 75.8 359.9
C1' C2' H2'' C3' 117.8 245.3
C1' C2' H2'' H2' 238.9 122.7
H2'' C2' C1' O4' 254.5 142.7
H2'' C2' C1' H1'1 19.8 261.5
H2'' C2' C1' H1'2 129.2 23.8
C3' C2' H2'' H2' 121.1 237.4
H2'' C2' C3' C4' 88.8 241.3
H2'' C2' C3' O3' 208.4 360.0
H2'' C2' C3' H3' 326.3 122.5
O5' C5' C4' H5' 125.2 239.9
O5' C5' C4' H5'' 234.7 120.0
C2' C3' C4' C5' 280.5 217.3
H5' C5' C4' H5'' 109.5 240.1
O4' C4' C5' C3' 244.2 244.6
O4' C4' C5' H4'1 124.9 122.2
C5' C4' O4' C1' 96.6 159.5
C3' C4' C5' H4'1 240.7 237.5
C5' C4' C3' O3' 160.8 98.6
C5' C4' C3' H3' 43.0 336.0
O5' C5' H5' C4' 236.4 120.0
O5' C5' H5' H5'' 118.1 240.0
C4' C5' H5' H5'' 241.8 119.9
H5' C5' C4' O4' 295.0 181.5
H5' C5' C4' C3' 50.8 296.9
H5' C5' C4' H4'1 170.1 59.4
O5' C5' H5'' C4' 123.7 240.0
O5' C5' H5'' H5' 241.9 120.1
C4' C5' H5'' H5' 118.2 240.1
H5'' C5' C4' O4' 185.5 301.5
H5'' C5' C4' C3' 301.3 56.8
H5'' C5' C4' H4'1 60.6 179.3
C2' C1' O4' C4' 5.9 319.6
C2' C3' C4' O4' 40.4 336.1
O4' C4' C5' H5' 295.0 181.5
O4' C4' C5' H5'' 185.5 301.5
C5' C4' O4' C3' 125.4 119.1
C5' C4' O4' H4'1 244.8 237.8
C3' C4' O4' H4'1 119.4 118.7
O4' C4' C3' O3' 280.7 217.4
O4' C4' C3' H3' 162.9 94.9
C4' O4' C1' H1'1 240.6 200.7
C4' O4' C1' H1'2 131.2 78.4
C4' C3' C2' H2' 198.3 118.6
C4' C3' C2' H2'' 88.8 241.3
C2' C3' C4' O3' 119.7 118.7
C2' C3' C4' H3' 237.5 241.3
C3' C4' C5' H5' 50.8 296.9
C3' C4' C5' H5'' 301.3 56.8
C5' C4' C3' O4' 240.1 241.1
C5' C4' C3' H4'1 115.2 122.5
O4' C4' C3' H4'1 235.1 241.3
C3' C4' O4' C1' 331.2 40.4
O3' C3' C4' H3' 117.9 122.6
C4' C3' O3' HO3' 294.3 178.1
H4'1 C4' C5' H5' 170.1 59.4
H4'1 C4' C5' H5'' 60.6 179.3
C5' C4' H4'1 O4' 119.5 122.2
C5' C4' H4'1 C3' 235.0 237.3
O4' C4' H4'1 C3' 115.4 115.2
H4'1 C4' O4' C1' 211.8 281.7
H4'1 C4' C3' O3' 45.7 336.1
H4'1 C4' C3' H3' 287.8 213.5
O4' C1' C2' C3' 19.7 24.0
O4' C1' C2' H2' 145.0 265.4
O4' C1' C2' H2'' 254.5 142.7
C2' C1' O4' H1'1 125.3 118.9
C2' C1' O4' H1'2 234.7 241.2
C1' O4' C4' C3' 331.2 40.4
C1' O4' C4' H4'1 211.8 281.7
H1'1 C1' O4' H1'2 109.4 122.3
H1'1 C1' C2' C3' 145.0 142.8
H1'1 C1' C2' H2' 270.3 24.2
H1'1 C1' C2' H2'' 19.8 261.5
C2' C1' H1'1 O4' 237.8 244.6
C2' C1' H1'1 H1'2 118.9 122.3
O4' C1' H1'1 H1'2 241.1 237.7
H1'2 C1' C2' C3' 254.5 265.1
H1'2 C1' C2' H2' 19.7 146.5
H1'2 C1' C2' H2'' 129.2 23.8
C2' C1' H1'2 O4' 122.2 115.4
C2' C1' H1'2 H1'1 241.1 237.6
O4' C1' H1'2 H1'1 118.9 122.2
O3' C3' C2' H2' 317.9 237.3
O3' C3' C2' H2'' 208.4 360.0
C2' C3' O3' C4' 245.8 245.2
C2' C3' O3' H3' 122.9 122.6
O3' C3' C4' H4'1 45.7 336.1
C4' C3' O3' H3' 237.1 237.4
H3' C3' C2' H2' 75.8 359.9
H3' C3' C2' H2'' 326.3 122.5
C2' C3' H3' C4' 116.4 114.8
C2' C3' H3' O3' 238.2 237.4
H3' C3' C4' H4'1 287.8 213.5
C4' C3' H3' O3' 121.7 122.6
H3' C3' O3' HO3' 57.2 300.7
HO3' O3' C3' H3' 57.2 300.7