PDB Chemical Component T4S

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 T4S

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
OP3 P 1.614  
OP3 HOP3 0.950  
P OP1 1.502  
P OP2 1.448  
P O5' 1.598  
OP2 HOP2 0.950  
O5' C5' 1.418  
N1 C1' 1.501  
N1 C6 1.372  
N1 C2 1.387  
C6 C5 1.374  
C6 H6 1.080  
C2 O2 1.222  
C2 N3 1.389  
N3 C4 1.391  
C4 C5 1.470  
C4 SE 1.723  
SE HSE 1.500  
C5 C5A 1.495  
C5A H5A1 1.100  
C5A H5A2 1.099  
C5A H5A3 1.100  
C2' C3' 1.520  
C2' C1' 1.509  
C2' H2' 1.100  
C2' H2'' 1.100  
C5' C4' 1.511  
C5' H5' 1.100  
C5' H5'' 1.100  
C4' C3' 1.520  
C4' O4' 1.451  
C4' H4' 1.100  
O4' C1' 1.436  
C1' H1' 1.100  
C3' O3' 1.405  
C3' H3' 1.100  
O3' HO3' 0.951  

Bond Angles for T4S

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
P OP3 HOP3 109.5  
OP3 P OP1 105.3  
OP3 P OP2 112.1  
OP3 P O5' 103.3  
OP1 P OP2 119.4  
OP1 P O5' 109.2  
OP2 P O5' 106.4  
P OP2 HOP2 109.5  
P O5' C5' 120.2  
O5' C5' C4' 111.1  
O5' C5' H5' 108.9  
O5' C5' H5'' 108.6  
C6 N1 C1' 121.5  
C2 N1 C1' 116.9  
N1 C1' C2' 107.3  
N1 C1' O4' 100.6  
N1 C1' H1' 115.7  
C6 N1 C2 121.6  
N1 C6 C5 123.5  
N1 C6 H6 118.3  
N1 C2 O2 122.7  
N1 C2 N3 115.2  
C5 C6 H6 118.3  
C6 C5 C4 117.7  
C6 C5 C5A 123.2  
O2 C2 N3 122.1  
C2 N3 C4 126.9  
N3 C4 C5 115.1  
N3 C4 SE 125.4  
SE C4 C5 119.5  
C4 C5 C5A 119.0  
C4 SE HSE 109.5  
C5 C5A H5A1 109.5  
C5 C5A H5A2 109.5  
C5 C5A H5A3 109.5  
H5A1 C5A H5A2 109.4  
H5A1 C5A H5A3 109.5  
H5A2 C5A H5A3 109.5  
C1' C2' C3' 105.0  
C3' C2' H2' 111.0  
C3' C2' H2'' 112.0  
C2' C3' C4' 104.0  
C2' C3' O3' 109.1  
C2' C3' H3' 114.5  
C1' C2' H2' 111.0  
C1' C2' H2'' 112.0  
C2' C1' O4' 107.5  
C2' C1' H1' 109.6  
H2' C2' H2'' 106.1  
C4' C5' H5' 108.9  
C4' C5' H5'' 108.5  
C5' C4' C3' 114.0  
C5' C4' O4' 109.1  
C5' C4' H4' 105.2  
H5' C5' H5'' 110.8  
O4' C4' C3' 104.7  
C3' C4' H4' 109.5  
C4' C3' O3' 112.7  
C4' C3' H3' 110.8  
O4' C4' H4' 114.5  
C4' O4' C1' 109.9  
O4' C1' H1' 115.5  
O3' C3' H3' 105.9  
C3' O3' HO3' 109.5  

Torsion Angles for T4S

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
OP1 P OP3 OP2 131.4  
OP1 P OP3 O5' 245.5  
OP2 P OP3 O5' 114.1  
OP3 P OP2 HOP2 124.4  
OP3 P O5' C5' 306.1  
HOP3 OP3 P OP1 200.3  
HOP3 OP3 P OP2 69.0  
HOP3 OP3 P O5' 314.8  
OP1 P OP3 HOP3 200.3  
OP3 P OP1 OP2 233.0  
OP3 P OP1 O5' 110.4  
OP2 P OP1 O5' 237.3  
OP1 P OP2 HOP2 0.6  
OP1 P O5' C5' 57.8  
OP2 P OP3 HOP3 69.0  
OP3 P OP2 OP1 123.8  
OP3 P OP2 O5' 247.8  
OP1 P OP2 O5' 124.0  
OP2 P O5' C5' 188.0  
O5' P OP3 HOP3 314.8  
OP3 P O5' OP1 248.3  
OP3 P O5' OP2 118.2  
OP1 P O5' OP2 229.8  
O5' P OP2 HOP2 236.6  
P O5' C5' C4' 182.8  
P O5' C5' H5' 302.8  
P O5' C5' H5'' 63.5  
HOP2 OP2 P O5' 236.6  
C4' C5' O5' H5' 240.0  
C4' C5' O5' H5'' 119.3  
O5' C5' C4' C3' 41.6  
O5' C5' C4' O4' 284.9  
O5' C5' C4' H4' 161.6  
H5' C5' O5' H5'' 239.3  
C6 N1 C1' C2 181.5  
C1' N1 C6 C5 177.4  
C1' N1 C6 H6 357.4  
C1' N1 C2 O2 359.7  
C1' N1 C2 N3 181.0  
N1 C1' C2' C3' 96.3  
N1 C1' C2' H2' 336.3  
N1 C1' C2' H2'' 217.9  
C2' C1' N1 O4' 247.7  
C2' C1' N1 H1' 122.6  
C4' O4' C1' N1 239.8  
O4' C1' N1 H1' 234.9  
C2 N1 C6 C1' 181.6  
C6 N1 C1' C2' 272.7  
C6 N1 C1' O4' 25.0  
C6 N1 C1' H1' 150.1  
C6 N1 C2 O2 178.1  
C6 N1 C2 N3 359.5  
C5 C6 N1 H6 180.0  
N1 C6 C5 C4 1.5  
N1 C6 C5 C5A 181.5  
C6 N1 C2 C1' 178.5  
C2 N1 C1' C2' 91.1  
C2 N1 C1' O4' 203.4  
C2 N1 C1' H1' 328.5  
C2 N1 C6 C5 359.0  
C2 N1 C6 H6 179.0  
O2 C2 N1 N3 178.7  
N1 C2 N3 C4 1.7  
C5 C6 N1 C1' 177.4  
C5 C6 N1 C2 359.0  
N1 C6 C5 H6 180.0  
N3 C4 C5 C6 359.6  
SE C4 C5 C6 179.9  
C4 C5 C6 C5A 180.0  
C6 C5 C5A H5A1 235.8  
C6 C5 C5A H5A2 355.8  
C6 C5 C5A H5A3 115.8  
H6 C6 N1 C1' 357.4  
H6 C6 N1 C2 179.0  
N1 C6 H6 C5 180.0  
H6 C6 C5 C4 181.5  
H6 C6 C5 C5A 1.4  
O2 C2 N1 C1' 359.7  
N1 C2 O2 N3 181.4  
O2 C2 N3 C4 183.0  
N3 C2 N1 C1' 181.0  
N1 C2 N3 O2 178.7  
C2 N3 C4 C5 358.8  
C2 N3 C4 SE 178.5  
C6 C5 C4 N3 359.6  
SE C4 N3 C5 179.7  
N3 C4 C5 C5A 179.6  
N3 C4 SE HSE 229.5  
C4 C5 C6 H6 181.5  
C6 C5 C4 C5A 180.0  
N3 C4 C5 SE 179.7  
C5 C4 SE HSE 49.2  
C4 C5 C5A H5A1 55.8  
C4 C5 C5A H5A2 175.8  
C4 C5 C5A H5A3 295.8  
C6 C5 C4 SE 179.9  
N3 C4 SE C5 180.3  
SE C4 C5 C5A 359.9  
HSE SE C4 C5 49.2  
C5A C5 C6 H6 1.4  
C6 C5 C5A C4 180.0  
H5A1 C5A C5 H5A2 240.0  
H5A1 C5A C5 H5A3 120.0  
H5A2 C5A C5 H5A3 240.0  
C5 C5A H5A1 H5A2 120.0  
C5 C5A H5A1 H5A3 240.0  
H5A2 C5A H5A1 H5A3 120.0  
C5 C5A H5A2 H5A1 239.9  
C5 C5A H5A2 H5A3 120.0  
H5A1 C5A H5A2 H5A3 240.0  
C5 C5A H5A3 H5A1 120.1  
C5 C5A H5A3 H5A2 240.0  
H5A1 C5A H5A3 H5A2 119.9  
C1' C2' C3' H2' 240.0  
C1' C2' C3' H2'' 121.7  
C3' C2' C1' O4' 348.8  
C3' C2' C1' H1' 222.6  
H2' C2' C3' H2'' 241.7  
C5' C4' C3' C2' 210.9  
O4' C4' C3' C2' 330.0  
C2' C3' C4' H4' 93.3  
C4' C3' C2' O3' 239.5  
C4' C3' C2' H3' 121.1  
O3' C3' C2' H3' 241.6  
C2' C3' O3' HO3' 196.9  
N1 C1' C2' O4' 107.5  
N1 C1' C2' H1' 233.7  
C3' C2' C1' H2' 120.0  
C3' C2' C1' H2'' 238.3  
C1' C2' C3' C4' 25.1  
C1' C2' C3' O3' 145.6  
C1' C2' C3' H3' 264.0  
H2' C2' C1' H2'' 118.3  
C4' O4' C1' C2' 351.9  
O4' C1' C2' H1' 126.2  
C1' C2' H2' C3' 116.3  
C3' C2' H2' H2'' 121.8  
H2' C2' C3' C4' 145.1  
H2' C2' C3' O3' 265.6  
H2' C2' C3' H3' 24.0  
C1' C2' H2' H2'' 238.2  
H2' C2' C1' O4' 228.8  
H2' C2' C1' H1' 102.6  
C1' C2' H2'' C3' 242.4  
C3' C2' H2'' H2' 238.8  
H2'' C2' C3' C4' 263.4  
H2'' C2' C3' O3' 23.9  
H2'' C2' C3' H3' 142.3  
C1' C2' H2'' H2' 121.2  
H2'' C2' C1' O4' 110.5  
H2'' C2' C1' H1' 344.2  
O5' C5' C4' H5' 120.0  
O5' C5' C4' H5'' 240.7  
C2' C3' C4' C5' 210.9  
H5' C5' C4' H5'' 120.7  
O4' C4' C5' C3' 243.4  
C3' C4' C5' H4' 239.9  
C5' C4' C3' O3' 92.9  
C5' C4' C3' H3' 334.3  
O4' C4' C5' H4' 123.3  
C5' C4' O4' C1' 146.5  
O5' C5' H5' C4' 238.6  
O5' C5' H5' H5'' 119.3  
C4' C5' H5' H5'' 240.7  
H5' C5' C4' C3' 281.6  
H5' C5' C4' O4' 164.9  
H5' C5' C4' H4' 41.6  
O5' C5' H5'' C4' 120.9  
O5' C5' H5'' H5' 240.5  
C4' C5' H5'' H5' 119.5  
H5'' C5' C4' C3' 160.9  
H5'' C5' C4' O4' 44.2  
H5'' C5' C4' H4' 281.0  
C4' C3' C2' H2' 145.1  
C4' C3' C2' H2'' 263.4  
C2' C3' C4' O3' 118.0  
C2' C3' C4' H3' 236.5  
C3' C4' C5' H5' 281.6  
C3' C4' C5' H5'' 160.9  
C5' C4' C3' O4' 240.8  
C5' C4' C3' H4' 117.6  
O4' C4' C3' H4' 236.8  
C3' C4' O4' C1' 24.0  
O3' C3' C4' H3' 118.6  
C4' C3' O3' HO3' 311.9  
N1 C1' O4' C4' 239.8  
C2' C3' C4' O4' 330.0  
C2' C1' O4' C4' 351.9  
O4' C4' C5' H5' 164.9  
O4' C4' C5' H5'' 44.2  
C5' C4' O4' C3' 122.5  
C5' C4' O4' H4' 242.4  
C3' C4' O4' H4' 120.0  
O4' C4' C3' O3' 212.1  
O4' C4' C3' H3' 93.5  
C4' O4' C1' H1' 114.6  
H4' C4' C5' H5' 41.6  
H4' C4' C5' H5'' 281.0  
C5' C4' H4' C3' 237.0  
C5' C4' H4' O4' 119.7  
O4' C4' H4' C3' 117.2  
H4' C4' C3' O3' 335.3  
H4' C4' C3' H3' 216.7  
H4' C4' O4' C1' 264.1  
N1 C1' O4' C2' 247.9  
N1 C1' O4' H1' 125.2  
O4' C1' C2' C3' 348.8  
O4' C1' C2' H2' 228.8  
O4' C1' C2' H2'' 110.5  
C2' C1' O4' H1' 237.3  
C1' O4' C4' C3' 24.0  
C1' O4' C4' H4' 264.1  
N1 C1' H1' C2' 121.4  
N1 C1' H1' O4' 243.0  
H1' C1' C2' C3' 222.6  
H1' C1' C2' H2' 102.6  
H1' C1' C2' H2'' 344.2  
C2' C1' H1' O4' 121.6  
O3' C3' C2' H2' 265.6  
O3' C3' C2' H2'' 23.9  
C2' C3' O3' C4' 245.1  
C2' C3' O3' H3' 123.7  
O3' C3' C4' H4' 335.3  
C4' C3' O3' H3' 238.6  
H3' C3' C2' H2' 24.0  
H3' C3' C2' H2'' 142.3  
C2' C3' H3' C4' 117.2  
C2' C3' H3' O3' 239.8  
H3' C3' C4' H4' 216.7  
C4' C3' H3' O3' 122.6  
H3' C3' O3' HO3' 73.3  
HO3' O3' C3' H3' 73.3