PDB Chemical Component GX1

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 GX1

Atom I Atom J Distance (Experimental Model) Distance (Ideal Model)
OP2 P 1.599 1.480
O5' P 1.594 1.609
P OP1 1.482 1.610
P N4 1.627 1.682
S C8' 1.831 1.813
S HS 1.300 1.345
C2 N1 1.401 1.363
N1 C6 1.394 1.352
N1 HN1 1.000 0.970
N2 C2 1.327 1.373
N3 C2 1.344 1.314
N2 HN2 1.001 0.970
N2 HN2A 1.000 0.970
N3 C4 1.344 1.338
N9 C4 1.333 1.368
C4 C5 1.393 1.400
N4 C7' 1.474 1.468
N4 HN4 1.000 1.009
C5 C6 1.392 1.414
C5 N7 1.330 1.355
C6 O6 1.230 1.219
C8 N7 1.333 1.301
N9 C8 1.336 1.365
C8 H8 1.080 1.080
C1' N9 1.494 1.465
C2' C1' 1.541 1.545
C1' O4' 1.461 1.444
C1' H1' 1.100 1.089
C2' C3' 1.524 1.546
C2' H2' 1.100 1.090
C2' H2'A 1.099 1.090
O3' C3' 1.428 1.428
C3' C4' 1.531 1.545
C3' H3' 1.100 1.090
O3' HO3' 0.950 0.966
O4' C4' 1.436 1.445
C4' C5' 1.524 1.530
C4' H4' 1.100 1.090
C5' O5' 1.406 1.429
C5' H5' 1.099 1.090
C5' H5'A 1.100 1.090
C8' C7' 1.529 1.530
C7' H7' 1.100 1.090
C7' H7'A 1.101 1.090
C8' H8' 1.100 1.091
C8' H8'A 1.100 1.090
OP1 HOP1 0.950 0.966

Bond Angles for GX1

Atom I Atom J Atom K Angle (Experimental Model) Angle (Ideal Model)
OP2 P OP1 107.4 109.5
OP2 P N4 119.3 109.5
O5' P OP1 107.5 109.5
N4 P OP1 110.4 109.5
P OP1 HOP1 109.5 114.0
P N4 C7' 121.7 111.0
P N4 HN4 105.6 111.0
C8' S HS 102.0 103.0
S C8' C7' 113.5 109.5
S C8' H8' 108.2 109.5
S C8' H8'A 108.2 109.5
C2 N1 C6 119.1 120.3
C2 N1 HN1 120.4 119.9
C6 N1 HN1 120.5 119.8
N1 C6 C5 118.6 118.3
N1 C6 O6 120.3 120.8
HN2 N2 HN2A 120.0 119.9
N3 C4 C5 120.3 119.7
C4 C5 C6 120.1 118.6
C4 C5 N7 107.3 107.3
C7' N4 HN4 105.6 111.0
N4 C7' H7' 109.2 109.5
N4 C7' H7'A 109.2 109.5
C6 C5 N7 132.6 134.1
C5 C6 O6 121.1 120.9
N9 C8 H8 125.1 125.1
C2' C1' O4' 105.9 104.8
C2' C1' H1' 114.1 110.5
O4' C1' H1' 108.9 110.4
C1' O4' C4' 105.8 105.3
C3' C2' H2' 111.2 110.5
C3' C2' H2'A 111.2 110.5
C2' C3' C4' 102.7 104.0
C2' C3' H3' 114.6 110.5
H2' C2' H2'A 107.7 110.5
O3' C3' C4' 109.6 110.5
O3' C3' H3' 108.3 110.6
C4' C3' H3' 113.3 110.5
C3' C4' C5' 113.9 110.4
C3' C4' H4' 109.5 110.4
O4' C4' C5' 104.3 110.4
O4' C4' H4' 118.3 110.4
C5' C4' H4' 108.1 110.3
C4' C5' O5' 114.0 109.5
C4' C5' H5' 108.0 109.5
C4' C5' H5'A 108.0 109.5
O5' C5' H5' 108.0 109.5
O5' C5' H5'A 108.0 109.5
H5' C5' H5'A 110.9 109.4
C8' C7' H7' 109.3 109.4
C8' C7' H7'A 109.2 109.4
H7' C7' H7'A 109.7 109.4
H8' C8' H8'A 110.8 109.5

Torsion Angles for GX1

Atom I Atom J Atom K Atom L Angle (Experimental Model) Angle (Ideal Model)
O5' P OP2 OP1 113.0 120.0
N4 P OP2 OP1 233.4 240.0
OP2 P OP1 HOP1 360.0 180.0
OP2 P N4 C7' 127.1 180.0
OP2 P N4 HN4 247.0 303.9
OP2 P O5' OP1 247.1 240.0
N4 P O5' OP1 119.9 120.0
O5' P OP1 HOP1 250.7 60.0
O5' P N4 C7' 243.9 300.0
O5' P N4 HN4 3.9 63.9
OP2 P OP1 N4 228.3 240.0
OP1 P N4 C7' 1.9 60.0
OP1 P N4 HN4 121.9 183.9
OP2 P N4 OP1 125.1 120.0
O5' P N4 OP1 241.9 240.0
N4 P OP1 HOP1 131.6 300.0
C7' N4 P HN4 240.0 236.1
P N4 C7' H7' 194.7 255.0
P N4 C7' H7'A 314.7 15.0
S C8' C7' H7' 271.6 59.9
S C8' C7' H7'A 151.6 300.0
H8' C8' S H8'A 240.0 240.0
HS S C8' C7' 180.0 180.0
HS S C8' H8' 300.0 300.0
HS S C8' H8'A 60.0 60.0
C6 N1 C2 HN1 180.0 180.2
C2 N1 C6 C5 359.9 0.0
C2 N1 C6 O6 180.0 179.7
C2 N1 C6 HN1 180.0 179.8
C4 C5 C6 N1 0.1 359.9
N1 C6 C5 N7 180.1 180.0
C5 C6 N1 O6 179.9 180.4
C2 N1 HN1 C6 180.0 180.2
HN1 N1 C6 C5 179.9 180.3
HN1 N1 C6 O6 360.0 359.9
N2 C2 N1 C6 180.1 180.0
N2 C2 N1 HN1 0.1 359.7
N3 C2 N1 C6 360.0 360.0
N3 C2 N1 HN1 180.0 179.7
N3 C4 C5 C6 360.0 0.1
N3 C4 C5 N7 180.0 180.0
N1 C6 C5 C4 0.1 359.9
C6 C5 C4 N7 180.0 180.1
C4 C5 C6 O6 180.0 180.3
C7' N4 P OP1 1.9 60.0
P N4 C7' HN4 120.0 124.0
S C8' C7' N4 31.6 180.0
C8' C7' N4 H7' 240.0 240.0
C8' C7' N4 H7'A 120.0 120.0
H7' C7' N4 H7'A 240.0 240.0
HN4 N4 P OP1 121.9 183.9
P N4 HN4 C7' 229.9 236.0
HN4 N4 C7' H7' 74.7 131.0
HN4 N4 C7' H7'A 194.7 251.0
C5 C6 N1 HN1 179.9 180.3
N1 C6 C5 O6 180.1 179.6
C4 C5 C6 N7 180.0 179.9
C4 C5 N7 C6 180.0 180.1
N7 C5 C6 O6 0.0 0.4
O6 C6 N1 HN1 360.0 359.9
N1 C6 O6 C5 179.9 180.4
O6 C6 C5 N7 0.0 0.4
C1' N9 C8 H8 359.6 0.0
O4' C1' C2' H1' 119.8 118.9
C2' C1' O4' C4' 29.2 319.5
C2' C1' O4' H1' 236.9 241.1
C1' O4' C4' C5' 76.1 159.3
C1' O4' C4' H4' 196.2 281.6
C2' C1' H1' O4' 118.0 115.4
H1' C1' O4' C4' 152.2 78.4
C3' C2' C1' O4' 356.6 24.0
C3' C2' C1' H1' 236.8 265.1
H2' C2' C3' H2'A 120.0 122.7
O3' C3' C2' C4' 115.8 118.6
O3' C3' C2' H3' 239.1 237.2
C4' C3' C2' H3' 123.3 118.6
C2' C3' C4' C5' 287.3 217.2
C2' C3' C4' H4' 166.1 95.0
H2' C2' C1' O4' 116.6 142.6
H2' C2' C1' H1' 356.8 23.7
C3' C2' H2' H2'A 237.9 237.4
H2' C2' C3' C4' 218.6 241.3
H2' C2' C3' H3' 95.3 122.8
H2'A C2' C1' O4' 236.6 265.3
H2'A C2' C1' H1' 116.8 146.5
C3' C2' H2'A H2' 122.1 122.6
H2'A C2' C3' C4' 98.6 118.7
H2'A C2' C3' H3' 335.3 0.1
O3' C3' C2' H2' 334.5 360.0
O3' C3' C2' H2'A 214.4 237.3
C2' C3' O3' C4' 248.7 245.4
C2' C3' O3' H3' 124.7 122.7
C4' C3' O3' H3' 236.0 237.3
O3' C3' C4' C5' 172.5 98.6
O3' C3' C4' H4' 51.4 336.3
C1' O4' C4' C3' 317.0 40.5
C4' C3' C2' H2' 218.6 241.3
C4' C3' C2' H2'A 98.6 118.7
C2' C3' C4' H3' 235.8 241.4
O3' C3' C4' H3' 121.0 122.8
O4' C4' C3' C5' 112.2 118.8
O4' C4' C3' H4' 233.4 241.1
C5' C4' C3' H4' 121.2 122.2
C3' C4' C5' O5' 285.8 185.0
C3' C4' C5' H5' 45.8 305.0
C3' C4' C5' H5'A 165.8 65.0
H3' C3' C2' H2' 95.3 122.8
H3' C3' C2' H2'A 335.3 0.1
C2' C3' H3' C4' 117.4 114.6
O3' C3' H3' C4' 238.2 237.3
H3' C3' C4' C5' 51.5 335.8
H3' C3' C4' H4' 290.3 213.6
HO3' O3' C3' C4' 291.2 176.1
HO3' O3' C3' H3' 55.3 298.8
C4' O4' C1' H1' 152.2 78.4
O4' C4' C3' H3' 163.7 94.6
C3' C4' O4' C5' 240.9 241.2
C3' C4' O4' H4' 120.8 118.9
C5' C4' O4' H4' 239.9 237.7
O4' C4' C5' O5' 174.4 69.6
O4' C4' C5' H5' 294.4 189.6
O4' C4' C5' H5'A 54.4 309.6
C5' C4' C3' H3' 51.5 335.8
C3' C4' C5' H4' 238.1 237.7
O4' C4' C5' H4' 126.7 122.3
O5' C5' C4' H5' 240.0 240.0
O5' C5' C4' H5'A 120.0 120.0
H5' C5' C4' H5'A 240.0 240.0
H4' C4' C3' H3' 290.3 213.6
C3' C4' H4' C5' 124.6 122.3
O4' C4' H4' C5' 241.9 237.7
H4' C4' C5' O5' 47.7 307.3
H4' C4' C5' H5' 167.7 67.3
H4' C4' C5' H5'A 287.7 187.3
C5' O5' P OP1 56.3 170.0
O5' C5' C4' H4' 47.7 307.3
C4' C5' O5' H5' 120.0 120.0
C4' C5' O5' H5'A 240.0 240.0
H5' C5' O5' H5'A 120.0 120.0
H5' C5' C4' H4' 167.7 67.3
C4' C5' H5' O5' 236.3 240.0
C4' C5' H5' H5'A 118.1 120.0
O5' C5' H5' H5'A 241.9 240.0
H5'A C5' C4' H4' 287.7 187.3
C4' C5' H5'A O5' 123.7 120.0
C4' C5' H5'A H5' 241.9 240.0
O5' C5' H5'A H5' 118.1 120.0
C7' C8' S HS 180.0 180.0
S C8' C7' H8' 120.0 120.0
S C8' C7' H8'A 240.0 239.9
C8' C7' N4 HN4 314.7 11.0
N4 C7' C8' H7' 120.0 120.1
N4 C7' C8' H7'A 240.0 240.0
H7' C7' C8' H7'A 120.0 119.9
H7' C7' N4 HN4 74.7 131.0
N4 C7' H7' H7'A 119.7 120.0
C8' C7' H7' H7'A 240.3 240.1
H7'A C7' N4 HN4 194.7 251.0
N4 C7' H7'A H7' 240.3 240.0
C8' C7' H7'A H7' 119.8 119.9
H8' C8' S HS 300.0 300.0
S C8' H8' C7' 236.7 240.0
S C8' H8' H8'A 118.4 120.1
H8' C8' C7' H7' 151.6 299.9
H8' C8' C7' H7'A 31.6 180.0
H8'A C8' S HS 60.0 60.0
S C8' H8'A C7' 123.3 120.1
S C8' H8'A H8' 241.6 240.0
H8'A C8' C7' H7' 31.6 180.0
H8'A C8' C7' H7'A 271.6 60.1