PDB Chemical Component DX5

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 DX5

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	C2	1.509	1.530
C1	O1	1.432	1.429
C1	H11	1.100	1.090
C1	H12	1.100	1.090
C2	C3	1.496	1.530
C2	O2	1.435	1.429
C2	H2	1.100	1.090
C3	C4	1.499	1.531
C3	O3	1.450	1.429
C3	H3	1.100	1.090
C4	C5	1.506	1.529
C4	O4	1.429	1.429
C4	H4	1.100	1.091
C5	O5	1.410	1.428
C5	H51	1.100	1.090
C5	H52	1.100	1.090
O1	HO1	0.950	0.967
O2	HO2	0.950	0.967
O3	HO3	0.950	0.967
O4	HO4	0.950	0.967
O5	P	1.485	1.610
P	O1P	1.573	1.610
P	O2P	1.577	1.610
P	O3P	1.617	1.479
O1P	H1P	0.950	0.967
O2P	H2P	0.950	0.966

Bond Angles for DX5

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	O1	112.9	109.4
C2	C1	H11	107.6	109.5
C2	C1	H12	108.3	109.5
C1	C2	C3	113.8	109.5
C1	C2	O2	106.9	109.5
C1	C2	H2	109.0	109.5
O1	C1	H11	107.5	109.5
O1	C1	H12	108.3	109.5
C1	O1	HO1	109.5	106.8
H11	C1	H12	112.2	109.5
C3	C2	O2	111.3	109.5
C3	C2	H2	104.4	109.4
C2	C3	C4	113.6	109.5
C2	C3	O3	111.6	109.5
C2	C3	H3	104.9	109.5
O2	C2	H2	111.6	109.5
C2	O2	HO2	109.5	106.8
C4	C3	O3	109.3	109.5
C4	C3	H3	107.5	109.5
C3	C4	C5	113.8	109.5
C3	C4	O4	112.0	109.5
C3	C4	H4	103.7	109.4
O3	C3	H3	109.8	109.5
C3	O3	HO3	109.5	106.8
C5	C4	O4	106.3	109.5
C5	C4	H4	109.7	109.5
C4	C5	O5	120.8	109.5
C4	C5	H51	103.2	109.5
C4	C5	H52	105.8	109.5
O4	C4	H4	111.5	109.5
C4	O4	HO4	109.5	106.8
O5	C5	H51	103.2	109.5
O5	C5	H52	105.9	109.5
C5	O5	P	130.2	106.8
H51	C5	H52	118.9	109.4
O5	P	O1P	106.8	109.4
O5	P	O2P	103.2	109.5
O5	P	O3P	102.3	109.5
O1P	P	O2P	114.7	109.4
O1P	P	O3P	113.6	109.5
P	O1P	H1P	109.5	106.9
O2P	P	O3P	114.5	109.5
P	O2P	H2P	109.5	106.8

Torsion Angles for DX5

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
O1	C1	C2	H11	241.5	120.0
O1	C1	C2	H12	120.0	240.0
C2	C1	O1	HO1	91.6	180.0
H11	C1	C2	H12	238.5	120.0
C3	C2	C1	O2	236.8	240.0
C3	C2	C1	H2	116.0	120.0
C1	C2	C3	C4	287.6	175.0
C1	C2	C3	O3	163.6	55.0
C1	C2	C3	H3	44.8	295.0
O2	C2	C1	H2	239.3	240.0
C1	C2	O2	HO2	174.1	300.0
C2	C1	O1	H11	118.5	240.1
C2	C1	O1	H12	240.0	120.0
O1	C1	C2	C3	180.1	175.0
O1	C1	C2	O2	303.3	295.0
O1	C1	C2	H2	64.0	55.0
H11	C1	O1	H12	121.5	240.0
C2	C1	H11	O1	238.1	119.9
C2	C1	H11	H12	119.0	240.0
H11	C1	C2	C3	298.6	55.0
H11	C1	C2	O2	61.8	175.0
H11	C1	C2	H2	182.5	295.0
O1	C1	H11	H12	240.9	120.1
H11	C1	O1	HO1	333.1	299.9
C2	C1	H12	O1	122.8	240.0
C2	C1	H12	H11	241.4	120.0
H12	C1	C2	C3	60.1	295.0
H12	C1	C2	O2	183.3	55.0
H12	C1	C2	H2	304.1	175.0
O1	C1	H12	H11	118.6	240.0
H12	C1	O1	HO1	211.6	60.0
C3	C2	C1	O1	180.1	175.0
C3	C2	C1	H11	298.6	55.0
C3	C2	C1	H12	60.1	295.0
C1	C2	C3	O2	120.8	120.0
C1	C2	C3	H2	241.3	240.0
O2	C2	C3	H2	120.5	120.0
C3	C2	O2	HO2	298.9	60.0
C4	C3	C2	O3	124.1	120.0
C4	C3	C2	H3	242.9	240.0
C2	C3	C4	C5	153.1	185.0
C2	C3	C4	O4	273.6	305.0
C2	C3	C4	H4	34.0	65.0
O3	C3	C2	H3	118.8	120.0
C2	C3	O3	HO3	131.6	60.0
O2	C2	C1	O1	303.3	295.0
O2	C2	C1	H11	61.8	175.0
O2	C2	C1	H12	183.3	55.0
C1	C2	O2	C3	235.2	240.0
C1	C2	O2	H2	119.1	120.1
C3	C2	O2	H2	243.8	240.0
O2	C2	C3	C4	166.8	55.0
O2	C2	C3	O3	42.8	295.0
O2	C2	C3	H3	284.0	175.0
H2	C2	C1	O1	64.0	55.0
H2	C2	C1	H11	182.5	295.0
H2	C2	C1	H12	304.1	175.0
C1	C2	H2	C3	121.9	120.0
C1	C2	H2	O2	242.2	240.0
C3	C2	H2	O2	120.3	120.0
H2	C2	C3	C4	46.4	295.0
H2	C2	C3	O3	282.3	175.0
H2	C2	C3	H3	163.5	55.0
H2	C2	O2	HO2	55.0	179.9
C4	C3	C2	O2	166.8	55.0
C4	C3	C2	H2	46.4	295.0
C2	C3	C4	O3	234.7	240.0
C2	C3	C4	H3	115.7	120.0
O3	C3	C4	H3	241.0	240.0
C4	C3	O3	HO3	5.1	300.0
C5	C4	C3	O4	239.5	240.0
C5	C4	C3	H4	119.1	120.0
C3	C4	C5	O5	204.5	185.0
C3	C4	C5	H51	90.1	305.0
C3	C4	C5	H52	324.5	65.0
O4	C4	C3	H4	239.7	240.0
C3	C4	O4	HO4	179.8	300.0
O3	C3	C2	O2	42.8	295.0
O3	C3	C2	H2	282.3	175.0
C2	C3	O3	C4	126.5	120.0
C2	C3	O3	H3	244.1	240.0
C4	C3	O3	H3	117.6	120.0
O3	C3	C4	C5	278.4	305.0
O3	C3	C4	O4	38.9	65.0
O3	C3	C4	H4	159.3	185.0
H3	C3	C2	O2	284.0	175.0
H3	C3	C2	H2	163.5	55.0
C2	C3	H3	C4	238.7	240.0
C2	C3	H3	O3	120.0	120.0
C4	C3	H3	O3	241.3	240.0
H3	C3	C4	C5	37.4	65.0
H3	C3	C4	O4	157.9	185.0
H3	C3	C4	H4	278.3	305.0
H3	C3	O3	HO3	247.5	180.0
C5	C4	C3	O3	278.4	305.0
C5	C4	C3	H3	37.4	65.0
C3	C4	C5	O4	123.7	120.0
C3	C4	C5	H4	244.4	240.0
O4	C4	C5	H4	120.7	120.0
C5	C4	O4	HO4	304.6	60.0
O5	C5	C4	H51	114.4	240.0
O5	C5	C4	H52	240.0	120.0
C4	C5	O5	P	163.4	180.0
H51	C5	C4	H52	125.6	240.1
O4	C4	C3	O3	38.9	65.0
O4	C4	C3	H3	157.9	185.0
C3	C4	O4	C5	235.2	240.0
C3	C4	O4	H4	115.7	120.0
C5	C4	O4	H4	240.5	240.0
O4	C4	C5	O5	80.7	65.0
O4	C4	C5	H51	326.3	185.0
O4	C4	C5	H52	200.8	305.0
H4	C4	C3	O3	159.3	185.0
H4	C4	C3	H3	278.3	305.0
C3	C4	H4	C5	121.8	120.0
C3	C4	H4	O4	239.3	240.0
C5	C4	H4	O4	117.5	120.0
H4	C4	C5	O5	320.1	305.0
H4	C4	C5	H51	205.7	65.0
H4	C4	C5	H52	80.1	184.9
H4	C4	O4	HO4	64.1	180.1
O5	C5	C4	O4	80.7	65.0
O5	C5	C4	H4	320.1	305.0
C4	C5	O5	H51	245.6	120.1
C4	C5	O5	H52	120.0	240.0
H51	C5	O5	H52	234.4	119.9
C5	O5	P	O1P	46.0	65.0
C5	O5	P	O2P	284.7	185.0
C5	O5	P	O3P	165.6	305.1
H51	C5	C4	O4	326.3	185.0
H51	C5	C4	H4	205.7	65.0
C4	C5	H51	O5	126.6	240.0
C4	C5	H51	H52	243.3	120.0
O5	C5	H51	H52	116.7	240.0
H51	C5	O5	P	277.8	59.9
H52	C5	C4	O4	200.8	305.0
H52	C5	C4	H4	80.1	184.9
C4	C5	H52	O5	230.6	120.0
C4	C5	H52	H51	115.3	240.0
O5	C5	H52	H51	244.7	120.0
H52	C5	O5	P	43.4	300.0
HO1	O1	C1	H11	333.1	299.9
HO1	O1	C1	H12	211.6	60.0
HO2	O2	C2	H2	55.0	179.9
HO3	O3	C3	H3	247.5	180.0
HO4	O4	C4	H4	64.1	180.1
P	O5	C5	H51	277.8	59.9
P	O5	C5	H52	43.4	300.0
O1P	P	O5	O2P	121.3	240.0
O1P	P	O5	O3P	240.4	120.0
O5	P	O1P	H1P	115.9	60.0
O2P	P	O5	O3P	119.2	239.9
O5	P	O2P	H2P	46.2	180.0
O5	P	O1P	O2P	246.4	120.0
O5	P	O1P	O3P	112.0	240.0
O2P	P	O1P	O3P	225.7	120.0
O1P	P	O2P	H2P	290.5	300.0
O5	P	O2P	O1P	115.7	240.1
O5	P	O2P	O3P	249.6	120.1
O1P	P	O2P	O3P	133.9	240.0
O2P	P	O1P	H1P	229.6	300.0
O5	P	O3P	O1P	245.3	120.0
O5	P	O3P	O2P	110.9	239.9
O1P	P	O3P	O2P	225.6	120.0
O3P	P	O1P	H1P	3.9	180.0
O3P	P	O2P	H2P	156.6	59.9
H1P	O1P	P	O2P	229.6	300.0
H1P	O1P	P	O3P	3.9	180.0
H2P	O2P	P	O3P	156.6	59.9