PDB Chemical Component DSD

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 DSD

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	O1	1.242	1.208
C1	O2	1.230	1.341
C1	C2	1.525	1.506
O2	HO2	0.950	0.966
C2	C3	1.516	1.530
C2	H21	1.115	1.090
C2	H22	1.114	1.090
C3	C4	1.516	1.530
C3	H31	1.116	1.089
C3	H32	1.115	1.090
C4	C5	1.520	1.530
C4	H41	1.114	1.090
C4	H42	1.115	1.090
C5	C6	1.514	1.529
C5	H51	1.115	1.089
C5	H52	1.115	1.090
C6	C7	1.532	1.529
C6	H61	1.114	1.090
C6	H62	1.115	1.090
C7	C8	1.549	1.530
C7	N7	1.464	1.464
C7	H7	1.116	1.090
C8	C9	1.529	1.530
C8	N8	1.460	1.468
C8	H8	1.115	1.090
C9	H91	1.116	1.089
C9	H92	1.114	1.090
C9	H93	1.114	1.089
N7	C	1.348	1.348
N7	HN7	1.019	0.970
C	O	1.230	1.214
C	OXT	1.226	1.347
OXT	HXT	0.950	0.967
N8	HN81	1.021	1.009
N8	HN82	1.020	1.009

Bond Angles for DSD

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
O1	C1	O2	122.4	119.9
O1	C1	C2	120.8	120.0
O2	C1	C2	116.8	120.1
C1	O2	HO2	122.4	120.1
C1	C2	C3	111.9	109.5
C1	C2	H21	111.3	109.5
C1	C2	H22	111.3	109.4
C3	C2	H21	111.3	109.5
C3	C2	H22	111.3	109.4
C2	C3	C4	114.0	109.5
C2	C3	H31	110.5	109.5
C2	C3	H32	110.6	109.4
H21	C2	H22	99.2	109.4
C4	C3	H31	110.6	109.5
C4	C3	H32	110.5	109.4
C3	C4	C5	108.2	109.5
C3	C4	H41	112.7	109.5
C3	C4	H42	112.6	109.4
H31	C3	H32	99.7	109.5
C5	C4	H41	112.6	109.5
C5	C4	H42	112.7	109.4
C4	C5	C6	110.1	109.5
C4	C5	H51	112.0	109.5
C4	C5	H52	112.0	109.4
H41	C4	H42	97.9	109.4
C6	C5	H51	112.0	109.5
C6	C5	H52	112.0	109.5
C5	C6	C7	117.6	109.5
C5	C6	H61	109.3	109.5
C5	C6	H62	109.2	109.4
H51	C5	H52	98.4	109.4
C7	C6	H61	109.2	109.5
C7	C6	H62	109.3	109.5
C6	C7	C8	111.4	109.5
C6	C7	N7	106.9	109.5
C6	C7	H7	110.4	109.5
H61	C6	H62	100.9	109.4
C8	C7	N7	110.9	109.5
C8	C7	H7	106.3	109.4
C7	C8	C9	111.6	109.5
C7	C8	N8	105.6	109.5
C7	C8	H8	110.9	109.4
N7	C7	H7	110.9	109.5
C7	N7	C	122.9	120.0
C7	N7	HN7	122.8	120.0
C9	C8	N8	110.4	109.5
C9	C8	H8	106.3	109.4
C8	C9	H91	111.6	109.5
C8	C9	H92	111.4	109.4
C8	C9	H93	111.4	109.5
N8	C8	H8	112.1	109.5
C8	N8	HN81	105.7	106.7
C8	N8	HN82	113.7	106.7
H91	C9	H92	111.4	109.4
H91	C9	H93	111.4	109.6
H92	C9	H93	99.0	109.5
C	N7	HN7	114.3	120.0
N7	C	O	121.2	120.0
N7	C	OXT	117.7	120.0
O	C	OXT	121.0	120.0
C	OXT	HXT	117.6	120.0
HN81	N8	HN82	113.7	106.7

Torsion Angles for DSD

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
O2	C1	O1	C2	177.7	180.1
O1	C1	O2	HO2	180.1	359.9
O1	C1	C2	C3	77.8	0.1
O1	C1	C2	H21	203.0	240.0
O1	C1	C2	H22	312.6	120.0
O1	C1	O2	C2	182.2	179.9
O2	C1	C2	C3	260.0	180.0
O2	C1	C2	H21	25.2	59.9
O2	C1	C2	H22	134.8	299.9
O1	C1	C2	O2	177.8	180.1
C2	C1	O2	HO2	357.9	180.0
C3	C2	C1	H21	234.8	120.1
C3	C2	C1	H22	125.2	240.1
C1	C2	C3	C4	179.7	180.0
C1	C2	C3	H31	305.0	60.0
C1	C2	C3	H32	54.4	299.9
H21	C2	C1	H22	250.4	120.0
HO2	O2	C1	C2	357.9	180.0
C1	C2	C3	H21	125.2	239.9
C1	C2	C3	H22	234.8	119.9
H21	C2	C3	H22	109.6	240.1
C4	C3	C2	H31	234.7	120.0
C4	C3	C2	H32	125.3	240.1
C2	C3	C4	C5	194.7	180.0
C2	C3	C4	H41	320.0	59.9
C2	C3	C4	H42	69.5	299.9
H31	C3	C2	H32	250.6	120.1
C1	C2	H21	C3	234.4	120.1
C1	C2	H21	H22	117.2	240.0
C3	C2	H21	H22	242.8	119.9
H21	C2	C3	C4	54.4	300.1
H21	C2	C3	H31	179.7	180.1
H21	C2	C3	H32	289.2	60.0
C1	C2	H22	C3	125.6	240.0
C1	C2	H22	H21	242.8	120.0
C3	C2	H22	H21	117.2	240.0
H22	C2	C3	C4	304.9	60.1
H22	C2	C3	H31	70.2	300.0
H22	C2	C3	H32	179.6	179.9
C4	C3	C2	H21	54.4	300.1
C4	C3	C2	H22	304.9	60.1
C2	C3	C4	H31	125.3	239.9
C2	C3	C4	H32	234.7	119.9
H31	C3	C4	H32	109.4	240.0
C5	C4	C3	H41	234.8	120.1
C5	C4	C3	H42	125.2	240.1
C3	C4	C5	C6	182.9	180.0
C3	C4	C5	H51	308.2	59.9
C3	C4	C5	H52	57.6	300.0
H41	C4	C3	H42	250.4	119.9
H31	C3	C2	H21	179.7	180.1
H31	C3	C2	H22	70.2	300.0
C2	C3	H31	C4	232.8	120.1
C2	C3	H31	H32	116.4	240.0
C4	C3	H31	H32	243.6	119.9
H31	C3	C4	C5	69.5	300.1
H31	C3	C4	H41	194.7	179.9
H31	C3	C4	H42	304.2	60.0
H32	C3	C2	H21	289.2	60.0
H32	C3	C2	H22	179.6	179.9
C2	C3	H32	C4	127.2	240.1
C2	C3	H32	H31	243.6	120.1
C4	C3	H32	H31	116.4	240.0
H32	C3	C4	C5	320.0	60.1
H32	C3	C4	H41	85.2	300.0
H32	C3	C4	H42	194.8	180.0
C5	C4	C3	H31	69.5	300.1
C5	C4	C3	H32	320.0	60.1
C3	C4	C5	H41	125.2	239.9
C3	C4	C5	H42	234.8	119.9
H41	C4	C5	H42	109.5	240.1
C6	C5	C4	H51	234.7	120.1
C6	C5	C4	H52	125.3	240.0
C4	C5	C6	C7	192.6	180.0
C4	C5	C6	H61	317.8	59.9
C4	C5	C6	H62	67.4	300.0
H51	C5	C4	H52	250.6	119.9
H41	C4	C3	H31	194.7	179.9
H41	C4	C3	H32	85.2	300.0
C3	C4	H41	C5	237.2	120.1
C3	C4	H41	H42	118.6	240.1
C5	C4	H41	H42	241.4	119.9
H41	C4	C5	C6	57.7	300.1
H41	C4	C5	H51	182.9	180.0
H41	C4	C5	H52	292.4	60.1
H42	C4	C3	H31	304.2	60.0
H42	C4	C3	H32	194.8	180.0
C3	C4	H42	C5	122.8	240.0
C3	C4	H42	H41	241.4	120.0
C5	C4	H42	H41	118.6	240.0
H42	C4	C5	C6	308.1	60.1
H42	C4	C5	H51	73.4	299.9
H42	C4	C5	H52	182.8	180.1
C6	C5	C4	H41	57.7	300.1
C6	C5	C4	H42	308.1	60.1
C4	C5	C6	H51	125.3	239.9
C4	C5	C6	H52	234.7	120.0
H51	C5	C6	H52	109.4	240.0
C7	C6	C5	H61	234.8	120.1
C7	C6	C5	H62	125.2	240.0
C5	C6	C7	C8	290.6	180.0
C5	C6	C7	N7	169.3	60.0
C5	C6	C7	H7	48.5	299.9
H61	C6	C5	H62	250.4	119.9
H51	C5	C4	H41	182.9	180.0
H51	C5	C4	H42	73.4	299.9
C4	C5	H51	C6	235.8	120.1
C4	C5	H51	H52	117.9	240.1
C6	C5	H51	H52	242.1	120.0
H51	C5	C6	C7	67.3	300.1
H51	C5	C6	H61	192.5	180.0
H51	C5	C6	H62	302.1	60.1
H52	C5	C4	H41	292.4	60.1
H52	C5	C4	H42	182.8	180.1
C4	C5	H52	C6	124.2	240.0
C4	C5	H52	H51	242.1	119.9
C6	C5	H52	H51	117.9	240.0
H52	C5	C6	C7	317.9	60.0
H52	C5	C6	H61	83.1	299.9
H52	C5	C6	H62	192.7	180.0
C7	C6	C5	H51	67.3	300.1
C7	C6	C5	H52	317.9	60.0
C5	C6	C7	H61	125.2	239.9
C5	C6	C7	H62	234.8	120.0
H61	C6	C7	H62	109.6	240.1
C8	C7	C6	N7	121.3	120.0
C8	C7	C6	H7	242.1	240.1
C6	C7	C8	C9	297.8	180.1
C6	C7	C8	N8	177.8	59.9
C6	C7	C8	H8	56.1	299.9
N7	C7	C6	H7	120.8	120.0
C6	C7	N7	C	224.3	210.0
C6	C7	N7	HN7	44.3	30.0
H61	C6	C5	H51	192.5	180.0
H61	C6	C5	H52	83.1	299.9
C5	C6	H61	C7	230.1	120.1
C5	C6	H61	H62	115.0	240.1
C7	C6	H61	H62	245.0	120.0
H61	C6	C7	C8	165.4	300.1
H61	C6	C7	N7	44.0	180.1
H61	C6	C7	H7	283.3	60.0
H62	C6	C5	H51	302.1	60.1
H62	C6	C5	H52	192.7	180.0
C5	C6	H62	C7	129.9	240.0
C5	C6	H62	H61	245.0	120.0
C7	C6	H62	H61	115.0	240.0
H62	C6	C7	C8	55.8	60.0
H62	C6	C7	N7	294.5	300.0
H62	C6	C7	H7	173.7	179.9
C8	C7	C6	H61	165.4	300.1
C8	C7	C6	H62	55.8	60.0
C6	C7	C8	N7	241.0	239.9
C6	C7	C8	H7	120.3	120.0
N7	C7	C8	H7	239.3	240.0
C8	C7	N7	C	102.7	90.0
C8	C7	N7	HN7	282.7	269.9
C9	C8	C7	N8	120.0	120.1
C9	C8	C7	H8	241.7	240.1
C7	C8	C9	H91	180.0	180.0
C7	C8	C9	H92	305.2	299.9
C7	C8	C9	H93	54.7	59.9
N8	C8	C7	H8	121.7	120.0
C7	C8	N8	HN81	180.0	60.0
C7	C8	N8	HN82	54.7	173.8
N7	C7	C6	H61	44.0	180.1
N7	C7	C6	H62	294.5	300.0
C6	C7	N7	C8	121.6	120.1
C6	C7	N7	H7	239.6	240.0
C8	C7	N7	H7	117.9	119.9
N7	C7	C8	C9	56.8	300.1
N7	C7	C8	N8	296.8	180.0
N7	C7	C8	H8	175.1	60.0
C	N7	C7	HN7	180.0	180.0
C7	N7	C	O	15.4	360.0
C7	N7	C	OXT	192.4	180.0
H7	C7	C6	H61	283.3	60.0
H7	C7	C6	H62	173.7	179.9
C6	C7	H7	C8	239.0	240.0
C6	C7	H7	N7	118.4	120.0
C8	C7	H7	N7	239.3	240.0
H7	C7	C8	C9	177.5	60.1
H7	C7	C8	N8	57.5	299.9
H7	C7	C8	H8	295.8	180.0
H7	C7	N7	C	344.8	330.0
H7	C7	N7	HN7	164.8	150.0
C9	C8	C7	N7	56.8	300.1
C9	C8	C7	H7	177.5	60.1
C7	C8	C9	N8	242.8	239.9
C7	C8	C9	H8	121.1	119.9
N8	C8	C9	H8	238.2	240.0
C9	C8	N8	HN81	59.2	299.9
C9	C8	N8	HN82	293.9	53.7
H91	C9	C8	H92	234.7	240.1
H91	C9	C8	H93	125.2	120.1
H92	C9	C8	H93	250.5	240.1
N8	C8	C7	N7	296.8	180.0
N8	C8	C7	H7	57.5	299.9
C7	C8	N8	C9	120.8	120.1
C7	C8	N8	H8	239.0	240.0
C9	C8	N8	H8	118.2	119.9
N8	C8	C9	H91	297.2	300.1
N8	C8	C9	H92	62.4	60.0
N8	C8	C9	H93	171.9	180.0
HN81	N8	C8	HN82	125.3	246.2
H8	C8	C7	N7	175.1	60.0
H8	C8	C7	H7	295.8	180.0
C7	C8	H8	C9	238.5	240.0
C7	C8	H8	N8	117.9	120.0
C9	C8	H8	N8	239.3	240.0
H8	C8	C9	H91	58.9	60.1
H8	C8	C9	H92	184.2	180.0
H8	C8	C9	H93	293.7	299.9
H8	C8	N8	HN81	301.0	180.0
H8	C8	N8	HN82	175.7	293.8
H91	C9	C8	N8	297.2	300.1
H91	C9	C8	H8	58.9	60.1
C8	C9	H91	H92	125.2	119.9
C8	C9	H91	H93	234.8	239.9
H92	C9	H91	H93	109.5	120.0
H92	C9	C8	N8	62.4	60.0
H92	C9	C8	H8	184.2	180.0
C8	C9	H92	H91	234.7	240.0
C8	C9	H92	H93	117.3	120.0
H91	C9	H92	H93	242.7	239.9
H93	C9	C8	N8	171.9	180.0
H93	C9	C8	H8	293.7	299.9
C8	C9	H93	H91	125.3	120.1
C8	C9	H93	H92	242.7	240.1
H91	C9	H93	H92	117.3	120.0
C	N7	C7	H7	344.8	330.0
C7	N7	C	HN7	180.0	180.0
O	C	N7	OXT	183.0	180.0
N7	C	OXT	HXT	180.0	180.0
HN7	N7	C7	H7	164.8	150.0
C7	N7	HN7	C	180.0	180.0
HN7	N7	C	O	195.4	180.0
HN7	N7	C	OXT	12.4	360.0
O	C	N7	HN7	195.4	180.0
N7	C	O	OXT	176.9	180.0
O	C	OXT	HXT	357.0	360.0
OXT	C	N7	HN7	12.4	360.0
N7	C	OXT	O	182.9	180.0
HN81	N8	C8	H8	301.0	180.0
C8	N8	HN81	HN82	234.7	113.8
HN82	N8	C8	H8	175.7	293.8
C8	N8	HN82	HN81	120.9	246.3