PDB Chemical Component XDN

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 XDN

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	C2	1.465	1.531
C1	N5	1.372	1.468
C1	H11	1.100	1.090
C1	H12	1.100	1.090
C2	O2	1.383	1.429
C2	C3	1.552	1.532
C2	H2	1.100	1.089
O2	HO2	0.950	0.967
C3	O3	1.420	1.429
C3	C4	1.540	1.531
C3	H3	1.100	1.089
O3	HO3	0.949	0.968
C4	O4	1.421	1.429
C4	C5	1.555	1.531
C4	H4	1.101	1.089
O4	HO4	0.950	0.967
C5	N5	1.454	1.469
C5	H51	1.100	1.090
C5	H52	1.100	1.091
N5	HN5	1.000	1.009

Bond Angles for XDN

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	N5	116.1	109.6
C2	C1	H11	107.8	109.4
C2	C1	H12	107.8	109.4
C1	C2	O2	114.6	109.5
C1	C2	C3	114.7	109.3
C1	C2	H2	104.7	109.5
N5	C1	H11	107.8	109.5
N5	C1	H12	107.8	109.5
C1	N5	C5	115.0	111.2
C1	N5	HN5	108.1	111.0
H11	C1	H12	109.5	109.5
O2	C2	C3	112.1	109.5
O2	C2	H2	105.6	109.6
C2	O2	HO2	109.5	113.9
C3	C2	H2	103.8	109.5
C2	C3	O3	110.7	109.5
C2	C3	C4	109.2	109.1
C2	C3	H3	108.8	109.5
O3	C3	C4	108.5	109.5
O3	C3	H3	110.6	109.6
C3	O3	HO3	109.5	114.0
C4	C3	H3	108.9	109.6
C3	C4	O4	108.8	109.5
C3	C4	C5	109.1	109.3
C3	C4	H4	109.4	109.6
O4	C4	C5	109.2	109.5
O4	C4	H4	111.1	109.5
C4	O4	HO4	109.5	114.0
C5	C4	H4	109.2	109.5
C4	C5	N5	110.6	109.6
C4	C5	H51	109.2	109.5
C4	C5	H52	109.2	109.5
N5	C5	H51	109.2	109.4
N5	C5	H52	109.2	109.5
C5	N5	HN5	108.1	110.9
H51	C5	H52	109.5	109.4

Torsion Angles for XDN

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
N5	C1	C2	H11	239.0	240.0
N5	C1	C2	H12	121.0	120.0
C2	C1	N5	C5	309.2	298.3
C2	C1	N5	HN5	70.0	62.3
H11	C1	C2	H12	241.9	240.1
O2	C2	C1	C3	131.8	119.9
O2	C2	C1	H2	244.9	239.8
C1	C2	O2	HO2	180.0	60.0
C3	C2	C1	H2	113.0	119.9
C1	C2	C3	O3	194.4	182.5
C1	C2	C3	C4	313.8	302.3
C1	C2	C3	H3	72.6	62.3
C2	C1	N5	H11	121.0	120.0
C2	C1	N5	H12	239.0	240.0
N5	C1	C2	O2	177.2	179.1
N5	C1	C2	C3	45.4	59.2
N5	C1	C2	H2	292.4	299.2
H11	C1	N5	H12	118.1	120.0
C4	C5	N5	C1	56.9	61.7
C1	N5	C5	H51	296.8	301.7
C1	N5	C5	H52	177.1	181.8
C5	N5	C1	HN5	239.2	236.0
C2	C1	H11	N5	234.0	239.9
C2	C1	H11	H12	117.0	119.9
H11	C1	C2	O2	298.2	299.1
H11	C1	C2	C3	166.4	179.2
H11	C1	C2	H2	53.3	59.3
N5	C1	H11	H12	243.0	240.0
H11	C1	N5	C5	188.2	178.3
H11	C1	N5	HN5	309.0	302.3
C2	C1	H12	N5	126.0	120.1
C2	C1	H12	H11	243.0	240.1
H12	C1	C2	O2	56.3	59.1
H12	C1	C2	C3	284.4	299.2
H12	C1	C2	H2	171.4	179.2
N5	C1	H12	H11	117.0	120.0
H12	C1	N5	C5	70.2	58.3
H12	C1	N5	HN5	190.9	182.3
O2	C2	C1	N5	177.2	179.1
O2	C2	C1	H11	298.2	299.1
O2	C2	C1	H12	56.3	59.1
C1	C2	O2	C3	226.9	240.2
C1	C2	O2	H2	114.6	120.1
C3	C2	O2	H2	247.7	239.9
O2	C2	C3	O3	61.4	62.5
O2	C2	C3	C4	180.8	182.4
O2	C2	C3	H3	299.6	302.4
C3	C2	C1	N5	45.4	59.2
C3	C2	C1	H11	166.4	179.2
C3	C2	C1	H12	284.4	299.2
C1	C2	C3	O2	133.0	119.9
C1	C2	C3	H2	246.4	240.1
O2	C2	C3	H2	113.4	120.1
C3	C2	O2	HO2	313.1	179.8
O3	C3	C2	C4	240.6	240.2
O3	C3	C2	H3	121.8	120.2
C2	C3	O3	HO3	180.0	180.0
C4	C3	C2	H3	241.2	240.0
C2	C3	C4	O4	170.8	177.6
C2	C3	C4	C5	51.7	57.7
C2	C3	C4	H4	292.3	297.7
H2	C2	C1	N5	292.4	299.2
H2	C2	C1	H11	53.3	59.3
H2	C2	C1	H12	171.4	179.2
C1	C2	H2	O2	238.7	239.9
C1	C2	H2	C3	120.6	119.8
O2	C2	H2	C3	241.9	239.9
H2	C2	O2	HO2	65.4	299.9
H2	C2	C3	O3	308.0	302.4
H2	C2	C3	C4	67.4	62.2
H2	C2	C3	H3	186.2	182.2
HO2	O2	C2	C3	313.1	179.8
HO2	O2	C2	H2	65.4	299.9
O3	C3	C2	H2	308.0	302.4
C2	C3	O3	C4	119.8	119.6
C2	C3	O3	H3	239.3	239.8
C4	C3	O3	H3	119.5	120.2
O3	C3	C4	O4	291.6	297.4
O3	C3	C4	C5	172.5	177.5
O3	C3	C4	H4	53.1	57.6
C4	C3	C2	H2	67.4	62.2
C2	C3	C4	O3	239.2	240.2
C2	C3	C4	H3	118.7	120.0
O3	C3	C4	H3	239.5	239.8
C4	C3	O3	HO3	60.2	60.4
O4	C4	C3	C5	119.1	119.9
O4	C4	C3	H4	238.5	239.9
C3	C4	O4	HO4	180.0	180.0
C5	C4	C3	H4	119.4	120.0
C3	C4	C5	N5	302.4	300.8
C3	C4	C5	H51	62.6	60.8
C3	C4	C5	H52	182.3	180.8
H3	C3	C2	H2	186.2	182.2
C2	C3	H3	O3	121.8	120.1
C2	C3	H3	C4	241.1	240.3
O3	C3	H3	C4	119.2	120.2
H3	C3	O3	HO3	300.7	300.1
H3	C3	C4	O4	52.1	57.6
H3	C3	C4	C5	293.0	297.7
H3	C3	C4	H4	173.6	177.8
HO3	O3	C3	C4	60.2	60.4
HO3	O3	C3	H3	300.7	300.1
O4	C4	C3	H3	52.1	57.6
C3	C4	O4	C5	241.0	240.2
C3	C4	O4	H4	120.5	120.2
C5	C4	O4	H4	239.5	239.9
O4	C4	C5	N5	183.6	180.9
O4	C4	C5	H51	303.7	300.9
O4	C4	C5	H52	63.4	60.9
C1	N5	C5	C4	56.9	61.7
C5	C4	C3	H3	293.0	297.7
C3	C4	C5	O4	118.9	119.9
C3	C4	C5	H4	240.5	240.0
O4	C4	C5	H4	121.6	120.1
C5	C4	O4	HO4	299.0	299.8
N5	C5	C4	H51	239.8	240.0
N5	C5	C4	H52	120.2	120.0
C4	C5	N5	HN5	296.1	297.7
H51	C5	C4	H52	240.4	240.1
H4	C4	C3	H3	173.6	177.8
C3	C4	H4	O4	239.8	239.9
C3	C4	H4	C5	119.3	119.8
O4	C4	H4	C5	239.5	239.9
H4	C4	O4	HO4	59.5	59.8
H4	C4	C5	N5	61.9	60.8
H4	C4	C5	H51	182.1	180.8
H4	C4	C5	H52	301.7	300.8
HO4	O4	C4	C5	299.0	299.8
HO4	O4	C4	H4	59.5	59.8
C5	N5	C1	H11	188.2	178.3
C5	N5	C1	H12	70.2	58.3
C1	N5	C5	HN5	120.8	124.1
N5	C5	C4	H4	61.9	60.8
C4	C5	N5	H51	120.1	120.1
C4	C5	N5	H52	239.8	240.0
H51	C5	N5	H52	119.7	119.9
H51	C5	C4	H4	182.1	180.8
C4	C5	H51	N5	239.0	239.9
C4	C5	H51	H52	119.5	120.0
N5	C5	H51	H52	240.5	240.1
H51	C5	N5	HN5	176.0	177.6
H52	C5	C4	H4	301.7	300.8
C4	C5	H52	N5	121.0	120.1
C4	C5	H52	H51	240.5	240.0
N5	C5	H52	H51	119.5	119.9
H52	C5	N5	HN5	56.3	57.7
HN5	N5	C1	H11	309.0	302.3
HN5	N5	C1	H12	190.9	182.3
C1	N5	HN5	C5	235.0	235.8
HN5	N5	C5	H51	176.0	177.6
HN5	N5	C5	H52	56.3	57.7