PDB Chemical Component H5N

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 H5N

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	C2	1.511	1.507
C2	C5	1.385	1.384
C2	C3	1.382	1.382
C5	C6	1.384	1.381
C3	C4	1.384	1.381
C6	C7	1.389	1.390
C4	C7	1.386	1.390
C7	S1	1.780	1.761
O4	C21	1.433	1.429
N6	N5	1.312	1.286
N6	N1	1.356	1.286
N5	C14	1.359	1.347
F1	C16	1.342	1.351
C8	S1	1.830	1.815
C8	C21	1.525	1.531
C8	O1	1.424	1.429
C12	C21	1.535	1.532
C12	N1	1.470	1.464
C12	C11	1.531	1.532
N1	C13	1.311	1.351
C9	O1	1.436	1.429
C9	C11	1.534	1.530
C9	C10	1.513	1.531
C14	C13	1.370	1.382
C14	C15	1.461	1.478
C16	C15	1.383	1.402
C16	C17	1.375	1.363
F2	C17	1.346	1.351
C11	O3	1.424	1.429
O2	C10	1.428	1.429
C15	C20	1.380	1.401
C17	C18	1.392	1.466
N4	N3	1.131	1.123
C20	F4	1.341	1.351
C20	C19	1.375	1.364
C18	C19	1.389	1.465
C18	N2	1.435	1.324
N3	N2	1.249	1.124
C19	F3	1.346	1.352
C4	H5	1.080	1.079
C5	H6	1.080	1.080
C6	H7	1.080	1.080
C8	H8	1.100	1.089
C10	H10	1.100	1.090
C10	H11	1.100	1.090
C13	H14	1.080	1.080
C21	H15	1.100	1.090
C1	H3	1.100	1.090
C1	H1	1.100	1.090
C1	H2	1.101	1.090
C11	H12	1.100	1.090
C12	H13	1.100	1.090
C3	H4	1.080	1.080
C9	H9	1.100	1.091
O2	H16	0.950	0.967
O3	H17	0.950	0.967
O4	H18	0.950	0.967

Bond Angles for H5N

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C1	C2	C3	120.8	119.9
C2	C1	H3	109.5	109.5
C2	C1	H1	109.5	109.4
C2	C1	H2	109.5	109.5
C2	C5	H6	119.3	120.0
C2	C3	H4	119.2	120.0
C5	C6	C7	120.3	120.0
C6	C5	H6	119.2	120.0
C5	C6	H7	119.9	120.0
C3	C4	H5	119.8	120.1
C4	C7	C6	118.6	119.8
C6	C7	S1	122.1	120.1
C7	C6	H7	119.8	120.0
C4	C7	S1	119.3	120.1
C7	C4	H5	119.9	120.0
C7	S1	C8	104.6	103.0
O4	C21	H15	110.2	109.5
C21	C8	S1	110.8	109.5
O1	C8	S1	109.8	109.5
S1	C8	H8	105.2	109.5
C21	C8	O1	112.6	109.4
C21	C8	H8	108.4	109.5
C8	C21	H15	108.9	109.5
C8	O1	C9	113.1	114.1
O1	C8	H8	109.7	109.5
C12	C21	H15	108.8	109.5
C12	C11	O3	110.9	109.5
C12	C11	H12	108.7	109.5
N1	C13	H14	126.6	127.1
O1	C9	H9	109.7	109.5
C9	C11	O3	108.8	109.5
C9	C11	H12	108.6	109.6
C9	C10	H10	108.9	109.4
C9	C10	H11	108.9	109.4
C14	C13	H14	126.7	127.1
C16	C17	C18	121.5	119.1
O3	C11	H12	110.1	109.5
C11	O3	H17	109.5	114.0
O2	C10	H10	109.0	109.5
O2	C10	H11	109.0	109.5
C15	C20	F4	118.4	119.7
C15	C20	C19	121.8	120.7
C17	C18	C19	116.5	118.6
C17	C18	N2	124.6	120.7
C19	C20	F4	119.9	119.6
C20	C19	C18	121.6	119.2
C20	C19	F3	118.8	120.4
C19	C18	N2	118.9	120.7
C18	C19	F3	119.6	120.4
N3	N2	C18	119.5	120.0
H10	C10	H11	109.5	109.5
H3	C1	H1	109.4	109.5
H3	C1	H2	109.5	109.5
H1	C1	H2	109.5	109.5

Torsion Angles for H5N

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C1	C2	C5	H6	0.1	359.5
C1	C2	C3	H4	360.0	0.3
H3	C1	C2	H1	240.0	240.0
H3	C1	C2	H2	120.0	120.0
H1	C1	C2	H2	240.0	240.0
C6	C5	C2	H6	180.0	180.5
C2	C5	C6	H7	180.1	180.0
C3	C2	C1	H3	270.0	269.2
C3	C2	C1	H1	30.0	29.2
C3	C2	C1	H2	150.0	149.2
C3	C2	C5	H6	180.2	180.3
C2	C3	C4	H5	179.8	180.3
C2	C5	C6	H6	180.0	179.5
C4	C7	C6	C5	359.6	360.0
C5	C6	C7	S1	179.8	180.0
C7	C6	C5	H7	180.0	179.5
C3	C4	C7	S1	180.3	180.3
C7	C4	C3	H5	180.0	179.7
C7	C6	C5	H6	180.1	180.0
C5	C6	C7	H7	180.0	180.5
C4	C7	C6	S1	179.8	179.9
C6	C7	C4	H5	180.4	180.0
C6	C7	S1	C8	1.2	360.0
C5	C6	C7	C4	359.6	360.0
C3	C4	C7	H5	180.0	180.3
C6	C7	C4	S1	180.1	180.1
C4	C7	C6	H7	179.6	179.5
C4	C7	S1	C8	181.3	180.0
C4	C7	S1	C6	180.2	180.1
S1	C7	C6	H7	359.8	359.5
S1	C7	C4	H5	0.3	359.9
C21	C8	S1	C7	150.4	175.0
O1	C8	S1	C7	275.4	294.9
C7	S1	C8	H8	33.5	55.0
O4	C21	C8	S1	301.1	297.6
O4	C21	C8	H8	56.0	57.6
C8	C21	O4	H15	119.0	120.1
C12	C21	O4	H15	238.4	239.8
N6	N1	C13	H14	180.5	179.7
N5	C14	C13	H14	179.1	180.0
C21	C8	S1	O1	235.0	240.1
C21	C8	S1	H8	117.0	120.0
S1	C8	C21	H15	60.9	57.7
S1	C8	O1	C9	175.6	178.9
O1	C8	S1	H8	242.0	239.9
C7	S1	C8	C21	150.4	175.0
O4	C21	C8	H15	240.2	239.9
O1	C8	C21	S1	236.6	240.0
S1	C8	C21	H8	245.0	240.0
C21	C8	O1	C9	299.5	298.9
O1	C8	C21	H8	121.6	120.0
C12	C21	C8	H15	118.1	119.9
C7	S1	C8	O1	275.4	294.9
C21	C8	O1	S1	124.0	120.0
S1	C8	O1	H8	115.2	120.1
C21	C8	O1	H8	239.2	240.0
O1	C8	C21	H15	297.5	297.7
C8	O1	C9	H9	301.7	301.1
O4	C21	C12	H15	122.3	120.2
C12	C21	C8	S1	179.0	177.6
C12	C21	C8	O1	55.6	57.6
C12	C21	C8	H8	294.0	297.6
C8	C21	C12	H15	241.8	240.1
C12	N1	C13	H14	1.0	0.0
C11	C12	C21	H15	64.1	62.9
C9	C11	C12	O3	120.1	119.9
C9	C11	C12	H12	241.3	240.0
O3	C11	C12	H12	121.2	120.1
C12	C11	O3	H17	180.0	179.8
C14	C13	N1	H14	180.0	180.0
C9	O1	C8	S1	175.6	178.9
C9	O1	C8	H8	60.4	58.8
O1	C9	C11	O3	63.3	62.3
O1	C9	C11	H12	183.2	182.4
O1	C9	C10	H10	182.4	185.0
O1	C9	C10	H11	301.8	305.0
C8	O1	C9	C11	60.3	61.1
C12	C11	C9	O3	238.6	240.1
C12	C11	C9	H12	118.7	120.0
C11	C9	C10	H10	303.0	305.0
C11	C9	C10	H11	62.3	65.0
O3	C11	C9	H12	240.1	239.9
C9	C11	O3	H17	59.3	60.2
C8	O1	C9	C10	183.7	181.2
O2	C10	C9	H10	239.7	240.0
O2	C10	C9	H11	120.3	120.0
H10	C10	C9	H11	240.7	240.0
N1	C13	C14	H14	180.0	180.0
C15	C14	C13	H14	0.5	0.0
C14	C15	C20	F4	359.5	360.0
C14	C15	C20	C19	179.9	180.0
C16	C15	C20	F4	180.3	179.7
C16	C15	C20	C19	0.7	359.7
C16	C17	C18	C19	359.0	359.4
C16	C17	C18	N2	180.0	180.0
F2	C17	C18	N2	1.2	0.6
C12	C11	O3	H12	239.7	239.9
C9	C11	O3	H12	118.9	120.2
C9	C10	O2	H10	120.3	120.0
C9	C10	O2	H11	239.7	240.0
H10	C10	O2	H11	119.4	120.1
C19	C20	C15	F4	180.4	180.0
C15	C20	C19	C18	359.4	0.0
C15	C20	C19	F3	179.2	180.0
C20	C19	C18	C17	0.8	0.4
C19	C18	C17	N2	179.0	179.4
C17	C18	C19	F3	181.0	180.4
N3	N2	C18	C17	10.5	180.0
C15	C20	F4	C19	180.4	180.0
F4	C20	C19	C18	179.8	180.1
F4	C20	C19	F3	359.6	0.0
C15	C20	C19	F4	179.5	180.0
C17	C18	C19	C20	0.8	0.4
C20	C19	C18	N2	179.8	179.8
C18	C19	C20	F3	180.2	180.0
C17	C18	C19	N2	181.0	180.6
C18	C19	C20	F4	179.8	180.1
C20	C19	C18	F3	179.8	180.0
N3	N2	C18	C19	191.5	0.6
C17	C18	N2	C19	179.0	179.4
N2	C18	C19	F3	0.0	359.8
C17	C18	N2	N3	10.5	180.0
C19	C18	N2	N3	191.5	0.6
F3	C19	C20	F4	359.6	0.0
C20	C19	F3	C18	180.2	180.0
F3	C19	C18	N2	0.0	359.8
H5	C4	C7	C6	180.4	180.0
H5	C4	C7	S1	0.3	359.9
H6	C5	C6	C7	180.1	180.0
H6	C5	C6	H7	0.1	0.5
C5	C6	H7	C7	180.0	179.5
H7	C6	C5	H6	0.1	0.5
H7	C6	C7	S1	359.8	359.5
C21	C8	H8	S1	241.4	240.0
O1	C8	H8	S1	118.1	120.0
C21	C8	H8	O1	123.3	119.9
H8	C8	C21	H15	175.9	177.7
H8	C8	O1	C9	60.4	58.8
C9	C10	H10	H11	119.0	120.0
O2	C10	H10	H11	240.9	240.0
C9	C10	H11	H10	241.0	240.0
O2	C10	H11	H10	119.1	120.0
H15	C21	C8	S1	60.9	57.7
H15	C21	C8	O1	297.5	297.7
H15	C21	C8	H8	175.9	177.7
H3	C1	C2	C3	270.0	269.2
C2	C1	H3	H1	120.0	120.0
C2	C1	H3	H2	240.0	240.0
H1	C1	H3	H2	120.0	120.0
H1	C1	C2	C3	30.0	29.2
C2	C1	H1	H3	239.9	240.0
C2	C1	H1	H2	120.0	120.0
H3	C1	H1	H2	240.0	239.9
H2	C1	C2	C3	150.0	149.2
C2	C1	H2	H3	120.1	120.0
C2	C1	H2	H1	240.0	240.1
H3	C1	H2	H1	120.0	120.1
C12	C11	H12	O3	121.6	120.1
C9	C11	H12	O3	241.0	239.9
H12	C11	O3	H17	300.3	300.0
H13	C12	C21	H15	180.1	182.9
H13	C12	C11	O3	180.7	177.2
H13	C12	C11	H12	59.5	57.1
H4	C3	C4	H5	359.8	0.3
H9	C9	C11	O3	182.7	182.3
H9	C9	C11	H12	302.6	302.4
H9	C9	C10	H10	63.8	65.0
H9	C9	C10	H11	183.1	185.0
H16	O2	C10	H10	59.7	60.0
H16	O2	C10	H11	300.3	300.0
H17	O3	C11	H12	300.3	300.0
H18	O4	C21	H15	61.0	299.9