PDB Chemical Component YBN

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 YBN

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C	O	1.434	1.428
N	C18	1.464	1.468
N	C19	1.444	1.468
O	C1	1.406	1.358
S	C8	1.686	1.753
S	C9	1.689	1.759
C1	C2	1.415	1.387
C1	C21	1.401	1.388
O1	C6	1.463	1.429
O1	C7	1.497	1.350
C2	C3	1.416	1.382
O2	C7	1.204	1.217
C3	C4	1.412	1.383
O3	C15	1.339	1.357
O3	C16	1.449	1.429
C4	C5	1.410	1.382
C5	C6	1.526	1.507
C5	C21	1.403	1.381
C7	C8	1.469	1.418
C8	C15	1.389	1.354
C9	C10	1.406	1.400
C9	C14	1.409	1.399
C10	C11	1.420	1.374
C11	C12	1.384	1.389
C12	C13	1.402	1.360
C13	C14	1.408	1.414
C14	C15	1.430	1.452
C16	C17	1.515	1.531
C16	C20	1.533	1.531
C17	C18	1.533	1.531
C19	C20	1.537	1.531
C	H	1.100	1.090
C	HA	1.100	1.089
C	HB	1.099	1.090
N	HN	1.000	1.009
C2	H2	1.080	1.080
C3	H3	1.080	1.080
C4	H4	1.080	1.081
C6	H6	1.100	1.091
C6	H6A	1.100	1.090
C10	H10	1.080	1.080
C11	H11	1.080	1.081
C12	H12	1.080	1.080
C13	H13	1.080	1.081
C16	H16	1.100	1.090
C17	H17	1.100	1.090
C17	H17A	1.100	1.090
C18	H18	1.100	1.090
C18	H18A	1.100	1.089
C19	H19	1.100	1.090
C19	H19A	1.100	1.090
C20	H20	1.100	1.090
C20	H20A	1.100	1.090
C21	H21	1.080	1.080

Bond Angles for YBN

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C	O	C1	128.8	117.0
O	C	H	109.5	109.5
O	C	HA	109.4	109.5
O	C	HB	109.5	109.5
C18	N	C19	117.0	111.2
N	C18	C17	109.7	109.5
C18	N	HN	107.6	111.1
N	C18	H18	109.4	109.4
N	C18	H18A	109.4	109.4
N	C19	C20	110.6	109.6
C19	N	HN	107.6	111.0
N	C19	H19	109.2	109.5
N	C19	H19A	109.2	109.5
O	C1	C2	127.5	120.1
O	C1	C21	116.2	120.1
C8	S	C9	95.2	92.5
S	C8	C7	113.2	124.5
S	C8	C15	107.9	111.0
S	C9	C10	127.4	130.2
S	C9	C14	112.0	110.2
C2	C1	C21	116.3	119.8
C1	C2	C3	120.5	120.0
C1	C2	H2	119.7	120.0
C1	C21	C5	124.9	120.0
C1	C21	H21	117.6	120.0
C6	O1	C7	134.2	117.0
O1	C6	C5	114.6	109.5
O1	C6	H6	108.1	109.5
O1	C6	H6A	108.2	109.5
O1	C7	O2	127.7	120.0
O1	C7	C8	114.7	120.0
C2	C3	C4	121.3	120.0
C3	C2	H2	119.8	120.0
C2	C3	H3	119.4	120.0
O2	C7	C8	117.5	120.0
C3	C4	C5	119.1	120.1
C4	C3	H3	119.4	120.0
C3	C4	H4	120.5	119.9
C15	O3	C16	118.5	117.0
O3	C15	C8	120.4	122.9
O3	C15	C14	122.5	122.9
O3	C16	C17	107.5	109.5
O3	C16	C20	111.7	109.5
O3	C16	H16	109.5	109.5
C4	C5	C6	123.9	120.0
C4	C5	C21	117.9	120.1
C5	C4	H4	120.4	120.0
C6	C5	C21	118.2	120.0
C5	C6	H6	108.2	109.4
C5	C6	H6A	108.2	109.5
C5	C21	H21	117.5	120.0
C7	C8	C15	138.8	124.5
C8	C15	C14	116.8	114.2
C10	C9	C14	120.6	119.6
C9	C10	C11	115.0	120.2
C9	C10	H10	122.5	119.9
C9	C14	C13	122.7	118.8
C9	C14	C15	108.0	112.1
C10	C11	C12	125.1	120.3
C11	C10	H10	122.5	119.9
C10	C11	H11	117.5	119.9
C11	C12	C13	119.2	120.5
C12	C11	H11	117.4	119.9
C11	C12	H12	120.4	119.7
C12	C13	C14	117.3	120.5
C13	C12	H12	120.4	119.8
C12	C13	H13	121.3	119.8
C13	C14	C15	129.3	129.1
C14	C13	H13	121.4	119.7
C17	C16	C20	111.0	109.2
C16	C17	C18	109.1	109.3
C17	C16	H16	108.7	109.6
C16	C17	H17	109.6	109.5
C16	C17	H17A	109.5	109.5
C16	C20	C19	111.5	109.2
C20	C16	H16	108.4	109.6
C16	C20	H20	109.0	109.5
C16	C20	H20A	108.9	109.5
C18	C17	H17	109.6	109.5
C18	C17	H17A	109.6	109.5
C17	C18	H18	109.4	109.5
C17	C18	H18A	109.4	109.5
C20	C19	H19	109.2	109.4
C20	C19	H19A	109.2	109.4
C19	C20	H20	108.9	109.5
C19	C20	H20A	109.0	109.5
H	C	HA	109.5	109.4
H	C	HB	109.5	109.4
HA	C	HB	109.5	109.4
H6	C6	H6A	109.5	109.4
H17	C17	H17A	109.5	109.6
H18	C18	H18A	109.5	109.5
H19	C19	H19A	109.5	109.5
H20	C20	H20A	109.5	109.5

Torsion Angles for YBN

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C	O	C1	C2	51.5	0.0
C	O	C1	C21	230.3	179.7
H	C	O	HA	240.0	240.0
H	C	O	HB	120.0	120.0
HA	C	O	HB	240.0	240.0
C18	N	C19	C20	52.7	298.3
C19	N	C18	HN	238.9	235.9
C18	N	C19	H19	172.8	58.3
C18	N	C19	H19A	292.5	178.3
C16	C17	C18	N	56.9	300.8
N	C18	C17	H17	296.9	180.9
N	C18	C17	H17A	176.8	60.8
C17	C18	N	H18	240.0	240.0
C17	C18	N	H18A	120.0	120.0
H18	C18	N	H18A	240.0	240.0
C19	N	C18	C17	303.2	61.7
C18	N	C19	HN	121.1	124.2
C19	N	C18	H18	63.2	181.8
C19	N	C18	H18A	183.2	301.7
C16	C20	C19	N	310.5	59.2
C20	C19	N	H19	239.8	240.0
C20	C19	N	H19A	120.2	120.0
N	C19	C20	H20	190.2	299.2
N	C19	C20	H20A	70.7	179.1
H19	C19	N	H19A	240.3	240.0
C1	O	C	H	180.0	180.0
C1	O	C	HA	300.0	300.0
C1	O	C	HB	60.0	60.0
C2	C1	O	C21	181.2	180.3
O	C1	C2	C3	178.8	180.0
O	C1	C2	H2	358.8	359.9
O	C1	C21	C5	181.0	179.7
O	C1	C21	H21	1.0	359.9
C8	S	C9	C10	180.1	180.0
C8	S	C9	C14	359.2	0.0
O1	C7	C8	S	29.3	359.9
O2	C7	C8	S	212.3	180.0
O3	C15	C8	S	183.6	180.0
C7	C8	S	C15	177.5	180.1
S	C8	C15	C14	357.6	0.1
C9	S	C8	C7	179.4	180.0
C9	S	C8	C15	1.8	360.0
C10	C9	S	C14	181.0	180.0
S	C9	C10	C11	180.4	180.0
S	C9	C10	H10	0.4	0.0
S	C9	C14	C13	177.8	179.9
S	C9	C14	C15	359.6	0.0
O	C1	C2	C21	178.8	179.7
C2	C1	C21	C5	360.0	359.5
C2	C1	C21	H21	180.0	179.6
C1	C2	C3	C4	0.1	360.0
C3	C2	C1	H2	180.0	180.1
C1	C2	C3	H3	180.1	180.0
O	C1	C21	C2	181.1	180.3
C21	C1	C2	C3	360.0	0.3
C21	C1	C2	H2	180.0	180.2
C4	C5	C21	C1	0.0	0.5
C6	C5	C21	C1	180.5	180.3
C5	C21	C1	H21	180.0	179.8
C6	O1	C7	O2	357.2	360.0
C6	O1	C7	C8	180.5	180.0
C4	C5	C6	O1	165.8	90.0
O1	C6	C5	C21	345.4	270.3
C5	C6	O1	H6	239.2	240.0
C5	C6	O1	H6A	120.7	120.1
H6	C6	O1	H6A	241.5	240.0
S	C8	C7	O1	29.3	359.9
C7	O1	C6	C5	351.8	180.0
C7	O1	C6	H6	112.5	300.0
C7	O1	C6	H6A	231.0	60.0
O2	C7	O1	C8	176.7	179.9
O1	C7	C8	C15	205.8	180.0
C3	C2	C1	C21	360.0	0.3
C1	C2	C3	H2	180.0	179.9
C2	C3	C4	C5	360.0	0.0
C4	C3	C2	H3	180.0	180.0
C2	C3	C4	H4	180.0	180.0
S	C8	C7	O2	212.3	180.0
O1	C7	O2	C8	183.4	180.1
O2	C7	C8	C15	28.7	0.1
C4	C3	C2	H2	180.0	180.0
C2	C3	C4	H3	180.0	180.0
C3	C4	C5	C6	179.5	180.0
C3	C4	C5	C21	360.0	359.7
C5	C4	C3	H4	180.0	180.0
S	C8	C15	O3	183.6	180.0
C15	O3	C16	C17	154.9	150.0
C15	O3	C16	C20	276.9	269.7
C15	O3	C16	H16	37.0	29.8
C7	C8	C15	O3	7.0	359.9
C8	C15	O3	C14	173.6	180.1
C9	C14	C15	O3	175.7	180.0
C13	C14	C15	O3	357.7	0.1
C16	O3	C15	C8	119.6	90.1
C16	O3	C15	C14	306.0	270.0
C17	C16	O3	C20	238.0	240.3
O3	C16	C17	C18	64.9	177.6
C17	C16	O3	H16	117.9	120.2
O3	C16	C17	H17	184.9	297.4
O3	C16	C17	H17A	304.9	57.6
O3	C16	C20	C19	294.3	182.4
C20	C16	O3	H16	239.8	239.8
O3	C16	C20	H20	54.6	302.4
O3	C16	C20	H20A	174.0	62.5
C1	C21	C5	C4	0.0	0.5
O1	C6	C5	C4	165.8	90.0
C5	C4	C3	H3	179.9	180.0
C3	C4	C5	H4	180.0	180.0
C6	C5	C4	C21	179.6	180.3
C4	C5	C6	H6	45.1	330.0
C4	C5	C6	H6A	286.6	210.0
C4	C5	C21	H21	180.0	180.4
C1	C21	C5	C6	180.5	180.3
C5	C6	O1	C7	351.8	180.0
O1	C6	C5	H6	120.7	120.0
O1	C6	C5	H6A	239.3	240.0
C4	C5	C6	C21	180.4	179.7
C6	C5	C4	H4	359.5	360.0
C6	C5	C21	H21	0.5	0.1
H6	C6	C5	H6A	118.5	120.0
C1	C21	C5	H21	180.0	180.2
C4	C5	C21	C6	179.6	180.3
C21	C5	C4	H4	180.0	179.7
C21	C5	C6	H6	224.6	150.3
C21	C5	C6	H6A	106.1	30.3
C7	C8	S	C9	179.4	180.0
S	C8	C7	C15	183.6	179.9
O1	C7	C8	O2	177.1	179.9
O3	C15	C8	C7	7.0	359.9
C7	C8	C15	C14	181.0	180.0
C15	C8	S	C9	1.8	360.0
S	C8	C15	C7	176.6	180.1
C8	C15	O3	C16	119.6	90.1
O3	C15	C8	C14	186.0	179.9
C9	C14	C15	C8	1.9	360.0
C13	C14	C15	C8	183.8	180.0
S	C9	C10	C14	178.9	180.0
C10	C9	C14	C13	356.9	359.9
C10	C9	C14	C15	178.7	180.0
C9	C10	C11	C12	359.9	0.0
C11	C10	C9	H10	180.0	180.0
C9	C10	C11	H11	180.0	180.0
S	C9	C14	C10	180.9	180.0
O3	C15	C14	C9	175.7	180.0
C8	C15	C14	C9	1.9	360.0
C14	C9	C10	C11	1.5	0.0
C14	C9	C10	H10	181.5	180.0
C12	C13	C14	C9	3.1	0.1
C13	C14	C9	C15	178.2	179.9
C9	C14	C13	H13	183.1	180.0
C11	C10	C9	C14	1.5	0.0
C9	C10	C11	H10	180.0	180.0
C10	C11	C12	C13	0.1	360.0
C12	C11	C10	H11	180.0	180.0
C10	C11	C12	H12	180.1	180.0
C12	C11	C10	H10	180.0	180.0
C10	C11	C12	H11	180.0	180.0
C11	C12	C13	C14	358.5	359.9
C13	C12	C11	H12	180.0	180.0
C11	C12	C13	H13	178.4	180.0
C9	C14	C13	C12	3.1	0.1
C13	C12	C11	H11	180.1	180.0
C11	C12	C13	H12	180.0	180.0
C12	C13	C14	C15	180.8	180.0
C14	C13	C12	H13	180.0	180.0
O3	C15	C14	C13	357.7	0.1
C8	C15	C14	C13	183.8	180.0
C9	C14	C13	C15	182.3	180.1
C14	C13	C12	H12	178.5	180.0
C12	C13	C14	H13	180.0	180.0
C14	C15	O3	C16	306.0	270.0
O3	C15	C14	C8	173.8	180.1
C9	C14	C15	C13	178.0	179.9
C15	C14	C13	H13	0.8	360.0
N	C18	C17	C16	56.9	300.8
O3	C16	C17	C20	122.4	119.9
O3	C16	C17	H16	241.6	239.8
C17	C16	C20	C19	54.2	302.3
C20	C16	C17	H16	119.2	120.0
C17	C16	C20	H20	174.5	62.2
C17	C16	C20	H20A	294.0	182.4
C18	C17	C16	H17	240.0	240.1
C18	C17	C16	H17A	120.0	120.0
C16	C17	C18	H18	296.9	180.8
C16	C17	C18	H18A	176.9	60.8
H17	C17	C16	H17A	239.9	239.8
N	C19	C20	C16	310.5	59.2
O3	C16	C20	C17	240.1	240.1
O3	C16	C20	H16	120.8	120.1
C20	C16	C17	C18	302.5	57.7
C17	C16	C20	H16	240.7	240.0
C20	C16	C17	H17	62.4	177.6
C20	C16	C17	H17A	182.5	297.7
C16	C20	C19	H19	190.3	299.1
C16	C20	C19	H19A	70.6	179.2
C19	C20	C16	H20	239.7	240.1
C19	C20	C16	H20A	120.3	119.9
H20	C20	C16	H20A	240.6	239.9
C17	C18	N	C19	303.2	61.7
C17	C18	N	HN	64.3	185.9
N	C18	C17	H18	120.0	120.0
N	C18	C17	H18A	240.0	240.0
C18	C17	C16	C20	302.5	57.7
C18	C17	C16	H16	183.3	297.7
C16	C17	C18	H17	120.0	119.9
C16	C17	C18	H17A	240.1	240.0
H17	C17	C18	H17A	120.1	120.1
H18	C18	C17	H18A	120.0	120.0
C20	C19	N	HN	291.6	174.1
N	C19	C20	H19	120.2	120.0
N	C19	C20	H19A	239.8	240.0
C19	C20	C16	H16	173.5	62.3
C16	C20	C19	H20	120.3	119.9
C16	C20	C19	H20A	239.7	240.0
H19	C19	C20	H19A	119.6	119.9
H20	C20	C19	H20A	119.4	120.1
H	C	O	C1	180.0	180.0
O	C	H	HA	120.0	120.1
O	C	H	HB	240.0	240.0
HA	C	H	HB	120.0	119.9
HA	C	O	C1	300.0	300.0
O	C	HA	H	240.0	239.9
O	C	HA	HB	120.0	120.1
H	C	HA	HB	240.0	240.1
HB	C	O	C1	60.0	60.0
O	C	HB	H	120.0	120.1
O	C	HB	HA	240.0	239.9
H	C	HB	HA	120.0	119.9
C18	N	HN	C19	233.2	235.8
HN	N	C18	C17	64.3	185.9
HN	N	C18	H18	184.3	305.9
HN	N	C18	H18A	304.3	65.8
HN	N	C19	C20	291.6	174.1
HN	N	C19	H19	51.7	294.1
HN	N	C19	H19A	171.4	54.1
H2	C2	C1	C21	180.0	180.2
C1	C2	H2	C3	180.0	180.1
H2	C2	C3	C4	180.0	180.0
H2	C2	C3	H3	0.1	0.1
C2	C3	H3	C4	180.0	180.0
H3	C3	C2	H2	0.1	0.1
H3	C3	C4	C5	179.9	180.0
H3	C3	C4	H4	359.9	0.0
C3	C4	H4	C5	180.0	180.0
H4	C4	C3	H3	359.9	0.0
H4	C4	C5	C6	359.5	360.0
H4	C4	C5	C21	180.0	179.7
H6	C6	O1	C7	112.5	300.0
O1	C6	H6	C5	235.3	240.0
O1	C6	H6	H6A	117.7	120.0
H6	C6	C5	C21	224.6	150.3
C5	C6	H6	H6A	242.3	240.0
H6A	C6	O1	C7	231.0	60.0
O1	C6	H6A	C5	124.7	120.1
O1	C6	H6A	H6	242.4	240.0
H6A	C6	C5	C21	106.1	30.3
C5	C6	H6A	H6	117.7	120.0
H10	C10	C9	C14	181.5	180.0
C9	C10	H10	C11	180.0	180.0
H10	C10	C11	C12	180.0	180.0
H10	C10	C11	H11	360.0	360.0
C10	C11	H11	C12	180.0	180.0
H11	C11	C10	H10	360.0	360.0
H11	C11	C12	C13	180.1	180.0
H11	C11	C12	H12	0.1	360.0
C11	C12	H12	C13	180.0	180.0
H12	C12	C11	H11	0.1	360.0
H12	C12	C13	C14	178.5	180.0
H12	C12	C13	H13	358.4	0.0
C12	C13	H13	C14	180.0	180.0
H13	C13	C12	H12	358.4	0.0
H13	C13	C14	C15	0.8	360.0
O3	C16	H16	C17	117.1	120.2
O3	C16	H16	C20	237.8	239.9
C17	C16	H16	C20	120.7	119.7
H16	C16	C17	C18	183.3	297.7
H16	C16	C17	H17	303.3	57.6
H16	C16	C17	H17A	63.3	177.7
H16	C16	C20	C19	173.5	62.3
H16	C16	C20	H20	293.8	182.2
H16	C16	C20	H20A	53.2	302.4
H17	C17	C16	C20	62.4	177.6
C16	C17	H17	C18	240.3	240.3
H17	C17	C16	H16	303.3	57.6
C16	C17	H17	H17A	120.1	120.1
C18	C17	H17	H17A	239.8	239.9
H17	C17	C18	H18	176.9	60.9
H17	C17	C18	H18A	56.9	300.9
H17A	C17	C16	C20	182.5	297.7
C16	C17	H17A	C18	119.7	119.8
H17A	C17	C16	H16	63.3	177.7
C16	C17	H17A	H17	239.9	239.9
C18	C17	H17A	H17	120.2	120.1
H17A	C17	C18	H18	56.8	300.8
H17A	C17	C18	H18A	296.8	180.8
H18	C18	N	C19	63.2	181.8
N	C18	H18	C17	239.8	240.0
H18	C18	N	HN	184.3	305.9
N	C18	H18	H18A	119.9	119.9
H18	C18	C17	H17	176.9	60.9
H18	C18	C17	H17A	56.8	300.8
C17	C18	H18	H18A	240.1	240.0
H18A	C18	N	C19	183.2	301.7
N	C18	H18A	C17	120.2	120.0
H18A	C18	N	HN	304.3	65.8
N	C18	H18A	H18	240.1	240.1
H18A	C18	C17	H17	56.9	300.9
H18A	C18	C17	H17A	296.8	180.8
C17	C18	H18A	H18	119.9	120.0
N	C19	H19	C20	239.0	239.9
H19	C19	N	HN	51.7	294.1
N	C19	H19	H19A	119.5	120.0
C20	C19	H19	H19A	240.5	240.1
H19	C19	C20	H20	70.0	179.2
H19	C19	C20	H20A	310.5	59.1
N	C19	H19A	C20	121.0	120.1
H19A	C19	N	HN	171.4	54.1
N	C19	H19A	H19	240.5	240.0
C20	C19	H19A	H19	119.5	119.9
H19A	C19	C20	H20	310.3	59.3
H19A	C19	C20	H20A	190.9	299.2
C16	C20	H20	C19	238.2	240.2
H20	C20	C16	H16	293.8	182.2
C16	C20	H20	H20A	119.1	120.1
H20	C20	C19	H19	70.0	179.2
H20	C20	C19	H19A	310.3	59.3
C19	C20	H20	H20A	240.9	239.9
C16	C20	H20A	C19	121.8	119.8
H20A	C20	C16	H16	53.2	302.4
C16	C20	H20A	H20	240.9	239.8
H20A	C20	C19	H19	310.5	59.1
H20A	C20	C19	H19A	190.9	299.2
C19	C20	H20A	H20	119.1	120.1
C1	C21	H21	C5	180.0	179.8