PDB Chemical Component Y08

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 Y08

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C11	N1	1.321	1.347
N1	C12	1.500	1.465
N1	HN1	1.000	0.970
O1	C04	1.485	1.429
O1	HO1	0.950	0.967
C17	N2	1.479	1.470
C18	N2	1.370	1.347
N2	C16	1.482	1.469
O2	C06	1.505	1.430
O2	HO2	0.950	0.966
O3	C05	1.487	1.429
O3	HO3	0.950	0.967
C11	O4	1.227	1.213
O5	C18	1.242	1.213
C22	O6	1.477	1.429
O6	C07	1.444	1.429
C02	C01	1.508	1.507
C09	C01	1.513	1.530
C01	C10	1.553	1.530
C01	C08	1.524	1.530
C03	C02	1.333	1.309
C02	H02	1.081	1.080
C04	C03	1.492	1.508
C03	H03	1.080	1.081
C05	C04	1.538	1.530
C04	H04	1.100	1.089
C05	C06	1.518	1.530
C05	H05	1.100	1.091
C06	C07	1.514	1.530
C06	H06	1.100	1.090
C07	C11	1.501	1.508
C07	H07	1.100	1.090
C08	H08	1.100	1.090
C08	H08A	1.100	1.089
C08	H08B	1.100	1.091
C09	H09	1.100	1.090
C09	H09A	1.100	1.090
C09	H09B	1.100	1.089
C10	H10	1.100	1.090
C10	H10A	1.101	1.089
C10	H10B	1.100	1.090
C12	C13	1.516	1.530
C12	H12	1.100	1.090
C12	H12A	1.100	1.090
C13	C14	1.555	1.530
C13	C17	1.567	1.532
C13	H13	1.100	1.089
C14	C15	1.551	1.530
C14	H14	1.101	1.091
C14	H14A	1.100	1.090
C15	C16	1.572	1.533
C15	H15	1.100	1.090
C15	H15A	1.099	1.090
C16	H16	1.100	1.090
C16	H16A	1.100	1.090
C17	H17	1.100	1.090
C17	H17A	1.100	1.090
C18	C19	1.559	1.507
C20	C19	1.587	1.530
C21	C19	1.509	1.530
C19	H19	1.100	1.091
C20	C21	1.530	1.531
C20	H20	1.100	1.090
C20	H20A	1.100	1.090
C21	H21	1.100	1.090
C21	H21A	1.100	1.089
C22	H22	1.100	1.090
C22	H22A	1.100	1.090
C22	H22B	1.100	1.090

Bond Angles for Y08

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C11	N1	C12	123.2	120.0
C11	N1	HN1	118.4	120.0
C12	N1	HN1	118.4	120.0
N1	C12	C13	111.8	109.4
N1	C12	H12	108.9	109.5
N1	C12	H12A	108.9	109.5
C04	O1	HO1	109.5	114.1
O1	C04	C03	110.6	109.4
O1	C04	H04	110.8	109.5
N2	C16	C15	110.6	108.8
N2	C16	H16	109.2	109.6
N2	C16	H16A	109.2	109.6
C06	O2	HO2	109.5	114.0
O2	C06	C05	101.5	109.5
O2	C06	C07	108.9	109.4
O2	C06	H06	110.9	109.5
C05	O3	HO3	109.5	114.0
O3	C05	C04	110.1	109.5
O3	C05	C06	109.2	109.5
O3	C05	H05	109.0	109.4
O5	C18	C19	122.4	120.0
O6	C07	C06	104.5	109.5
O6	C07	C11	112.6	109.5
O6	C07	H07	110.9	109.5
C02	C01	C10	109.6	109.5
C02	C01	C08	106.7	109.5
C09	C01	C10	106.2	109.4
C08	C01	C10	111.2	109.5
C01	C10	H10	109.5	109.5
C01	C10	H10A	109.5	109.5
C01	C10	H10B	109.5	109.5
C01	C08	H08	109.5	109.5
C01	C08	H08A	109.5	109.5
C01	C08	H08B	109.5	109.5
C03	C02	H02	117.3	120.0
C04	C03	H03	122.0	120.0
C05	C04	H04	110.1	109.5
C06	C05	H05	108.6	109.5
C05	C06	C07	113.6	109.5
C05	C06	H06	110.7	109.5
C07	C06	H06	110.8	109.5
C06	C07	C11	108.8	109.5
C06	C07	H07	109.9	109.5
C11	C07	H07	110.1	109.5
H08	C08	H08A	109.5	109.4
H08	C08	H08B	109.5	109.5
H08A	C08	H08B	109.5	109.5
H09	C09	H09A	109.5	109.4
H09	C09	H09B	109.5	109.5
H09A	C09	H09B	109.5	109.5
H10	C10	H10A	109.5	109.5
H10	C10	H10B	109.5	109.4
H10A	C10	H10B	109.5	109.4
C13	C12	H12	108.9	109.5
C13	C12	H12A	108.9	109.5
C12	C13	C14	103.2	109.5
C12	C13	C17	107.5	109.5
C12	C13	H13	111.8	109.5
H12	C12	H12A	109.4	109.5
C14	C13	C17	111.8	109.3
C14	C13	H13	111.2	109.5
C13	C14	C15	110.6	109.6
C13	C14	H14	109.2	109.5
C13	C14	H14A	109.2	109.5
C17	C13	H13	111.1	109.5
C13	C17	H17	110.1	109.6
C13	C17	H17A	110.0	109.6
C15	C14	H14	109.2	109.4
C15	C14	H14A	109.2	109.5
C14	C15	C16	113.5	109.3
C14	C15	H15	108.5	109.5
C14	C15	H15A	108.5	109.5
H14	C14	H14A	109.5	109.4
C16	C15	H15	108.4	109.5
C16	C15	H15A	108.5	109.5
C15	C16	H16	109.2	109.6
C15	C16	H16A	109.2	109.5
H15	C15	H15A	109.4	109.5
H16	C16	H16A	109.5	109.7
H17	C17	H17A	109.5	109.7
C18	C19	H19	112.2	115.5
C20	C19	H19	111.8	117.5
C21	C19	H19	113.0	117.5
C21	C20	H20	120.4	117.5
C21	C20	H20A	120.3	117.5
C20	C21	H21	119.5	117.4
C20	C21	H21A	119.5	117.5
H20	C20	H20A	109.5	115.5
H21	C21	H21A	109.5	115.6
H22	C22	H22A	109.5	109.5
H22	C22	H22B	109.5	109.5
H22A	C22	H22B	109.5	109.5

Torsion Angles for Y08

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C12	N1	C11	HN1	180.0	180.3
C11	N1	C12	C13	99.0	179.7
C11	N1	C12	H12	219.4	299.7
C11	N1	C12	H12A	338.7	59.7
C11	N1	C12	HN1	180.0	179.7
C13	C12	N1	H12	239.6	240.1
C13	C12	N1	H12A	120.4	120.0
N1	C12	C13	C14	283.8	294.9
N1	C12	C13	C17	165.5	175.1
N1	C12	C13	H13	43.4	55.1
H12	C12	N1	H12A	240.7	239.9
C11	N1	HN1	C12	180.0	180.3
HN1	N1	C12	C13	279.1	0.1
HN1	N1	C12	H12	39.4	120.0
HN1	N1	C12	H12A	158.7	240.1
O3	C05	C04	O1	316.7	65.0
O1	C04	C03	H03	315.6	185.0
C05	C04	O1	H04	118.6	120.1
HO1	O1	C04	C03	180.0	60.0
HO1	O1	C04	H04	303.3	180.0
C17	N2	C16	H16	180.1	173.4
C17	N2	C16	H16A	299.8	293.8
C18	N2	C16	H16	357.3	353.1
C18	N2	C16	H16A	117.0	113.6
C14	C15	C16	N2	310.7	305.4
N2	C16	C15	H15	190.1	185.4
N2	C16	C15	H15A	71.4	65.4
C15	C16	N2	H16	239.9	240.2
C15	C16	N2	H16A	120.2	119.7
H16	C16	N2	H16A	240.3	239.5
O3	C05	C06	O2	314.7	300.0
O6	C07	C06	O2	152.5	174.7
O2	C06	C05	H05	196.0	180.1
C05	C06	O2	C07	120.1	120.0
C05	C06	O2	H06	242.3	240.0
C07	C06	O2	H06	122.2	120.0
O2	C06	C07	C11	273.0	294.7
O2	C06	C07	H07	33.6	54.7
HO2	O2	C06	C05	180.0	60.0
HO2	O2	C06	C07	59.9	300.0
HO2	O2	C06	H06	297.7	180.0
O2	C06	C05	O3	314.7	300.0
O3	C05	C04	H04	75.8	185.0
C06	C05	O3	H05	241.6	240.0
O3	C05	C06	C07	71.4	60.0
O3	C05	C06	H06	196.8	180.0
HO3	O3	C05	C04	180.0	300.1
HO3	O3	C05	C06	302.9	60.1
HO3	O3	C05	H05	61.4	180.1
O4	C11	N1	C12	1.1	0.0
O4	C11	N1	HN1	181.1	179.7
O5	C18	C19	H19	94.2	145.7
C22	O6	C07	H07	308.3	356.8
O2	C06	C07	O6	152.5	174.7
C05	C06	C07	O6	40.2	54.8
O6	C07	C06	H06	274.8	294.7
C06	C07	O6	C11	117.9	120.0
C06	C07	O6	H07	241.7	240.0
C11	C07	O6	H07	123.8	120.0
C09	C01	C02	C10	242.6	240.0
C08	C01	C02	C10	120.5	120.0
C02	C01	C10	H10	180.0	179.9
C02	C01	C10	H10A	300.0	300.0
C02	C01	C10	H10B	60.0	60.0
C02	C01	C08	H08	180.0	300.0
C02	C01	C08	H08A	300.0	60.0
C02	C01	C08	H08B	60.0	180.0
C02	C01	C09	C10	119.5	120.0
C08	C01	C09	C10	238.8	240.0
C09	C01	C10	H10	300.9	300.0
C09	C01	C10	H10A	60.9	60.0
C09	C01	C10	H10B	180.9	180.0
C09	C01	C08	H08	57.7	180.0
C09	C01	C08	H08A	177.7	299.9
C09	C01	C08	H08B	297.7	60.0
C02	C01	C10	C08	117.7	120.0
C10	C01	C08	H08	299.5	60.0
C10	C01	C08	H08A	59.4	180.0
C10	C01	C08	H08B	179.5	300.0
H10	C10	C01	H10A	240.0	239.9
H10	C10	C01	H10B	120.0	120.0
H10A	C10	C01	H10B	240.0	240.0
C02	C01	C08	C10	240.5	240.0
C09	C01	C08	C10	118.3	120.0
C08	C01	C10	H10	62.3	60.0
C08	C01	C10	H10A	182.3	180.0
C08	C01	C10	H10B	302.3	300.0
H08	C08	C01	H08A	240.0	240.0
H08	C08	C01	H08B	120.0	120.0
H08A	C08	C01	H08B	240.0	240.0
O1	C04	C03	C02	135.6	5.0
C03	C02	C01	C10	116.4	0.0
C03	C02	C01	C08	236.9	120.0
H02	C02	C01	C10	296.4	180.0
H02	C02	C01	C08	56.9	300.0
C03	C04	O1	HO1	180.0	60.0
O1	C04	C03	H04	123.3	120.0
O3	C05	C04	C03	198.1	305.0
C04	C03	C02	H02	357.1	0.0
H03	C03	C02	H02	177.1	180.0
C05	C04	O1	HO1	61.9	300.1
O1	C04	C05	H04	240.9	239.9
O2	C06	C05	C04	76.7	60.1
C04	C05	O3	HO3	180.0	300.1
O3	C05	C04	C06	121.5	120.0
O3	C05	C04	H05	241.0	240.0
C05	C04	C03	H03	70.4	305.0
H04	C04	O1	HO1	303.3	180.0
O1	C04	H04	C03	236.8	240.0
H04	C04	C03	H03	192.3	65.0
C05	C06	O2	HO2	180.0	60.0
O2	C06	C05	C07	243.2	240.1
O2	C06	C05	H06	117.9	120.1
C06	C05	O3	HO3	302.9	60.1
O3	C05	C06	C04	238.0	239.9
O3	C05	C06	H05	118.7	120.0
O6	C07	C06	C05	40.2	54.8
C06	C05	C04	H04	314.4	65.0
C07	C06	C05	H06	234.6	240.0
C05	C06	C07	C11	160.7	174.8
C05	C06	C07	H07	281.2	294.8
H05	C05	O3	HO3	61.4	180.1
O3	C05	H05	C04	119.8	120.0
O3	C05	H05	C06	241.2	240.0
H05	C05	C04	H04	194.9	305.0
H05	C05	C06	C07	312.8	300.0
H05	C05	C06	H06	78.1	60.0
C07	C06	O2	HO2	59.9	300.0
O2	C06	C07	C05	112.4	120.0
O2	C06	C07	H06	237.7	240.0
O6	C07	C06	C11	239.5	240.0
O6	C07	C06	H07	119.0	120.0
C07	C06	C05	H05	312.8	300.0
C05	C06	C07	H06	125.3	120.0
C11	C07	C06	H07	239.5	240.0
H06	C06	O2	HO2	297.7	180.0
O2	C06	H06	C05	248.1	240.0
O2	C06	H06	C07	121.1	120.0
H06	C06	C05	H05	78.1	60.0
C05	C06	H06	C07	233.0	240.0
H06	C06	C07	C11	35.3	54.7
H06	C06	C07	H07	155.8	174.7
C07	C11	N1	C12	183.6	180.0
C07	C11	N1	HN1	3.6	359.7
O6	C07	C11	C06	115.3	120.0
O6	C07	C11	H07	235.7	240.0
C11	C07	C06	H06	35.3	54.7
C06	C07	C11	H07	120.4	120.0
O6	C07	H07	C06	245.0	240.0
O6	C07	H07	C11	125.3	120.0
H07	C07	C06	H06	155.8	174.7
C06	C07	H07	C11	240.2	240.0
H08	C08	C01	C10	299.5	60.0
C01	C08	H08	H08A	120.0	120.0
C01	C08	H08	H08B	240.0	240.0
H08A	C08	H08	H08B	120.0	120.0
H08A	C08	C01	C10	59.4	180.0
C01	C08	H08A	H08	240.0	240.0
C01	C08	H08A	H08B	120.0	120.0
H08	C08	H08A	H08B	240.0	240.0
H08B	C08	C01	C10	179.5	300.0
C01	C08	H08B	H08	120.0	120.0
C01	C08	H08B	H08A	240.0	240.0
H08	C08	H08B	H08A	120.0	120.0
H09	C09	C01	C10	60.5	60.0
H09A	C09	H09	H09B	120.0	120.0
H09A	C09	C01	C10	180.5	180.0
H09	C09	H09A	H09B	240.0	240.0
H09B	C09	C01	C10	300.5	300.0
H09	C09	H09B	H09A	120.0	120.0
C01	C10	H10	H10A	120.0	120.1
C01	C10	H10	H10B	240.0	240.0
H10A	C10	H10	H10B	120.0	120.0
C01	C10	H10A	H10	240.0	239.9
C01	C10	H10A	H10B	120.0	120.0
H10	C10	H10A	H10B	240.0	240.1
C01	C10	H10B	H10	120.0	120.0
C01	C10	H10B	H10A	240.0	240.0
H10	C10	H10B	H10A	120.0	120.0
C13	C12	N1	HN1	279.1	0.1
N1	C12	C13	H12	120.4	120.0
N1	C12	C13	H12A	239.6	240.0
H12	C12	C13	H12A	119.3	120.1
C14	C13	C12	C17	118.3	119.8
C14	C13	C12	H13	240.4	239.9
C12	C13	C14	C15	193.4	178.7
C12	C13	C14	H14	313.6	298.8
C12	C13	C14	H14A	73.2	58.7
C17	C13	C12	H13	122.1	120.0
C12	C13	C17	H17	53.0	54.8
C12	C13	C17	H17A	292.3	294.4
H12	C12	N1	HN1	39.4	120.0
N1	C12	H12	C13	237.9	240.1
N1	C12	H12	H12A	118.9	120.1
C13	C12	H12	H12A	241.1	240.0
H12	C12	C13	C14	163.5	175.0
H12	C12	C13	C17	45.2	55.2
H12	C12	C13	H13	283.0	295.1
H12A	C12	N1	HN1	158.7	240.1
N1	C12	H12A	C13	122.1	119.9
N1	C12	H12A	H12	241.1	239.9
C13	C12	H12A	H12	118.9	120.0
H12A	C12	C13	C14	44.2	54.9
H12A	C12	C13	C17	285.9	295.1
H12A	C12	C13	H13	163.8	175.1
C14	C13	C12	H12	163.5	175.0
C14	C13	C12	H12A	44.2	54.9
C12	C13	C14	C17	244.7	240.1
C12	C13	C14	H13	120.0	120.1
C17	C13	C14	H13	235.2	240.0
C14	C13	C17	H17	300.4	294.9
C14	C13	C17	H17A	179.7	174.4
C15	C14	C13	H14	239.8	240.0
C15	C14	C13	H14A	120.2	120.0
C13	C14	C15	C16	45.6	61.4
C13	C14	C15	H15	166.2	181.4
C13	C14	C15	H15A	285.0	301.5
H14	C14	C13	H14A	240.3	240.1
C17	C13	C12	H12	45.2	55.2
C17	C13	C12	H12A	285.9	295.1
C12	C13	C17	C14	112.6	120.0
C12	C13	C17	H13	237.4	240.0
C14	C13	C17	H13	124.9	120.0
C17	C13	C14	C15	308.7	298.6
C17	C13	C14	H14	68.8	58.7
C17	C13	C14	H14A	188.5	178.6
H17	C17	C13	H17A	120.7	120.4
H13	C13	C12	H12	283.0	295.1
H13	C13	C12	H12A	163.8	175.1
C12	C13	H13	C14	245.3	239.9
C12	C13	H13	C17	120.1	120.0
C14	C13	H13	C17	234.8	240.1
H13	C13	C14	C15	73.5	58.6
H13	C13	C14	H14	193.6	178.6
H13	C13	C14	H14A	313.3	298.6
H13	C13	C17	H17	175.6	174.8
H13	C13	C17	H17A	54.8	54.4
N2	C16	C15	C14	310.7	305.4
C15	C14	C13	C17	308.7	298.6
C15	C14	C13	H13	73.5	58.6
C13	C14	C15	H14	120.2	120.1
C13	C14	C15	H14A	239.9	240.0
H14	C14	C15	H14A	119.7	119.9
C16	C15	C14	H15	239.4	240.0
C16	C15	C14	H15A	120.6	119.9
C14	C15	C16	H16	190.6	185.6
C14	C15	C16	H16A	70.9	65.2
H15	C15	C14	H15A	241.2	239.9
H14	C14	C13	C17	68.8	58.7
H14	C14	C13	H13	193.6	178.6
C13	C14	H14	C15	238.9	239.9
C13	C14	H14	H14A	119.4	120.0
C15	C14	H14	H14A	240.5	240.1
H14	C14	C15	C16	285.5	301.3
H14	C14	C15	H15	46.1	61.3
H14	C14	C15	H15A	164.9	181.4
H14A	C14	C13	C17	188.5	178.6
H14A	C14	C13	H13	313.3	298.6
C13	C14	H14A	C15	121.1	120.1
C13	C14	H14A	H14	240.6	240.0
C15	C14	H14A	H14	119.5	119.9
H14A	C14	C15	C16	165.8	181.4
H14A	C14	C15	H15	286.4	301.4
H14A	C14	C15	H15A	45.2	61.5
N2	C16	C15	H16	120.2	119.8
N2	C16	C15	H16A	239.8	240.2
C16	C15	C14	H14	285.5	301.3
C16	C15	C14	H14A	165.8	181.4
C14	C15	C16	H15	120.6	120.0
C14	C15	C16	H15A	239.4	240.0
H15	C15	C16	H15A	118.8	120.0
H16	C16	C15	H16A	119.7	120.4
H15	C15	C14	H14	46.1	61.3
H15	C15	C14	H14A	286.4	301.4
C14	C15	H15	C16	236.3	240.1
C14	C15	H15	H15A	118.2	120.1
C16	C15	H15	H15A	241.9	240.0
H15	C15	C16	H16	69.9	65.6
H15	C15	C16	H16A	310.3	305.2
H15A	C15	C14	H14	164.9	181.4
H15A	C15	C14	H14A	45.2	61.5
C14	C15	H15A	C16	123.7	119.8
C14	C15	H15A	H15	241.8	239.9
C16	C15	H15A	H15	118.1	120.0
H15A	C15	C16	H16	311.2	305.6
H15A	C15	C16	H16A	191.5	185.2
N2	C16	H16	C15	239.0	240.7
N2	C16	H16	H16A	119.5	120.4
H16	C16	C15	H15	69.9	65.6
H16	C16	C15	H15A	311.2	305.6
C15	C16	H16	H16A	240.5	239.7
N2	C16	H16A	C15	121.0	119.3
N2	C16	H16A	H16	240.5	239.6
H16A	C16	C15	H15	310.3	305.2
H16A	C16	C15	H15A	191.5	185.2
C15	C16	H16A	H16	119.5	120.3
H17	C17	C13	H13	175.6	174.8
C13	C17	H17	H17A	239.0	239.6
H17A	C17	C13	H13	54.8	54.4
C13	C17	H17A	H17	121.1	120.4
C20	C19	C18	H19	230.7	214.3
C21	C19	C18	H19	160.5	145.6
C18	C19	C20	H19	129.5	145.0
C21	C19	C20	H19	255.5	252.5
C18	C19	C21	H19	199.6	215.0
C20	C19	C21	H19	102.5	107.5
C21	C20	C19	H19	104.5	107.5
C20	C21	C19	H19	257.5	252.5
H20	C20	C21	H20A	142.3	145.0
H21	C21	C20	H21A	139.5	145.0
H20	C20	C19	H19	213.4	215.0
C21	C20	H20	H20A	214.1	214.3
H20	C20	C21	H21	140.9	145.0
H20	C20	C21	H21A	1.4	0.0
H20A	C20	C19	H19	355.7	0.0
C21	C20	H20A	H20	145.9	145.6
H20A	C20	C21	H21	358.6	0.1
H20A	C20	C21	H21A	219.1	215.0
H21	C21	C19	H19	7.7	359.9
H21	C21	C20	H20	140.9	145.0
H21	C21	C20	H20A	358.6	0.1
C20	C21	H21	H21A	216.9	214.3
H21A	C21	C19	H19	147.2	145.0
H21A	C21	C20	H20	1.4	0.0
H21A	C21	C20	H20A	219.1	215.0
C20	C21	H21A	H21	143.1	145.7
H22A	C22	H22	H22B	120.0	120.0
H22	C22	H22A	H22B	240.0	240.0
H22	C22	H22B	H22A	120.0	120.0