PDB Chemical Component SYD

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 SYD

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	C2	1.405	1.381
C1	C6	1.426	1.383
C2	C3	1.411	1.393
C3	C4	1.419	1.394
C3	C12	1.390	1.484
C4	C5	1.411	1.381
C5	C6	1.403	1.383
C12	C13	1.391	1.393
C12	C17	1.390	1.397
C13	N14	1.339	1.317
N14	C15	1.359	1.319
C15	C16	1.387	1.383
C15	C21	1.532	1.508
C16	C17	1.371	1.384
C21	P22	1.830	1.823
P22	O25	1.536	1.480
P22	O26	1.540	1.610
P22	O27	1.555	1.610
C1	H1	1.080	1.080
C2	H2	1.080	1.079
C4	H4	1.080	1.079
C5	H5	1.080	1.081
C6	H6	1.080	1.080
C13	H13	1.080	1.080
C16	H16	1.080	1.080
C17	H17	1.080	1.080
C21	H21	1.100	1.090
C21	H21A	1.100	1.089
O26	HO26	0.950	0.967
O27	HO27	0.950	0.967

Bond Angles for SYD

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	C6	117.4	120.1
C1	C2	C3	120.1	119.9
C2	C1	H1	121.3	119.9
C1	C2	H2	119.9	120.0
C1	C6	C5	122.4	120.3
C6	C1	H1	121.3	120.0
C1	C6	H6	118.8	119.8
C2	C3	C4	122.5	119.8
C2	C3	C12	118.7	120.1
C3	C2	H2	120.0	120.1
C4	C3	C12	118.8	120.1
C3	C4	C5	117.3	119.8
C3	C4	H4	121.3	120.1
C3	C12	C13	122.6	120.5
C3	C12	C17	116.6	120.6
C4	C5	C6	120.2	120.1
C5	C4	H4	121.3	120.1
C4	C5	H5	119.9	119.9
C6	C5	H5	119.9	119.9
C5	C6	H6	118.8	119.9
C13	C12	C17	120.7	118.9
C12	C13	N14	118.3	120.6
C12	C13	H13	120.9	119.8
C12	C17	C16	119.6	118.3
C12	C17	H17	120.2	120.8
C13	N14	C15	121.7	121.8
N14	C13	H13	120.9	119.6
N14	C15	C16	120.9	121.0
N14	C15	C21	121.6	119.5
C16	C15	C21	117.5	119.5
C15	C16	C17	118.3	119.3
C15	C16	H16	120.8	120.4
C15	C21	P22	113.3	109.5
C15	C21	H21	108.2	109.4
C15	C21	H21A	108.2	109.4
C17	C16	H16	120.8	120.4
C16	C17	H17	120.2	120.9
C21	P22	O25	112.8	109.5
C21	P22	O26	105.7	109.5
C21	P22	O27	110.9	109.5
P22	C21	H21	108.2	109.5
P22	C21	H21A	108.2	109.5
O25	P22	O26	109.4	109.4
O25	P22	O27	116.2	109.5
O26	P22	O27	100.6	109.5
P22	O26	HO26	109.5	114.0
P22	O27	HO27	109.5	114.0
H21	C21	H21A	110.7	109.5

Torsion Angles for SYD

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C2	C1	C6	C5	357.4	0.1
C6	C1	C2	H1	180.0	180.2
C2	C1	C6	H6	177.4	180.0
C1	C2	C3	C4	359.3	0.0
C1	C2	C3	C12	179.2	180.0
C3	C2	C1	H2	180.0	179.9
C6	C1	C2	C3	2.1	359.9
C2	C1	C6	H1	180.0	179.8
C6	C1	C2	H2	182.1	180.0
C4	C5	C6	C1	1.6	360.0
C1	C6	C5	H5	181.6	179.9
C5	C6	C1	H6	180.0	180.1
C3	C2	C1	C6	2.1	359.9
C3	C2	C1	H1	182.1	179.7
C1	C2	C3	H2	180.0	180.1
C4	C3	C2	C12	180.1	180.0
C2	C3	C4	C5	359.7	0.0
C2	C3	C4	H4	179.7	180.0
C2	C3	C12	C13	37.7	360.0
C2	C3	C12	C17	217.7	179.7
C2	C3	C4	C12	179.9	180.0
C4	C3	C2	H2	179.3	180.0
C4	C3	C12	C13	217.7	180.0
C4	C3	C12	C17	37.6	359.7
C3	C4	C5	C6	359.9	360.0
C5	C4	C3	H4	180.0	180.0
C3	C4	C5	H5	179.9	180.0
C2	C3	C12	C4	180.1	180.0
C12	C3	C2	H2	359.2	360.0
C12	C3	C4	C5	179.7	180.0
C12	C3	C4	H4	359.7	360.0
C13	C12	C3	C17	180.1	180.2
C3	C12	C13	N14	184.8	180.0
C3	C12	C13	H13	4.8	360.0
C3	C12	C17	C16	176.3	179.8
C3	C12	C17	H17	356.3	360.0
C1	C6	C5	C4	1.6	360.0
C5	C4	C3	C12	179.7	180.0
C3	C4	C5	H4	180.0	180.0
C6	C5	C4	H5	180.0	180.0
C4	C5	C6	H6	181.6	180.0
C5	C6	C1	H1	177.4	180.2
C1	C6	C5	H6	180.0	179.9
C6	C5	C4	H4	179.9	180.0
C4	C5	C6	H5	180.0	180.0
C3	C12	C13	C17	179.9	179.8
C13	C12	C17	C16	356.2	359.6
C13	C12	C17	H17	176.3	179.7
C12	C13	N14	C15	353.2	0.0
N14	C13	C12	H13	180.0	180.0
C3	C12	C17	C13	180.1	180.2
C17	C12	C13	N14	4.8	0.2
C17	C12	C13	H13	184.8	180.2
C15	C16	C17	C12	4.4	0.4
C12	C17	C16	H16	184.3	180.3
C16	C17	C12	H17	180.0	179.8
N14	C13	C12	C17	4.8	0.2
C12	C13	N14	H13	180.0	180.0
C13	N14	C15	C16	7.7	360.0
C13	N14	C15	C21	184.7	180.0
C15	N14	C13	H13	173.2	180.0
C16	C15	N14	C21	183.0	180.0
N14	C15	C16	C17	353.7	359.8
N14	C15	C16	H16	173.8	179.9
N14	C15	C21	P22	91.6	90.0
N14	C15	C21	H21	211.6	210.0
N14	C15	C21	H21A	331.7	330.0
C12	C17	C16	C15	4.4	0.4
N14	C15	C16	C21	177.1	180.0
C16	C15	C21	P22	268.8	270.0
C16	C15	C21	H21	28.7	30.0
C16	C15	C21	H21A	148.8	150.0
C17	C16	C15	H16	180.0	179.9
C15	C16	C17	H17	184.3	180.2
N14	C15	C21	C16	182.9	180.0
C21	C15	C16	C17	176.6	179.8
C21	C15	C16	H16	356.6	359.9
C15	C21	P22	O25	187.7	305.0
C15	C21	P22	O26	68.2	65.0
C15	C21	P22	O27	320.0	185.0
P22	C21	C15	H21	240.0	240.0
P22	C21	C15	H21A	120.0	120.0
H21	C21	C15	H21A	240.0	240.0
C12	C17	C16	H17	180.0	180.2
C17	C16	C15	C21	176.6	179.8
C15	C16	C17	H16	180.0	180.1
C15	C21	P22	H21	120.0	120.0
C15	C21	P22	H21A	240.0	240.0
O25	P22	C21	O26	119.5	240.0
O25	P22	C21	O27	227.7	120.0
O26	P22	C21	O27	108.2	240.0
C21	P22	O26	HO26	121.7	60.0
C21	P22	O27	HO27	229.4	180.0
H21	C21	P22	H21A	120.0	120.1
C21	P22	O25	O26	242.7	120.0
C21	P22	O25	O27	129.6	240.0
O25	P22	C21	H21	67.7	185.0
O25	P22	C21	H21A	307.7	65.0
O26	P22	O25	O27	247.0	120.0
O25	P22	O26	HO26	360.0	180.0
O25	P22	O27	HO27	360.0	60.0
C21	P22	O26	O25	121.7	240.0
C21	P22	O26	O27	244.6	120.0
O26	P22	C21	H21	308.2	305.0
O26	P22	C21	H21A	188.2	184.9
O25	P22	O26	O27	122.8	240.0
O26	P22	O27	HO27	118.0	300.0
C21	P22	O27	O25	229.4	120.0
C21	P22	O27	O26	111.5	240.0
O27	P22	C21	H21	200.0	65.0
O27	P22	C21	H21A	80.0	305.0
O25	P22	O27	O26	242.0	120.0
O27	P22	O26	HO26	237.1	300.0
C2	C1	H1	C6	180.0	180.2
H1	C1	C2	C3	182.1	179.7
H1	C1	C2	H2	2.1	359.8
H1	C1	C6	C5	177.4	180.2
H1	C1	C6	H6	357.4	0.2
H2	C2	C1	C6	182.1	180.0
C1	C2	H2	C3	180.0	179.9
H2	C2	C1	H1	2.1	359.8
H2	C2	C3	C4	179.3	180.0
H2	C2	C3	C12	359.2	360.0
H4	C4	C3	C12	359.7	360.0
C3	C4	H4	C5	180.0	180.0
H4	C4	C5	C6	179.9	180.0
H4	C4	C5	H5	359.9	0.0
C4	C5	H5	C6	180.0	180.0
H5	C5	C4	H4	359.9	0.0
H5	C5	C6	H6	1.6	0.0
C1	C6	H6	C5	180.0	180.1
H6	C6	C1	H1	357.4	0.2
H6	C6	C5	H5	1.6	0.0
H13	C13	C12	C17	184.8	180.2
C12	C13	H13	N14	180.0	180.0
H13	C13	N14	C15	173.2	180.0
H16	C16	C15	C21	356.6	359.9
C15	C16	H16	C17	180.0	179.9
H16	C16	C17	H17	4.3	0.1
C12	C17	H17	C16	180.0	179.8
H17	C17	C16	H16	4.3	0.1
C15	C21	H21	P22	236.9	240.0
C15	C21	H21	H21A	118.5	120.0
H21	C21	P22	O25	67.7	185.0
H21	C21	P22	O26	308.2	305.0
H21	C21	P22	O27	200.0	65.0
P22	C21	H21	H21A	241.6	239.9
C15	C21	H21A	P22	123.1	120.0
C15	C21	H21A	H21	241.5	240.0
H21A	C21	P22	O25	307.7	65.0
H21A	C21	P22	O26	188.2	184.9
H21A	C21	P22	O27	80.0	305.0
P22	C21	H21A	H21	118.4	120.1
HO26	O26	P22	O27	237.1	300.0