PDB Chemical Component 5CY

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 5CY

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C11	C12	1.528	1.530
C11	N1	1.480	1.465
C12	C13	1.530	1.530
C15	C16	1.390	1.379
C15	C14	1.395	1.395
C13	O1	1.434	1.429
C16	C17	1.398	1.383
N1	C14	1.340	1.394
N1	C10	1.351	1.368
C14	C19	1.393	1.389
C17	C18	1.391	1.384
C9	C10	1.514	1.353
C9	C8	1.467	1.407
C10	C20	1.551	1.514
C19	C18	1.402	1.377
C19	C20	1.513	1.511
C7	C8	1.338	1.363
C7	C6	1.465	1.403
C21	C20	1.530	1.530
C23	C24	1.528	1.529
C23	N2	1.471	1.465
C20	C22	1.538	1.530
C24	C25	1.519	1.530
O2	C25	1.430	1.429
C5	C6	1.342	1.365
C5	C4	1.504	1.403
N2	C4	1.358	1.309
N2	C26	1.374	1.360
C4	C2	1.508	1.515
C26	C27	1.405	1.402
C26	C31	1.401	1.400
C27	C28	1.401	1.378
C1	C2	1.538	1.530
C2	C31	1.490	1.512
C2	C3	1.535	1.531
C31	C30	1.406	1.372
C28	C29	1.401	1.384
C30	C29	1.397	1.386
C1	H1	1.100	1.090
C1	H2	1.100	1.090
C1	H3	1.100	1.091
O1	H4	0.950	0.967
C11	H5	1.100	1.090
C11	H6	1.100	1.090
C12	H7	1.100	1.090
C12	H8	1.100	1.090
C13	H9	1.100	1.090
C13	H10	1.100	1.089
C15	H11	1.080	1.080
C16	H12	1.080	1.079
C17	H13	1.080	1.080
C18	H14	1.080	1.080
O2	H15	0.950	0.967
C21	H16	1.100	1.090
C21	H17	1.100	1.091
C21	H18	1.100	1.090
C22	H19	1.100	1.090
C22	H20	1.100	1.090
C22	H21	1.100	1.090
C23	H22	1.100	1.090
C23	H23	1.100	1.090
C24	H24	1.100	1.090
C24	H25	1.100	1.091
C25	H26	1.100	1.091
C25	H27	1.100	1.090
C27	H28	1.080	1.080
C28	H29	1.080	1.080
C29	H30	1.080	1.080
C3	H31	1.100	1.089
C3	H32	1.100	1.090
C3	H33	1.100	1.090
C30	H34	1.080	1.080
C5	H36	1.080	1.080
C6	H37	1.080	1.080
C7	H38	1.080	1.080
C8	H39	1.080	1.080
C9	H40	1.080	1.080

Bond Angles for 5CY

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C11	C12	C13	112.3	109.5
C12	C11	H5	109.4	109.5
C12	C11	H6	109.4	109.4
C11	C12	H7	108.8	109.4
C11	C12	H8	108.8	109.4
C11	N1	C14	125.2	124.1
C13	C12	H7	108.8	109.5
C13	C12	H8	108.8	109.5
C12	C13	H9	108.9	109.4
C12	C13	H10	108.9	109.5
C15	C16	C17	120.3	120.3
C16	C15	H11	120.3	119.9
C15	C16	H12	119.9	119.8
C15	C14	C19	121.2	119.0
C13	O1	H4	109.5	114.0
C16	C17	C18	120.0	119.8
C17	C16	H12	119.9	119.8
C16	C17	H13	120.0	120.1
C10	N1	C14	107.1	111.8
N1	C14	C19	106.5	110.5
N1	C10	C20	119.2	106.8
C14	C19	C18	118.9	120.7
C14	C19	C20	118.9	106.7
C18	C17	H13	120.0	120.1
C17	C18	H14	119.8	120.0
C9	C8	H39	119.6	119.9
C10	C20	C19	88.3	104.2
C10	C20	C22	89.5	110.5
C19	C18	H14	119.8	120.0
C19	C20	C22	114.8	110.5
C8	C7	H38	119.8	120.0
C7	C8	H39	119.6	120.0
C7	C6	H37	119.2	120.0
C21	C20	C22	124.6	110.5
C23	C24	C25	109.8	109.5
C24	C23	H22	108.7	109.5
C24	C23	H23	108.7	109.5
C23	C24	H24	109.4	109.5
C23	C24	H25	109.4	109.5
C23	N2	C4	125.4	123.1
C23	N2	C26	126.4	123.2
C20	C22	H19	109.5	109.5
C20	C22	H20	109.4	109.5
C20	C22	H21	109.4	109.4
O2	C25	C24	108.4	109.5
C25	C24	H24	109.4	109.5
C25	C24	H25	109.4	109.4
C24	C25	H26	109.7	109.4
C24	C25	H27	109.8	109.5
C25	O2	H15	109.5	114.0
O2	C25	H26	109.8	109.5
O2	C25	H27	109.7	109.5
C6	C5	H36	117.9	120.0
C5	C6	H37	119.2	120.1
C26	N2	C4	108.2	113.7
N2	C26	C27	133.1	131.1
N2	C26	C31	108.5	110.2
C27	C26	C31	118.4	118.7
C26	C27	C28	120.8	120.0
C26	C27	H28	119.6	120.0
C2	C31	C26	112.4	105.4
C26	C31	C30	121.1	120.9
C27	C28	C29	120.2	120.5
C28	C27	H28	119.6	120.0
C27	C28	H29	119.9	119.7
C1	C2	C31	109.7	110.7
C1	C2	C3	111.0	110.6
C2	C1	H1	109.5	109.5
C2	C1	H2	109.5	109.5
C2	C1	H3	109.5	109.5
C3	C2	C31	112.0	110.7
C2	C31	C30	126.6	133.7
C2	C3	H31	109.5	109.5
C2	C3	H32	109.5	109.4
C2	C3	H33	109.4	109.5
C31	C30	H34	120.0	120.0
C29	C28	H29	119.9	119.7
C28	C29	H30	120.3	120.0
C30	C29	H30	120.2	120.0
H1	C1	H2	109.5	109.5
H1	C1	H3	109.5	109.4
H2	C1	H3	109.5	109.5
H5	C11	H6	109.5	109.4
H7	C12	H8	109.4	109.5
H9	C13	H10	109.5	109.5
H16	C21	H17	109.4	109.5
H16	C21	H18	109.5	109.4
H17	C21	H18	109.5	109.4
H19	C22	H20	109.5	109.5
H19	C22	H21	109.5	109.5
H20	C22	H21	109.5	109.5
H22	C23	H23	109.5	109.4
H24	C24	H25	109.5	109.5
H26	C25	H27	109.5	109.5
H31	C3	H32	109.4	109.5
H31	C3	H33	109.5	109.5
H32	C3	H33	109.5	109.5

Torsion Angles for 5CY

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
C12	C11	N1	C14	281.1	90.0
C13	C12	C11	H7	239.6	240.0
C13	C12	C11	H8	120.4	120.0
C11	C12	C13	H9	249.1	60.0
C11	C12	C13	H10	8.4	300.0
H5	C11	C12	H6	240.1	119.9
H7	C12	C11	H8	240.9	240.0
C10	N1	C11	C14	180.7	179.7
C11	N1	C14	C19	180.5	179.7
C11	N1	C10	C20	180.7	180.3
C13	C12	C11	H5	33.3	59.9
C13	C12	C11	H6	153.2	300.0
C11	C12	C13	H7	120.4	120.0
C11	C12	C13	H8	239.6	240.0
C12	C13	O1	H4	180.0	180.0
H7	C12	C13	H8	119.1	120.0
H9	C13	C12	H10	240.6	120.0
C16	C15	C14	C19	359.8	359.9
C15	C16	C17	C18	359.8	360.0
C17	C16	C15	H12	180.0	180.1
C15	C16	C17	H13	179.8	179.9
N1	C14	C15	C19	180.1	180.1
C15	C14	C19	C18	0.9	0.0
C15	C14	C19	C20	178.9	180.0
C17	C16	C15	H11	179.9	180.0
C15	C16	C17	H12	180.0	179.9
C18	C17	C16	H13	180.0	180.1
C16	C17	C18	H14	180.9	180.0
C15	C14	N1	C19	179.9	179.9
C14	N1	C10	C20	1.2	360.0
N1	C14	C19	C18	180.9	180.0
N1	C14	C19	C20	358.9	359.9
C11	N1	C10	C14	179.4	180.3
C10	N1	C14	C19	359.9	0.1
N1	C10	C20	C19	358.4	360.0
N1	C10	C20	C22	113.2	118.7
C10	C20	C19	C14	1.5	0.0
C14	C19	C18	H14	178.7	180.0
C14	C19	C20	C22	272.8	241.3
C18	C17	C16	H12	179.8	180.1
C16	C17	C18	H13	180.0	179.9
C14	C19	C18	C17	358.7	0.0
C19	C18	C17	H14	180.0	180.0
C9	C8	C7	H38	358.3	359.9
C7	C8	C9	H39	180.0	180.1
C20	C10	N1	C14	1.2	360.0
C14	C19	C20	C10	1.5	0.0
C19	C20	C10	C22	245.2	241.3
C21	C20	C10	C22	124.6	122.6
C10	C20	C22	H19	180.0	60.0
C10	C20	C22	H20	300.0	180.0
C10	C20	C22	H21	60.0	300.0
C14	C19	C18	C20	177.9	180.0
C19	C18	C17	H13	180.9	180.0
C17	C18	C19	H14	180.0	180.0
C10	C20	C19	C18	179.5	180.0
C14	C19	C20	C18	182.1	180.0
C10	C20	C19	C22	88.7	118.7
C20	C19	C18	H14	0.8	0.1
C21	C20	C19	C22	174.9	237.4
C19	C20	C22	H19	267.9	174.8
C19	C20	C22	H20	27.9	294.8
C19	C20	C22	H21	147.9	54.8
C9	C8	C7	H39	180.0	179.9
C8	C7	C6	H37	9.9	359.9
C7	C6	C5	H36	358.2	5.3
C5	C6	C7	H37	180.0	180.1
C10	C20	C21	C22	272.2	237.4
C19	C20	C21	C22	185.7	122.6
C21	C20	C22	H19	93.3	297.4
C21	C20	C22	H20	213.3	57.4
C21	C20	C22	H21	333.3	177.4
C24	C23	N2	C4	234.8	114.5
C24	C23	N2	C26	56.0	294.4
O2	C25	C24	C23	54.9	180.0
C25	C24	C23	H24	240.0	240.0
C25	C24	C23	H25	120.0	120.0
C23	C24	C25	H26	174.7	60.0
C23	C24	C25	H27	295.1	300.0
H22	C23	C24	H23	240.9	120.0
H24	C24	C23	H25	240.1	240.0
C26	N2	C23	C4	181.3	180.0
C23	N2	C26	C27	358.3	0.0
C23	N2	C26	C31	179.2	180.0
C10	C20	C22	C19	272.1	245.1
H19	C22	C20	H20	240.0	240.0
H19	C22	C20	H21	120.0	120.0
H20	C22	C20	H21	240.0	240.0
C25	C24	C23	H22	179.1	60.0
C25	C24	C23	H23	298.2	300.0
C23	C24	C25	H24	120.0	120.0
C23	C24	C25	H25	240.0	240.0
C24	C25	O2	H15	180.0	180.0
O2	C25	C24	H26	240.2	120.0
O2	C25	C24	H27	119.8	240.0
H24	C24	C25	H25	119.9	120.0
H26	C25	C24	H27	239.7	120.0
C23	C24	C25	O2	54.9	180.0
O2	C25	C24	H24	294.9	60.0
O2	C25	C24	H25	174.9	300.0
C24	C25	O2	H26	119.8	240.0
C24	C25	O2	H27	240.1	120.0
H26	C25	O2	H27	120.3	240.0
C7	C6	C5	H37	180.0	179.9
C23	N2	C4	C26	181.1	180.0
C4	N2	C26	C27	179.3	180.0
C4	N2	C26	C31	0.3	0.0
C23	N2	C26	C4	178.9	180.0
C27	C26	N2	C31	179.1	180.0
N2	C26	C27	C28	180.5	180.0
N2	C26	C27	H28	0.6	360.0
C2	C31	C26	N2	359.0	360.0
N2	C26	C31	C30	179.5	180.0
C4	C2	C1	H1	180.0	304.7
C4	C2	C1	H2	300.0	64.7
C4	C2	C1	H3	60.0	184.7
C4	C2	C3	H31	180.0	297.6
C4	C2	C3	H32	300.0	57.6
C4	C2	C3	H33	60.0	177.6
C27	C26	N2	C4	179.3	180.0
N2	C26	C27	C31	181.0	180.0
C2	C31	C26	C27	179.8	180.0
C27	C26	C31	C30	0.3	360.0
C26	C27	C28	C29	0.5	0.0
C28	C27	C26	H28	180.0	180.0
C26	C27	C28	H29	180.5	180.0
C31	C26	N2	C4	0.3	0.0
N2	C26	C31	C27	179.2	180.0
C31	C26	C27	C28	359.5	360.0
C31	C26	C27	H28	179.5	180.0
C1	C2	C31	C26	244.0	241.6
C3	C2	C31	C26	120.3	118.6
C2	C31	C26	C30	179.5	180.0
C26	C31	C30	H34	179.8	180.1
C28	C27	C26	C31	359.5	360.0
C26	C27	C28	H28	180.0	180.0
C29	C28	C27	H29	180.0	180.0
C27	C28	C29	H30	179.6	180.0
C3	C2	C1	C31	124.3	123.0
C1	C2	C31	C30	63.4	61.6
C1	C2	C3	H31	308.4	60.7
C1	C2	C3	H32	68.4	180.7
C1	C2	C3	H33	188.4	300.7
H1	C1	C2	H2	240.0	239.9
H1	C1	C2	H3	120.0	119.9
H2	C1	C2	H3	240.0	240.0
N2	C26	C31	C2	359.0	360.0
C27	C26	C31	C2	179.8	180.0
C26	C31	C2	C30	180.6	180.0
C1	C2	C31	C3	123.7	122.9
C31	C2	C1	H1	286.8	58.5
C31	C2	C1	H2	46.8	178.6
C31	C2	C1	H3	166.8	298.6
C31	C2	C3	H31	71.4	183.7
C31	C2	C3	H32	191.4	303.7
C31	C2	C3	H33	311.4	63.7
C2	C31	C30	H34	0.4	0.1
C1	C2	C3	C31	237.0	237.0
C3	C2	C1	H1	51.0	181.5
C3	C2	C1	H2	171.0	301.6
C3	C2	C1	H3	291.1	61.6
C3	C2	C31	C30	299.7	298.7
H31	C3	C2	H32	240.0	240.1
H31	C3	C2	H33	120.0	120.1
H32	C3	C2	H33	240.0	240.0
C2	C31	C30	C26	180.6	180.0
C31	C30	C29	H30	180.2	180.0
C29	C28	C27	H28	180.5	180.0
C27	C28	C29	H29	180.0	180.0
C30	C29	C28	H30	180.0	180.0
C26	C31	C30	C29	359.8	0.0
C2	C31	C30	C29	180.4	180.0
C30	C29	C28	H29	179.6	180.0
C28	C29	C30	H30	180.0	180.0
H1	C1	C2	C31	286.8	58.5
H1	C1	C2	C3	51.0	181.5
C2	C1	H1	H2	120.0	120.0
C2	C1	H1	H3	240.0	240.0
H2	C1	H1	H3	120.0	120.0
H2	C1	C2	C31	46.8	178.6
H2	C1	C2	C3	171.0	301.6
C2	C1	H2	H1	240.0	240.0
C2	C1	H2	H3	120.0	120.0
H1	C1	H2	H3	240.0	240.0
H3	C1	C2	C31	166.8	298.6
H3	C1	C2	C3	291.1	61.6
C2	C1	H3	H1	120.0	120.0
C2	C1	H3	H2	240.0	240.0
H1	C1	H3	H2	120.0	120.0
H5	C11	C12	C13	33.3	59.9
C12	C11	H5	H6	119.8	240.1
H5	C11	C12	H7	153.7	179.9
H5	C11	C12	H8	272.9	299.9
H5	C11	N1	C14	161.1	210.1
H6	C11	C12	C13	153.2	300.0
C12	C11	H6	H5	240.2	119.9
H6	C11	C12	H7	273.6	60.0
H6	C11	C12	H8	32.7	180.0
H6	C11	N1	C14	41.2	330.0
C11	C12	H7	C13	237.4	240.0
H7	C12	C11	H5	153.7	179.9
H7	C12	C11	H6	273.6	60.0
C11	C12	H7	H8	118.7	119.9
C13	C12	H7	H8	241.3	240.0
H7	C12	C13	H9	128.6	300.0
H7	C12	C13	H10	248.0	180.0
C11	C12	H8	C13	122.6	120.0
H8	C12	C11	H5	272.9	299.9
H8	C12	C11	H6	32.7	180.0
C11	C12	H8	H7	241.3	240.1
C13	C12	H8	H7	118.7	120.0
H8	C12	C13	H9	9.5	180.0
H8	C12	C13	H10	128.9	60.0
H9	C13	C12	H7	128.6	300.0
H9	C13	C12	H8	9.5	180.0
C12	C13	H9	H10	119.0	240.0
H9	C13	O1	H4	59.7	299.9
H10	C13	C12	H7	248.0	180.0
H10	C13	C12	H8	128.9	60.0
C12	C13	H10	H9	241.0	120.0
H10	C13	O1	H4	300.3	60.0
H11	C15	C16	C17	179.9	180.0
H11	C15	C16	H12	359.8	359.9
H11	C15	C14	C19	179.8	180.0
C15	C16	H12	C17	180.0	180.1
H12	C16	C15	H11	359.8	359.9
H12	C16	C17	C18	179.8	180.1
H12	C16	C17	H13	359.8	0.0
C16	C17	H13	C18	180.0	180.1
H13	C17	C16	H12	359.8	0.0
H13	C17	C18	H14	0.9	0.0
H14	C18	C17	H13	0.9	0.0
H15	O2	C25	C24	180.0	180.0
H15	O2	C25	H26	60.2	300.0
H15	O2	C25	H27	299.8	60.0
H16	C21	C20	C22	267.8	182.6
H17	C21	H16	H18	120.0	120.0
H17	C21	C20	C22	27.7	302.6
H16	C21	H17	H18	240.0	240.0
H18	C21	C20	C22	147.8	62.6
H16	C21	H18	H17	120.0	120.0
C20	C22	H19	H20	120.0	120.0
C20	C22	H19	H21	240.0	240.0
H20	C22	H19	H21	120.0	120.0
C20	C22	H20	H19	240.0	240.0
C20	C22	H20	H21	120.0	120.0
H19	C22	H20	H21	240.0	240.0
C20	C22	H21	H19	120.0	120.0
C20	C22	H21	H20	240.0	240.0
H19	C22	H21	H20	120.0	120.0
H22	C23	C24	C25	179.1	60.0
C24	C23	H22	H23	118.6	240.0
H22	C23	C24	H24	299.1	180.0
H22	C23	C24	H25	59.0	300.0
H22	C23	N2	C4	114.3	234.4
H22	C23	N2	C26	295.5	54.4
H23	C23	C24	C25	298.2	300.0
C24	C23	H23	H22	241.4	120.0
H23	C23	C24	H24	58.2	60.0
H23	C23	C24	H25	178.1	180.0
H23	C23	N2	C4	355.2	354.4
H23	C23	N2	C26	176.5	174.4
C23	C24	H24	C25	239.7	240.0
H24	C24	C23	H22	299.1	180.0
H24	C24	C23	H23	58.2	60.0
C23	C24	H24	H25	119.8	120.0
C25	C24	H24	H25	240.2	240.0
H24	C24	C25	H26	54.7	300.0
H24	C24	C25	H27	175.0	180.0
C23	C24	H25	C25	120.3	120.0
H25	C24	C23	H22	59.0	300.0
H25	C24	C23	H23	178.1	180.0
C23	C24	H25	H24	240.2	240.0
C25	C24	H25	H24	119.8	120.0
H25	C24	C25	H26	294.8	180.0
H25	C24	C25	H27	55.1	60.0
O2	C25	H26	C24	119.0	240.0
H26	C25	C24	H24	54.7	300.0
H26	C25	C24	H25	294.8	180.0
C24	C25	H26	H27	120.5	240.0
H26	C25	O2	H15	60.2	300.0
O2	C25	H26	H27	239.5	120.0
O2	C25	H27	C24	241.0	120.0
H27	C25	C24	H24	175.0	180.0
H27	C25	C24	H25	55.1	60.0
C24	C25	H27	H26	239.5	120.0
H27	C25	O2	H15	299.8	60.0
O2	C25	H27	H26	120.5	240.0
H28	C27	C26	C31	179.5	180.0
C26	C27	H28	C28	180.0	180.0
H28	C27	C28	C29	180.5	180.0
H28	C27	C28	H29	0.5	0.0
C27	C28	H29	C29	180.0	180.0
H29	C28	C27	H28	0.5	0.0
H29	C28	C29	H30	359.6	0.0
H30	C29	C28	H29	359.6	0.0
H31	C3	C2	C31	71.4	183.7
C2	C3	H31	H32	120.0	119.9
C2	C3	H31	H33	240.0	240.0
H32	C3	H31	H33	120.0	120.1
H32	C3	C2	C31	191.4	303.7
C2	C3	H32	H31	240.0	240.1
C2	C3	H32	H33	120.0	120.0
H31	C3	H32	H33	240.0	239.9
H33	C3	C2	C31	311.4	63.7
C2	C3	H33	H31	120.0	120.0
C2	C3	H33	H32	240.0	240.1
H31	C3	H33	H32	120.0	120.0
H34	C30	C29	H30	0.2	359.9
H36	C5	C6	H37	178.1	185.3
H37	C6	C5	H36	178.1	185.3
H38	C7	C8	H39	178.3	180.0
H38	C7	C6	H37	189.9	180.0
H39	C8	C7	H38	178.3	180.0
H40	C9	C8	H39	186.5	180.0