PDB Chemical Component YKJ

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 YKJ

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C1	N1	1.406	1.323
C1	C3	1.416	1.366
N1	C2	1.413	1.319
C2	C6	1.415	1.386
N2	C4	1.363	1.369
N2	C6	1.377	1.380
C3	C5	1.414	1.401
N3	C4	1.348	1.312
N3	C5	1.337	1.345
C4	C7	1.367	1.477
N4	C11	1.341	1.348
N4	C16	1.585	1.465
C5	C6	1.461	1.411
N5	C15	1.408	1.319
N5	C26	1.398	1.322
N6	C26	1.319	1.390
C7	C10	1.453	1.394
C7	C18	1.494	1.409
C8	C9	1.441	1.386
C8	C17	1.448	1.378
C9	C10	1.444	1.379
C11	C12	1.566	1.481
C11	O13	1.246	1.216
C12	C14	1.434	1.400
C12	C25	1.453	1.395
C14	C15	1.424	1.380
C16	C17	1.377	1.509
C16	C19	1.461	1.509
C17	C18	1.441	1.391
C18	C20	1.432	1.482
C19	C20	1.490	1.394
C19	C24	1.436	1.378
C20	C21	1.466	1.396
C21	C22	1.468	1.379
C22	C23	1.455	1.384
C23	C24	1.449	1.384
C25	C26	1.424	1.391
C1	H1	1.080	1.080
C3	H3	1.080	1.081
C2	H2	1.080	1.079
N2	HA	1.000	0.970
N4	H4	1.000	0.970
C16	H16	1.100	1.090
C15	H15	1.080	1.080
N6	H61N	1.000	0.971
N6	H62N	1.000	0.970
C10	H10	1.080	1.080
C8	H8	1.080	1.081
C9	H9	1.080	1.079
C14	H14	1.080	1.080
C25	H25	1.080	1.080
C24	H24	1.080	1.081
C21	H21	1.080	1.079
C22	H22	1.080	1.080
C23	H23	1.080	1.080

Bond Angles for YKJ

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
N1	C1	C3	123.1	121.5
C1	N1	C2	119.8	122.3
N1	C1	H1	118.5	119.2
C1	C3	C5	116.6	118.9
C3	C1	H1	118.5	119.3
C1	C3	H3	121.7	120.6
N1	C2	C6	120.2	120.2
N1	C2	H2	119.9	119.9
C2	C6	N2	135.9	134.9
C2	C6	C5	118.3	119.0
C6	C2	H2	119.9	119.9
C4	N2	C6	108.6	107.1
N2	C4	N3	108.7	109.8
N2	C4	C7	124.0	125.1
C4	N2	HA	125.7	126.5
N2	C6	C5	105.8	106.1
C6	N2	HA	125.7	126.4
C3	C5	N3	132.1	134.6
C3	C5	C6	122.0	118.1
C5	C3	H3	121.7	120.6
C4	N3	C5	111.0	109.8
N3	C4	C7	127.3	125.1
N3	C5	C6	105.9	107.3
C4	C7	C10	115.4	120.2
C4	C7	C18	126.6	120.2
C11	N4	C16	118.5	120.0
N4	C11	C12	107.5	120.0
N4	C11	O13	124.7	120.0
C11	N4	H4	120.7	120.0
N4	C16	C17	115.3	110.1
N4	C16	C19	111.3	110.2
C16	N4	H4	120.8	120.0
N4	C16	H16	104.2	110.1
C15	N5	C26	119.8	121.9
N5	C15	C14	121.4	121.0
N5	C15	H15	119.3	119.5
N5	C26	N6	117.6	119.7
N5	C26	C25	123.0	120.7
N6	C26	C25	119.3	119.6
C26	N6	H61N	109.5	120.0
C26	N6	H62N	109.5	120.1
C10	C7	C18	118.0	119.6
C7	C10	C9	122.9	120.1
C7	C10	H10	118.5	120.0
C7	C18	C17	117.8	119.2
C7	C18	C20	135.6	131.2
C9	C8	C17	119.2	120.4
C8	C9	C10	119.0	120.2
C9	C8	H8	120.4	119.8
C8	C9	H9	120.5	119.9
C8	C17	C16	126.8	132.1
C8	C17	C18	123.2	120.4
C17	C8	H8	120.4	119.8
C9	C10	H10	118.6	119.9
C10	C9	H9	120.5	119.9
C12	C11	O13	127.8	120.0
C11	C12	C14	131.6	120.9
C11	C12	C25	105.9	120.9
C14	C12	C25	122.5	118.2
C12	C14	C15	117.5	119.2
C12	C14	H14	121.3	120.5
C12	C25	C26	115.8	118.9
C12	C25	H25	122.1	120.5
C14	C15	H15	119.3	119.5
C15	C14	H14	121.2	120.4
C17	C16	C19	110.3	106.1
C16	C17	C18	110.0	107.5
C17	C16	H16	105.3	110.1
C16	C19	C20	103.9	107.5
C16	C19	C24	135.4	132.3
C19	C16	H16	109.8	110.1
C17	C18	C20	106.7	109.6
C18	C20	C19	109.0	109.4
C18	C20	C21	133.9	131.2
C20	C19	C24	120.7	120.3
C19	C20	C21	117.1	119.3
C19	C24	C23	121.5	120.1
C19	C24	H24	119.3	119.9
C20	C21	C22	121.8	119.9
C20	C21	H21	119.1	120.0
C21	C22	C23	119.3	120.3
C22	C21	H21	119.1	120.0
C21	C22	H22	120.3	119.9
C22	C23	C24	119.7	120.1
C23	C22	H22	120.3	119.8
C22	C23	H23	120.2	120.0
C23	C24	H24	119.3	120.0
C24	C23	H23	120.2	120.0
C26	C25	H25	122.1	120.5
H61N	N6	H62N	109.5	119.9

Torsion Angles for YKJ

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
N1	C1	C3	C5	0.7	360.0
C3	C1	N1	H1	180.0	180.3
N1	C1	C3	H3	180.7	180.0
C1	N1	C2	C6	0.5	0.0
C1	N1	C2	H2	180.5	180.0
C3	C1	N1	C2	359.5	360.0
N1	C1	C3	H1	180.0	179.7
C1	C3	C5	N3	179.8	180.0
C1	C3	C5	C6	359.2	0.0
C5	C3	C1	H3	180.0	180.0
C2	N1	C1	C3	359.5	360.0
C2	N1	C1	H1	179.5	179.7
N1	C2	C6	N2	180.6	179.9
N1	C2	C6	C5	359.4	360.0
C6	C2	N1	H2	180.0	180.0
N1	C2	C6	H2	180.0	180.0
C4	N2	C6	C2	179.2	180.1
N2	C6	C2	C5	181.2	179.9
C2	C6	N2	HA	359.2	0.0
C3	C5	C6	C2	0.8	360.0
N3	C5	C6	C2	180.3	180.0
C2	C6	N2	C4	179.2	180.1
C4	N2	C6	C5	0.3	360.0
C6	N2	C4	HA	180.0	180.0
N2	C4	N3	C5	359.6	0.0
N3	C4	N2	C7	179.3	180.0
N2	C4	C7	C10	50.4	329.6
N2	C4	C7	C18	229.0	149.3
C2	C6	N2	C5	178.9	180.1
N2	C6	C2	H2	0.6	359.9
C6	N2	C4	N3	0.0	360.0
C6	N2	C4	C7	180.7	180.0
C4	N2	C6	HA	180.0	180.0
C3	C5	C6	N2	179.9	180.0
N3	C5	C6	N2	359.4	0.0
C5	C3	C1	H1	180.7	180.3
C1	C3	C5	H3	180.0	180.0
C2	C6	C5	C3	0.8	360.0
N2	C6	C5	C3	179.9	180.0
C4	N3	C5	C3	180.0	180.0
N3	C5	C3	C6	180.6	180.0
N3	C4	N2	C6	0.0	360.0
N2	C4	N3	C7	180.7	180.0
N3	C4	N2	HA	180.0	180.0
C3	C5	N3	C4	180.0	180.0
C4	N3	C5	C6	0.6	360.0
N3	C4	C7	C10	231.3	149.6
N3	C4	C7	C18	49.9	329.3
C2	C6	C5	N3	180.3	180.0
N2	C6	C5	N3	359.4	0.0
C3	C5	N3	C6	179.4	180.0
N3	C5	C3	H3	359.8	360.0
C5	N3	C4	C7	178.9	180.0
C7	C4	N2	C6	180.7	180.0
N2	C4	C7	N3	179.2	180.0
C7	C4	N2	HA	0.7	360.0
C7	C4	N3	C5	178.9	180.0
C10	C7	C4	C18	181.4	180.3
C4	C7	C10	C9	179.1	180.0
C4	C7	C10	H10	359.1	359.9
C4	C7	C18	C17	181.2	180.0
C4	C7	C18	C20	2.1	360.0
C11	N4	C16	C17	130.3	155.0
C11	N4	C16	C19	257.0	271.6
C16	N4	C11	H4	180.0	180.0
C11	N4	C16	H16	15.3	33.3
C12	C11	N4	O13	179.2	180.0
N4	C11	C12	C14	334.7	360.0
N4	C11	C12	C25	154.8	180.0
C16	N4	C11	C12	191.4	180.0
C16	N4	C11	O13	12.2	0.0
C11	N4	C16	H4	180.0	180.0
C8	C17	C16	N4	307.7	299.1
C17	C16	N4	C19	233.3	243.3
N4	C16	C17	C18	128.5	118.9
C17	C16	N4	H16	114.9	121.7
N4	C16	C19	C20	229.7	241.2
N4	C16	C19	C24	50.0	60.9
C19	C16	N4	H16	241.7	238.3
C2	C6	C5	N2	180.9	180.0
C5	C6	C2	H2	179.4	180.0
C5	C6	N2	HA	180.3	180.0
C3	C5	C6	N3	180.5	180.0
C6	C5	C3	H3	179.2	180.0
C15	N5	C26	N6	179.9	180.1
C15	N5	C26	C25	0.0	360.0
C12	C14	C15	N5	0.0	0.0
C14	C15	N5	H15	180.0	180.0
N5	C15	C14	H14	180.1	180.0
C26	N5	C15	C14	359.9	0.0
C26	N5	C15	H15	179.9	180.0
N6	C26	N5	C25	179.9	180.1
N5	C26	N6	H61N	0.0	360.0
N5	C26	N6	H62N	120.0	180.0
C12	C25	C26	N5	0.0	0.0
N5	C26	C25	H25	180.0	180.1
N5	C26	N6	C25	180.1	179.9
C12	C25	C26	N6	180.2	179.9
N6	C26	C25	H25	0.2	360.0
H61N	N6	C26	H62N	240.0	179.9
C4	C7	C10	C18	178.7	179.7
C10	C7	C18	C17	359.8	359.7
C10	C7	C18	C20	180.7	179.7
C8	C9	C10	C7	359.4	359.9
C9	C10	C7	H10	180.0	180.1
C7	C10	C9	H9	179.3	179.7
C4	C7	C18	C10	181.4	180.3
C18	C7	C10	C9	0.4	0.3
C18	C7	C10	H10	180.4	180.2
C8	C17	C18	C7	0.4	360.0
C16	C17	C18	C7	179.6	180.2
C17	C18	C7	C20	179.1	180.0
C7	C18	C20	C19	179.6	180.0
C7	C18	C20	C21	359.5	360.0
C7	C10	C9	C8	359.4	359.9
C9	C8	C17	C16	180.3	180.0
C9	C8	C17	C18	359.4	0.3
C17	C8	C9	H8	180.0	179.7
C8	C9	C10	H10	179.4	180.1
C10	C9	C8	H9	180.0	179.7
N4	C16	C17	C8	307.7	299.1
C7	C18	C17	C8	0.4	360.0
C17	C8	C9	C10	0.7	359.7
C9	C8	C17	H8	180.0	180.3
C17	C8	C9	H9	180.7	180.0
C8	C17	C16	C19	180.4	179.9
C16	C17	C8	C18	180.9	179.7
C8	C17	C16	H16	62.0	60.8
C8	C17	C18	C20	179.7	180.0
C9	C10	C7	C18	0.4	0.3
C7	C10	C9	H10	180.0	179.9
C10	C9	C8	C17	0.7	359.7
C10	C9	C8	H8	180.7	180.0
C8	C9	C10	H9	180.0	180.3
C12	C11	N4	C16	191.4	180.0
N4	C11	C12	O13	180.8	180.0
C12	C11	N4	H4	11.4	360.0
C14	C12	C11	C25	179.9	180.0
C11	C12	C14	C15	180.1	180.0
C11	C12	C14	H14	0.1	0.0
C11	C12	C25	C26	179.9	180.0
C11	C12	C25	H25	359.9	359.9
O13	C11	N4	C16	12.2	0.0
N4	C11	O13	C12	179.0	180.0
O13	C11	N4	H4	192.2	180.0
O13	C11	C12	C14	153.9	180.0
O13	C11	C12	C25	333.9	360.0
N5	C15	C14	C12	0.0	0.0
C14	C12	C11	O13	153.9	180.0
C11	C12	C14	C25	180.1	180.0
C14	C12	C25	C26	359.9	360.0
C14	C12	C25	H25	179.9	180.0
C12	C14	C15	H15	180.0	180.0
C15	C14	C12	H14	180.0	180.0
N5	C26	C25	C12	0.0	0.0
N6	C26	C25	C12	180.2	179.9
C25	C12	C11	O13	333.9	360.0
C11	C12	C25	C14	179.9	180.0
C25	C12	C14	C15	0.0	360.0
C25	C12	C14	H14	180.0	180.0
C26	C25	C12	H25	180.0	180.0
C14	C15	N5	C26	359.9	0.0
N5	C15	C14	H15	180.0	180.0
C15	C14	C12	C25	0.0	360.0
C12	C14	C15	H14	180.0	180.0
N4	C16	C17	C19	127.2	119.2
C17	C16	N4	H4	310.3	335.0
N4	C16	C17	H16	245.7	238.4
C7	C18	C17	C16	179.6	180.2
C8	C17	C16	C18	179.2	180.3
C16	C17	C8	H8	0.3	359.7
C17	C16	C19	C20	359.1	0.4
C17	C16	C19	C24	179.4	180.1
C19	C16	C17	H16	118.5	119.1
C16	C17	C18	C20	358.9	0.2
N4	C16	C19	C17	230.6	240.8
C19	C16	N4	H4	77.0	91.7
N4	C16	C19	H16	114.9	121.7
C19	C16	C17	C18	1.3	359.6
C17	C16	C19	H16	244.3	240.8
C18	C20	C19	C16	0.2	359.8
C20	C19	C16	C24	179.7	180.2
C16	C19	C20	C21	180.4	179.8
C16	C19	C24	C23	179.8	180.3
C16	C19	C24	H24	359.8	0.2
C7	C18	C17	C20	180.7	180.0
C8	C17	C18	C16	180.8	179.8
C18	C17	C8	H8	179.4	180.0
C18	C17	C16	C19	1.3	359.6
C18	C17	C16	H16	242.8	240.5
C17	C18	C20	C19	0.5	360.0
C17	C18	C20	C21	180.3	179.9
C7	C18	C20	C17	179.2	180.0
C16	C19	C20	C18	0.2	359.8
C18	C20	C19	C24	180.0	180.0
C19	C20	C18	C21	180.2	180.1
C18	C20	C21	C22	180.0	180.0
C18	C20	C21	H21	360.0	0.0
C16	C19	C20	C24	180.3	179.8
C20	C19	C16	H16	114.8	119.5
C18	C20	C19	C21	179.9	180.0
C20	C19	C24	C23	0.1	360.0
C20	C19	C24	H24	180.1	180.0
C19	C20	C21	C22	359.8	359.9
C19	C20	C21	H21	179.8	180.0
C16	C19	C24	C20	179.6	180.3
C24	C19	C16	H16	295.1	299.3
C24	C19	C20	C21	0.1	0.0
C22	C23	C24	C19	359.7	0.0
C23	C24	C19	H24	180.0	180.0
C19	C24	C23	H23	179.8	180.0
C18	C20	C21	C19	180.2	180.1
C21	C20	C19	C24	0.1	0.0
C20	C21	C22	C23	0.1	0.1
C22	C21	C20	H21	180.0	180.0
C20	C21	C22	H22	180.1	180.0
C20	C21	C22	H21	180.0	180.0
C21	C22	C23	C24	0.1	359.9
C23	C22	C21	H22	180.0	180.1
C21	C22	C23	H23	180.1	180.0
C19	C24	C23	C22	359.7	0.0
C23	C22	C21	H21	180.1	180.1
C21	C22	C23	H22	180.0	179.9
C22	C23	C24	H24	179.8	180.1
C24	C23	C22	H23	180.0	179.9
C19	C24	C23	H24	180.0	180.0
C24	C23	C22	H22	180.2	180.0
C22	C23	C24	H23	180.0	180.1
N5	C26	C25	N6	179.9	180.1
C25	C26	N6	H61N	179.9	180.1
C25	C26	N6	H62N	299.9	0.1
C12	C25	C26	H25	180.0	180.0
N1	C1	H1	C3	180.0	180.3
H1	C1	N1	C2	179.5	179.7
H1	C1	C3	C5	180.7	180.3
H1	C1	C3	H3	0.7	0.3
C1	C3	H3	C5	180.0	180.0
H3	C3	C1	H1	0.7	0.3
H3	C3	C5	N3	359.8	360.0
H3	C3	C5	C6	179.2	180.0
N1	C2	H2	C6	180.0	180.0
H2	C2	C6	N2	0.6	359.9
H2	C2	C6	C5	179.4	180.0
C4	N2	HA	C6	180.0	180.0
HA	N2	C4	N3	180.0	180.0
HA	N2	C4	C7	0.7	360.0
HA	N2	C6	C5	180.3	180.0
C11	N4	H4	C16	180.0	180.0
H4	N4	C11	C12	11.4	360.0
H4	N4	C11	O13	192.2	180.0
H4	N4	C16	C17	310.3	335.0
H4	N4	C16	C19	77.0	91.7
H4	N4	C16	H16	195.3	213.3
N4	C16	H16	C17	121.8	121.7
N4	C16	H16	C19	240.6	238.3
H16	C16	N4	H4	195.3	213.3
C17	C16	H16	C19	118.8	116.6
H16	C16	C17	C18	242.8	240.5
H16	C16	C19	C20	114.8	119.5
H16	C16	C19	C24	295.1	299.3
H15	C15	N5	C26	179.9	180.0
N5	C15	H15	C14	180.0	180.0
H15	C15	C14	H14	0.1	0.0
H61N	N6	C26	C25	179.9	180.1
C26	N6	H61N	H62N	120.0	180.1
H62N	N6	C26	C25	299.9	0.1
C26	N6	H62N	H61N	240.0	179.9
H10	C10	C7	C18	180.4	180.2
C7	C10	H10	C9	180.0	180.1
H10	C10	C9	H9	359.3	359.8
C9	C8	H8	C17	180.0	179.7
H8	C8	C9	C10	180.7	180.0
H8	C8	C9	H9	0.7	0.3
H8	C8	C17	C16	0.3	359.7
H8	C8	C17	C18	179.4	180.0
H9	C9	C8	C17	180.7	180.0
C8	C9	H9	C10	180.0	179.7
H9	C9	C8	H8	0.7	0.3
H9	C9	C10	H10	359.3	359.8
H14	C14	C12	C25	180.0	180.0
C12	C14	H14	C15	180.0	180.0
H14	C14	C15	H15	0.1	0.0
C12	C25	H25	C26	180.0	180.0
C19	C24	H24	C23	180.0	180.0
H24	C24	C23	H23	359.8	360.0
C20	C21	H21	C22	180.0	180.0
H21	C21	C22	C23	180.1	180.1
H21	C21	C22	H22	0.1	359.9
C21	C22	H22	C23	180.0	180.1
H22	C22	C21	H21	0.1	359.9
H22	C22	C23	C24	180.2	180.0
H22	C22	C23	H23	0.1	0.1
C22	C23	H23	C24	180.0	179.9
H23	C23	C22	H22	0.1	0.1
H23	C23	C24	H24	359.8	360.0