PDB Chemical Component VD5

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 VD5

Atom I	Atom J	Distance (Experimental Model)	Distance (Ideal Model)
C21	C20	1.516	1.503
O3	C25	1.433	1.429
C22	C20	1.511	1.512
C22	C23	1.523	1.533
C26	C25	1.517	1.532
C20	C17	1.365	1.339
C24	C25	1.517	1.542
C24	C23	1.533	1.535
C25	C27	1.540	1.531
C12	C11	1.556	1.543
C12	C13	1.542	1.548
C17	C13	1.520	1.521
C17	C16	1.518	1.513
C11	C9	1.540	1.535
C13	C14	1.541	1.548
C13	C18	1.549	1.549
C16	C15	1.559	1.533
C9	C8	1.530	1.516
C14	C15	1.530	1.529
C14	C8	1.533	1.506
C8	C7	1.373	1.341
C7	C6	1.483	1.441
C6	C5	1.369	1.341
C5	C4	1.519	1.512
C5	C10	1.531	1.507
C4	C3	1.526	1.536
C10	C1	1.547	1.534
O2	C3	1.432	1.428
C3	C2	1.511	1.516
C1	C2	1.478	1.518
C1	O1	1.434	1.424
C2	C28	1.329	1.343
O2	HO2	0.950	0.971
C3	H3	1.100	1.096
C28	H281	1.080	1.084
C28	H282	1.080	1.085
C1	H1	1.100	1.097
O1	HO1	0.950	0.970
C10	H101	1.100	1.099
C10	H102	1.100	1.098
C4	H41	1.100	1.097
C4	H42	1.100	1.097
C6	H6	1.080	1.086
C7	H7	1.080	1.086
C9	H91	1.100	1.096
C9	H92	1.100	1.097
C11	H111	1.100	1.098
C11	H112	1.100	1.097
C12	H121	1.100	1.096
C12	H122	1.100	1.098
C14	H14	1.100	1.104
C18	H181	1.100	1.095
C18	H182	1.100	1.093
C18	H183	1.100	1.093
C15	H151	1.100	1.095
C15	H152	1.100	1.098
C16	H161	1.100	1.095
C16	H162	1.100	1.094
C21	H211	1.100	1.095
C21	H212	1.100	1.095
C21	H213	1.100	1.094
C22	H221	1.100	1.097
C22	H222	1.100	1.098
C23	H231	1.100	1.096
C23	H232	1.100	1.097
C24	H241	1.100	1.099
C24	H242	1.100	1.097
C27	H271	1.100	1.096
C27	H272	1.100	1.095
C27	H273	1.100	1.096
C26	H261	1.100	1.096
C26	H262	1.100	1.095
C26	H263	1.100	1.097
O3	HO3	0.950	0.969

Bond Angles for VD5

Atom I	Atom J	Atom K	Angle (Experimental Model)	Angle (Ideal Model)
C23	C22	H221	109.2	110.0
C23	C22	H222	109.0	109.0
C22	C23	H231	109.3	109.9
C22	C23	H232	109.2	109.0
C24	C25	C27	113.9	112.5
C25	C24	H241	108.5	108.6
C25	C24	H242	107.8	109.6
C24	C23	H231	109.3	109.6
C24	C23	H232	109.2	110.0
C25	C27	H271	109.5	111.4
C25	C27	H272	109.5	111.5
C25	C27	H273	109.5	110.7
C12	C11	H111	107.4	108.3
C12	C11	H112	106.0	109.3
C12	C13	C14	104.6	108.9
C12	C13	C18	112.8	109.6
C13	C12	H121	108.5	111.0
C13	C12	H122	107.8	109.6
C17	C16	H161	110.7	109.9
C17	C16	H162	111.6	112.3
C11	C9	H91	109.3	109.1
C11	C9	H92	109.1	108.5
C13	C14	C15	105.5	103.9
C13	C14	H14	118.7	108.7
C13	C18	H181	109.5	110.5
C13	C18	H182	109.5	110.6
C13	C18	H183	109.4	110.5
C16	C15	H151	111.3	111.7
C16	C15	H152	112.5	110.3
C15	C14	H14	102.7	105.9
C14	C15	H151	111.3	112.6
C14	C15	H152	112.5	111.3
C8	C7	H7	119.2	118.6
C7	C6	H6	118.8	118.0
C5	C4	H41	108.1	108.4
C5	C4	H42	107.1	110.1
C5	C10	H101	108.4	111.3
C5	C10	H102	107.7	109.3
C4	C3	H3	108.1	109.1
C10	C1	H1	107.7	110.0
O2	C3	C2	106.0	109.8
C3	O2	HO2	109.5	106.5
O2	C3	H3	113.6	106.7
C3	C2	C28	122.5	120.8
C2	C3	H3	109.7	111.0
O1	C1	H1	108.1	107.0
C1	O1	HO1	109.5	106.4
C2	C28	H281	106.3	120.8
C2	C28	H282	126.9	120.7
H281	C28	H282	126.8	118.5
H101	C10	H102	112.0	105.5
H41	C4	H42	112.9	107.5
H91	C9	H92	109.9	107.5
H111	C11	H112	114.6	105.9
H121	C12	H122	111.8	105.6
H181	C18	H182	109.5	108.4
H181	C18	H183	109.4	108.4
H182	C18	H183	109.5	108.4
H151	C15	H152	105.3	107.8
H161	C16	H162	106.6	109.2
H211	C21	H212	109.5	107.6
H211	C21	H213	109.4	108.6
H212	C21	H213	109.5	107.5
H221	C22	H222	110.2	106.0
H231	C23	H232	109.8	107.2
H241	C24	H242	111.8	107.0
H271	C27	H272	109.5	108.9
H271	C27	H273	109.4	105.8
H272	C27	H273	109.5	108.2
H261	C26	H262	109.4	108.5
H261	C26	H263	109.5	106.3
H262	C26	H263	109.5	108.4

Torsion Angles for VD5

Atom I	Atom J	Atom K	Atom L	Angle (Experimental Model)	Angle (Ideal Model)
O3	C25	C24	H241	183.5	179.9
O3	C25	C24	H242	304.8	63.3
O3	C25	C27	H271	23.1	306.5
O3	C25	C27	H272	143.1	184.6
O3	C25	C27	H273	263.1	64.0
C24	C23	C22	H231	240.0	121.5
C24	C23	C22	H232	119.8	238.7
H221	C22	C23	H222	120.4	115.7
H231	C23	C22	H232	239.8	117.2
C26	C25	C24	H241	303.7	297.3
C26	C25	C24	H242	65.0	180.8
C26	C25	C27	H271	263.2	188.7
C26	C25	C27	H272	23.2	66.8
C26	C25	C27	H273	143.2	306.2
C20	C17	C16	H161	302.3	298.7
C20	C17	C16	H162	60.9	60.5
C25	C24	C23	H231	92.5	300.7
C25	C24	C23	H232	332.3	58.3
C24	C25	C27	H271	144.1	66.3
C24	C25	C27	H272	264.1	304.4
C24	C25	C27	H273	24.1	183.8
H241	C24	C25	H242	238.7	116.6
C24	C23	C22	H221	160.4	59.5
C24	C23	C22	H222	40.0	303.8
C22	C23	C24	H231	120.0	238.4
C22	C23	C24	H232	240.2	120.8
H231	C23	C24	H232	120.2	242.4
C27	C25	C24	H241	63.0	60.0
C27	C25	C24	H242	184.3	303.4
H271	C27	C25	H272	240.0	121.9
H271	C27	C25	H273	120.0	242.5
H272	C27	C25	H273	240.0	120.6
C12	C11	C9	H91	160.9	185.8
C12	C11	C9	H92	281.1	69.0
H111	C11	C12	H112	237.1	114.9
C13	C12	C11	H111	71.0	266.0
C13	C12	C11	H112	193.9	151.1
C12	C13	C14	C15	159.5	163.2
C12	C13	C14	H14	45.1	50.8
C12	C13	C18	H181	305.8	102.9
C12	C13	C18	H182	65.8	222.9
C12	C13	C18	H183	185.9	342.9
H121	C12	C13	H122	121.3	116.3
C17	C13	C12	H121	53.0	19.4
C17	C13	C12	H122	291.7	263.1
C17	C13	C14	H14	281.0	287.5
C17	C13	C18	H181	75.7	230.8
C17	C13	C18	H182	195.7	350.8
C17	C13	C18	H183	315.7	110.8
C17	C16	C15	H151	139.0	147.2
C17	C16	C15	H152	257.0	267.1
H161	C16	C17	H162	241.4	238.2
H91	C9	C11	H92	239.8	116.8
C12	C13	C14	C18	236.5	237.3
C14	C13	C12	H121	299.5	266.9
C14	C13	C12	H122	178.2	150.6
C15	C14	C13	H14	114.4	112.4
C13	C14	C15	H151	206.1	197.7
C13	C14	C15	H152	88.2	76.4
C12	C13	C18	C14	119.0	122.3
C18	C13	C12	H121	175.4	141.5
C18	C13	C12	H122	54.1	25.2
C18	C13	C14	C15	283.0	285.9
C18	C13	C14	H14	168.7	173.5
H181	C18	C13	H182	240.0	240.0
H181	C18	C13	H183	120.0	120.0
H182	C18	C13	H183	240.0	240.0
C16	C15	C14	H14	91.1	72.5
C14	C15	C16	H151	240.0	238.8
C14	C15	C16	H152	122.0	119.0
H151	C15	C16	H152	242.0	240.1
C9	C8	C7	H7	178.6	180.0
C13	C14	C15	H14	235.0	245.6
C16	C15	C14	H151	120.0	120.5
C16	C15	C14	H152	237.9	241.7
H151	C15	C14	H152	117.9	121.2
C14	C8	C7	H7	355.4	0.2
C8	C7	C6	H6	20.4	0.0
C6	C5	C4	H41	267.6	248.5
C6	C5	C4	H42	29.5	5.7
C6	C5	C10	H101	338.6	356.6
C6	C5	C10	H102	100.0	112.7
C4	C5	C10	H101	160.0	175.4
C4	C5	C10	H102	281.4	291.5
C5	C4	C3	H3	158.4	171.7
H41	C4	C5	H42	238.1	242.7
C5	C10	C1	H1	73.2	67.5
H101	C10	C5	H102	238.6	243.9
C4	C3	O2	HO2	176.9	300.6
O2	C3	C4	H3	123.2	116.0
C2	C3	C4	H3	239.2	237.1
O1	C1	C10	H1	119.2	116.3
C10	C1	O1	HO1	320.2	341.7
C4	C3	O2	H3	240.3	242.5
O2	C3	C2	C28	244.8	246.3
C2	C3	O2	H3	120.6	120.4
C4	C3	C2	H3	119.9	121.8
C2	C3	O2	HO2	57.2	178.4
O2	C3	C2	H3	236.9	242.2
C3	C2	C28	H281	358.7	1.9
C3	C2	C28	H282	178.7	182.0
C1	C2	C3	H3	185.5	185.8
C1	C2	C28	H281	181.2	180.0
C1	C2	C28	H282	1.2	0.1
C10	C1	O1	H1	241.1	241.8
C28	C2	C3	H3	7.9	4.0
H281	C28	C2	H282	180.0	179.9
HO2	O2	C3	C2	57.2	178.4
HO2	O2	C3	H3	296.6	58.1
O2	C3	H3	C2	118.5	119.6
H3	C3	O2	HO2	296.6	58.1
H3	C3	C2	C28	7.9	4.0
C2	C28	H281	H282	180.0	180.1
C2	C28	H282	H281	180.0	179.9
H1	C1	O1	HO1	79.2	99.9
HO1	O1	C1	H1	79.2	99.9
C5	C10	H101	H102	118.7	118.4
H101	C10	C1	H1	313.2	304.2
C5	C10	H102	H101	240.9	240.3
H102	C10	C1	H1	191.8	188.8
C5	C4	H41	H42	118.3	118.9
H41	C4	C3	H3	38.4	51.7
C5	C4	H42	H41	241.2	242.2
H42	C4	C3	H3	276.5	294.0
H7	C7	C6	H6	200.4	180.0
C11	C9	H91	H92	119.7	242.5
C11	C9	H92	H91	240.2	117.8
C12	C11	H111	H112	117.4	242.9
H111	C11	C9	H91	40.9	307.0
H111	C11	C9	H92	161.1	190.3
C12	C11	H112	H111	241.8	116.5
H112	C11	C9	H91	278.0	62.2
H112	C11	C9	H92	38.2	305.5
H121	C12	C11	H111	191.0	29.4
H121	C12	C11	H112	313.9	274.5
H121	C12	C13	C14	299.5	266.9
H121	C12	C13	C18	175.4	141.5
C13	C12	H121	H122	241.2	241.3
H122	C12	C11	H111	312.3	143.5
H122	C12	C11	H112	75.2	28.6
H122	C12	C13	C14	178.2	150.6
H122	C12	C13	C18	54.1	25.2
C13	C12	H122	H121	119.2	119.7
C13	C14	H14	C15	115.9	111.1
H14	C14	C15	H151	331.1	312.0
H14	C14	C15	H152	213.1	190.8
C13	C18	H181	H182	120.0	121.3
C13	C18	H181	H183	240.0	238.7
H182	C18	H181	H183	120.0	117.4
C13	C18	H182	H181	240.0	238.7
C13	C18	H182	H183	120.0	121.3
H181	C18	H182	H183	240.0	242.6
C13	C18	H183	H181	120.0	121.2
C13	C18	H183	H182	240.0	238.7
H181	C18	H183	H182	120.0	117.4
C16	C15	H151	H152	122.3	121.4
H151	C15	C14	H14	331.1	312.0
C14	C15	H151	H152	237.8	236.8
C16	C15	H152	H151	238.5	237.8
H152	C15	C14	H14	213.1	190.8
C14	C15	H152	H151	121.4	124.0
C17	C16	H161	H162	121.6	123.6
H161	C16	C15	H151	19.0	29.3
H161	C16	C15	H152	137.0	149.2
C17	C16	H162	H161	239.0	237.9
H162	C16	C15	H151	260.4	268.4
H162	C16	C15	H152	18.4	28.2
H212	C21	H211	H213	120.0	116.0
H211	C21	H212	H213	240.0	243.3
H211	C21	H213	H212	120.0	116.1
C23	C22	H221	H222	240.4	242.4
H221	C22	C23	H231	280.4	298.1
H221	C22	C23	H232	40.6	180.9
C23	C22	H222	H221	119.8	118.3
H222	C22	C23	H231	160.0	182.3
H222	C22	C23	H232	280.2	65.1
H231	C23	C22	H221	280.4	298.1
H231	C23	C22	H222	160.0	182.3
C22	C23	H231	H232	119.8	241.6
C24	C23	H231	H232	240.2	119.4
H232	C23	C22	H221	40.6	180.9
H232	C23	C22	H222	280.2	65.1
C22	C23	H232	H231	240.1	118.9
C24	C23	H232	H231	119.9	240.9
H241	C24	C25	C27	63.0	60.0
C25	C24	H241	H242	118.8	241.7
H241	C24	C23	H231	332.5	61.6
H241	C24	C23	H232	212.3	179.2
H242	C24	C25	C27	184.3	303.4
C25	C24	H242	H241	240.8	117.6
H242	C24	C23	H231	211.2	177.4
H242	C24	C23	H232	91.0	295.0
C25	C27	H271	H272	120.0	236.5
C25	C27	H271	H273	240.0	120.4
H272	C27	H271	H273	120.0	243.8
C25	C27	H272	H271	239.9	123.4
C25	C27	H272	H273	120.0	238.0
H271	C27	H272	H273	240.1	114.6
C25	C27	H273	H271	120.0	239.1
C25	C27	H273	H272	240.0	122.5
H271	C27	H273	H272	120.0	243.4
H262	C26	H261	H263	120.0	116.5
H261	C26	H262	H263	240.0	244.9
H261	C26	H263	H262	120.0	116.5