SVS

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
S	O2P	doub	1.42Å	1.43Å
N1	C6	sing	1.33Å	1.36Å	Aromatic
C2	N1	doub	1.32Å	1.34Å	Aromatic
C2	H2	sing	1.08Å	1.08Å
N3	C2	sing	1.32Å	1.34Å	Aromatic
N3	C4	doub	1.33Å	1.36Å	Aromatic
C4	C5	sing	1.40Å	1.39Å	Aromatic
C5	C6	doub	1.41Å	1.40Å	Aromatic
C5	N7	sing	1.35Å	1.35Å	Aromatic
C6	N6	sing	1.38Å	1.36Å
N6	HN6	sing	0.97Å	1.00Å
N6	HN6A	sing	0.97Å	1.00Å
C8	N7	doub	1.30Å	1.35Å	Aromatic
C8	H8	sing	1.08Å	1.08Å
N9	C4	sing	1.37Å	1.34Å	Aromatic
N9	C8	sing	1.36Å	1.34Å	Aromatic
C1'	N9	sing	1.46Å	1.48Å
C1'	O4'	sing	1.44Å	1.42Å
C1'	H1'	sing	1.09Å	1.10Å
C14	C19	sing	1.39Å	1.42Å	Aromatic
O14	C14	sing	1.36Å	1.37Å
O14	HO14	sing	0.97Å	0.95Å
C15	C14	doub	1.39Å	1.40Å	Aromatic
C15	C16	sing	1.38Å	1.39Å	Aromatic
C15	H15	sing	1.08Å	1.08Å
C16	C17	doub	1.38Å	1.39Å	Aromatic
C16	H16	sing	1.08Å	1.08Å
C17	C18	sing	1.38Å	1.40Å	Aromatic
C17	H17	sing	1.08Å	1.08Å
C18	H18	sing	1.08Å	1.08Å
C19	C18	doub	1.38Å	1.40Å	Aromatic
C19	C21	sing	1.51Å	1.54Å
O1P	S	doub	1.42Å	1.45Å
C2'	C1'	sing	1.55Å	1.51Å
C2'	H2'	sing	1.09Å	1.10Å
O2'	C2'	sing	1.43Å	1.43Å
O2'	HO2'	sing	0.97Å	0.95Å
C21	H21	sing	1.09Å	1.10Å
C22	S	sing	1.81Å	1.69Å
C22	C21	sing	1.53Å	1.54Å
C22	H22	sing	1.09Å	1.10Å
C3'	C2'	sing	1.55Å	1.51Å
C3'	C4'	sing	1.55Å	1.50Å
C3'	H3'	sing	1.09Å	1.10Å
O3'	C3'	sing	1.43Å	1.43Å
O3'	HO3'	sing	0.97Å	0.95Å
C4'	C5'	sing	1.53Å	1.51Å
C4'	O4'	sing	1.44Å	1.42Å
C4'	H4'	sing	1.09Å	1.10Å
C5'	N5'	sing	1.46Å	1.44Å
C5'	H5'	sing	1.09Å	1.10Å
C5'	H5'A	sing	1.09Å	1.10Å
N5'	S	sing	1.66Å	1.59Å
N5'	HN5'	sing	0.97Å	1.00Å
C21	H211	sing	1.09Å	1.10Å
C22	H221	sing	1.09Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O2P	S	O1P	108.5°	121.0°
O2P	S	C22	111.1°	110.5°
O2P	S	N5'	106.5°	104.3°
C6	N1	C2	120.5°	121.2°
N1	C6	C5	119.0°	118.4°
N1	C6	N6	119.6°	120.8°
N1	C2	H2	119.3°	118.8°
N1	C2	N3	121.4°	122.5°
H2	C2	N3	119.3°	118.7°
C2	N3	C4	120.7°	120.6°
N3	C4	C5	119.2°	119.1°
N3	C4	N9	133.0°	134.9°
C4	C5	C6	119.1°	118.2°
C4	C5	N7	106.7°	107.2°
C5	C4	N9	107.8°	106.0°
C6	C5	N7	134.2°	134.6°
C5	C6	N6	121.4°	120.8°
C5	N7	C8	108.1°	109.4°
C6	N6	HN6	109.5°	120.0°
C6	N6	HN6A	109.5°	120.0°
HN6	N6	HN6A	109.5°	120.0°
N7	C8	H8	125.7°	125.0°
N7	C8	N9	108.7°	110.0°
H8	C8	N9	125.7°	125.0°
C4	N9	C8	108.7°	107.4°
C4	N9	C1'	126.2°	126.3°
C8	N9	C1'	125.1°	126.3°
N9	C1'	O4'	108.0°	110.4°
N9	C1'	H1'	105.9°	110.4°
N9	C1'	C2'	115.1°	110.4°
O4'	C1'	H1'	114.1°	110.4°
O4'	C1'	C2'	107.0°	104.8°
C1'	O4'	C4'	108.5°	105.3°
H1'	C1'	C2'	107.0°	110.4°
C19	C14	O14	123.8°	120.1°
C19	C14	C15	119.7°	119.9°
C14	C19	C18	117.7°	119.9°
C14	C19	C21	125.7°	120.0°
C14	O14	HO14	109.5°	114.0°
O14	C14	C15	116.4°	120.0°
C14	C15	C16	121.6°	120.0°
C14	C15	H15	119.2°	120.0°
C16	C15	H15	119.2°	120.0°
C15	C16	C17	118.9°	120.0°
C15	C16	H16	120.5°	120.0°
C17	C16	H16	120.5°	120.0°
C16	C17	C18	120.0°	120.1°
C16	C17	H17	120.0°	120.0°
C18	C17	H17	120.0°	119.9°
C17	C18	H18	119.0°	120.0°
C17	C18	C19	122.0°	120.1°
H18	C18	C19	119.0°	119.9°
C18	C19	C21	116.4°	120.1°
C19	C21	H21	107.1°	109.5°
C19	C21	C22	116.7°	109.5°
C19	C21	H211	107.2°	109.5°
O1P	S	C22	112.9°	110.6°
O1P	S	N5'	107.8°	104.3°
C1'	C2'	H2'	113.3°	110.5°
C1'	C2'	O2'	106.1°	110.5°
C1'	C2'	C3'	105.6°	104.1°
H2'	C2'	O2'	111.8°	110.5°
H2'	C2'	C3'	112.3°	110.4°
C2'	O2'	HO2'	109.5°	114.0°
O2'	C2'	C3'	107.2°	110.6°
H21	C21	C22	107.1°	109.4°
H21	C21	H211	111.7°	109.5°
S	C22	C21	115.9°	109.5°
S	C22	H22	107.4°	109.5°
C22	S	N5'	109.8°	104.4°
S	C22	H221	107.4°	109.5°
C21	C22	H22	107.4°	109.5°
C22	C21	H211	107.1°	109.5°
C21	C22	H221	107.4°	109.4°
H22	C22	H221	111.5°	109.5°
C2'	C3'	C4'	102.7°	104.0°
C2'	C3'	H3'	112.3°	110.6°
C2'	C3'	O3'	111.6°	110.5°
C4'	C3'	H3'	114.9°	110.5°
C4'	C3'	O3'	108.9°	110.5°
C3'	C4'	C5'	111.8°	110.3°
C3'	C4'	O4'	106.2°	104.8°
C3'	C4'	H4'	109.7°	110.4°
H3'	C3'	O3'	106.5°	110.6°
C3'	O3'	HO3'	109.5°	114.0°
C5'	C4'	O4'	108.0°	110.4°
C5'	C4'	H4'	107.9°	110.3°
C4'	C5'	N5'	106.6°	109.5°
C4'	C5'	H5'	110.5°	109.4°
C4'	C5'	H5'A	110.5°	109.5°
O4'	C4'	H4'	113.3°	110.5°
N5'	C5'	H5'	110.4°	109.5°
N5'	C5'	H5'A	110.4°	109.5°
C5'	N5'	S	118.9°	120.0°
C5'	N5'	HN5'	106.4°	120.0°
H5'	C5'	H5'A	108.5°	109.5°
S	N5'	HN5'	106.5°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2P	S	O1P	C22	123.6°	131.5°
O2P	S	O1P	N5'	114.9°	116.8°
O2P	S	C22	N5'	117.5°	111.7°
O2P	S	C22	C21	9.1°	68.3°
O2P	S	C22	H22	110.9°	51.7°
O2P	S	N5'	C5'	153.2°	51.1°
O2P	S	N5'	HN5'	33.2°	128.9°
O2P	S	C22	H221	129.1°	171.7°
C6	N1	C2	H2	179.9°	180.0°
C6	N1	C2	N3	0.1°	0.1°
N1	C6	C5	C4	0.0°	0.0°
N1	C6	C5	N6	179.6°	180.0°
N1	C6	C5	N7	179.7°	179.9°
N1	C6	N6	HN6	0.0°	0.0°
N1	C6	N6	HN6A	120.0°	180.0°
N1	C2	H2	N3	180.0°	180.0°
N1	C2	N3	C4	0.1°	0.1°
C2	N1	C6	C5	0.1°	0.0°
C2	N1	C6	N6	179.6°	180.0°
H2	C2	N3	C4	180.0°	180.0°
C2	N3	C4	C5	0.0°	0.0°
C2	N3	C4	N9	179.9°	180.0°
N3	C4	C5	N9	179.9°	180.0°
N3	C4	C5	C6	0.0°	0.0°
N3	C4	C5	N7	179.7°	180.0°
N3	C4	N9	C8	179.5°	180.0°
N3	C4	N9	C1'	1.2°	0.0°
C4	C5	C6	N7	179.7°	179.9°
C4	C5	C6	N6	179.6°	180.0°
C4	C5	N7	C8	0.0°	0.0°
C5	C4	N9	C8	0.6°	0.0°
C5	C4	N9	C1'	178.9°	179.9°
C5	C6	N6	HN6	179.6°	180.0°
C5	C6	N6	HN6A	59.6°	0.0°
C6	C5	N7	C8	179.7°	180.0°
C6	C5	C4	N9	179.9°	180.0°
N7	C5	C6	N6	0.1°	0.1°
C5	N7	C8	H8	179.6°	180.0°
N7	C5	C4	N9	0.3°	0.0°
C5	N7	C8	N9	0.4°	0.0°
C6	N6	HN6	HN6A	120.0°	180.0°
N7	C8	H8	N9	180.0°	180.0°
N7	C8	N9	C4	0.6°	0.0°
N7	C8	N9	C1'	179.0°	179.9°
H8	C8	N9	C4	179.4°	180.0°
H8	C8	N9	C1'	1.0°	0.1°
C4	N9	C8	C1'	178.4°	179.9°
C4	N9	C1'	O4'	164.0°	156.4°
C4	N9	C1'	H1'	41.4°	34.1°
C4	N9	C1'	C2'	76.5°	88.2°
C8	N9	C1'	O4'	14.1°	23.5°
C8	N9	C1'	H1'	136.7°	145.8°
C8	N9	C1'	C2'	105.4°	91.9°
N9	C1'	O4'	H1'	117.5°	122.3°
N9	C1'	O4'	C2'	124.4°	118.8°
N9	C1'	H1'	C2'	123.2°	122.3°
N9	C1'	C2'	H2'	4.7°	24.2°
N9	C1'	C2'	O2'	127.7°	98.4°
N9	C1'	C2'	C3'	118.7°	142.8°
N9	C1'	O4'	C4'	143.0°	159.3°
O4'	C1'	H1'	C2'	118.1°	115.4°
O4'	C1'	C2'	H2'	124.7°	94.7°
O4'	C1'	C2'	O2'	112.2°	142.7°
O4'	C1'	C2'	C3'	1.4°	23.9°
C1'	O4'	C4'	C3'	31.3°	40.5°
C1'	O4'	C4'	C5'	151.4°	159.3°
C1'	O4'	C4'	H4'	89.2°	78.4°
H1'	C1'	C2'	H2'	112.6°	146.5°
H1'	C1'	C2'	O2'	10.4°	23.9°
H1'	C1'	C2'	C3'	124.0°	94.9°
H1'	C1'	O4'	C4'	99.6°	78.4°
C19	C14	O14	C15	179.1°	179.7°
C19	C14	O14	HO14	180.0°	90.0°
C19	C14	C15	C16	0.6°	0.0°
C19	C14	C15	H15	179.4°	180.0°
C14	C19	C18	C17	1.7°	0.0°
C14	C19	C18	H18	178.3°	180.0°
C14	C19	C18	C21	176.3°	179.7°
C14	C19	C21	H21	66.1°	155.0°
C14	C19	C21	C22	53.9°	85.0°
C14	C19	C21	H211	173.9°	35.0°
O14	C14	C15	C16	179.8°	179.7°
O14	C14	C15	H15	0.2°	0.3°
O14	C14	C19	C18	179.3°	179.7°
O14	C14	C19	C21	3.4°	0.0°
HO14	O14	C14	C15	0.9°	89.7°
C14	C15	C16	H15	180.0°	180.0°
C14	C15	C16	C17	0.3°	0.0°
C14	C15	C16	H16	179.6°	179.9°
C15	C14	C19	C18	1.6°	0.0°
C15	C14	C19	C21	177.6°	179.7°
C15	C16	C17	H16	180.0°	180.0°
C15	C16	C17	C18	0.3°	0.0°
C15	C16	C17	H17	179.7°	180.0°
H15	C15	C16	C17	179.7°	180.0°
H15	C15	C16	H16	0.4°	0.0°
C16	C17	C18	H17	180.0°	179.9°
C16	C17	C18	H18	179.2°	179.9°
C16	C17	C18	C19	0.8°	0.0°
H16	C16	C17	C18	179.7°	180.0°
H16	C16	C17	H17	0.3°	0.0°
C17	C18	H18	C19	180.0°	179.9°
C17	C18	C19	C21	178.0°	179.7°
H17	C17	C18	H18	0.8°	0.0°
H17	C17	C18	C19	179.2°	179.9°
H18	C18	C19	C21	1.9°	0.3°
C18	C19	C21	H21	109.9°	24.7°
C18	C19	C21	C22	130.1°	95.3°
C18	C19	C21	H211	10.1°	144.7°
C19	C21	H21	C22	126.0°	120.0°
C19	C21	H21	H211	117.0°	120.0°
C19	C21	C22	S	167.1°	180.0°
C19	C21	C22	H211	120.0°	120.0°
C19	C21	C22	H22	72.9°	60.0°
C19	C21	C22	H221	47.1°	60.0°
O1P	S	C22	N5'	120.3°	111.6°
O1P	S	C22	C21	131.3°	68.3°
O1P	S	C22	H22	11.3°	171.6°
O1P	S	N5'	C5'	90.5°	178.9°
O1P	S	N5'	HN5'	149.5°	1.1°
O1P	S	C22	H221	108.7°	51.6°
C1'	C2'	H2'	O2'	119.9°	122.7°
C1'	C2'	H2'	C3'	119.5°	114.6°
C1'	C2'	O2'	C3'	112.5°	114.8°
C1'	C2'	O2'	HO2'	180.0°	180.0°
C1'	C2'	C3'	C4'	19.0°	0.1°
C1'	C2'	C3'	H3'	104.9°	118.6°
C1'	C2'	C3'	O3'	135.6°	118.6°
C2'	C1'	O4'	C4'	18.5°	40.5°
H2'	C2'	O2'	C3'	123.5°	122.6°
H2'	C2'	O2'	HO2'	56.0°	57.4°
H2'	C2'	C3'	C4'	143.0°	118.7°
H2'	C2'	C3'	H3'	19.0°	0.0°
H2'	C2'	C3'	O3'	100.5°	122.8°
O2'	C2'	C3'	C4'	93.8°	118.7°
O2'	C2'	C3'	H3'	142.2°	122.6°
O2'	C2'	C3'	O3'	22.7°	0.1°
HO2'	O2'	C2'	C3'	67.5°	65.2°
H21	C21	C22	S	72.9°	60.0°
H21	C21	C22	H211	120.0°	120.0°
H21	C21	C22	H22	47.1°	60.0°
H21	C21	C22	H221	167.1°	NaN°
S	C22	C21	H22	120.0°	120.0°
S	C22	C21	H221	120.0°	120.0°
S	C22	H22	H221	117.4°	120.0°
C22	S	N5'	C5'	32.9°	65.0°
C22	S	N5'	HN5'	87.1°	115.0°
S	C22	C21	H211	47.1°	60.0°
C21	C22	H22	H221	117.4°	120.0°
C21	C22	S	N5'	108.3°	180.0°
H22	C22	S	N5'	131.6°	60.0°
H22	C22	C21	H211	167.1°	180.0°
C2'	C3'	C4'	H3'	122.3°	118.7°
C2'	C3'	C4'	O3'	118.5°	118.6°
C2'	C3'	H3'	O3'	122.4°	122.7°
C2'	C3'	O3'	HO3'	180.0°	61.5°
C2'	C3'	C4'	C5'	148.2°	142.9°
C2'	C3'	C4'	O4'	30.6°	24.0°
C2'	C3'	C4'	H4'	92.2°	95.0°
C4'	C3'	H3'	O3'	120.7°	122.7°
C4'	C3'	O3'	HO3'	67.3°	176.1°
C3'	C4'	C5'	O4'	116.5°	115.4°
C3'	C4'	C5'	H4'	120.7°	122.2°
C3'	C4'	O4'	H4'	120.5°	118.9°
C3'	C4'	C5'	N5'	167.7°	175.0°
C3'	C4'	C5'	H5'	47.7°	55.0°
C3'	C4'	C5'	H5'A	72.3°	65.0°
H3'	C3'	O3'	HO3'	57.1°	61.2°
H3'	C3'	C4'	C5'	26.0°	24.2°
H3'	C3'	C4'	O4'	91.6°	94.7°
H3'	C3'	C4'	H4'	145.6°	146.3°
O3'	C3'	C4'	C5'	93.3°	98.6°
O3'	C3'	C4'	O4'	149.1°	142.6°
O3'	C3'	C4'	H4'	26.3°	23.6°
C5'	C4'	O4'	H4'	119.5°	122.3°
C4'	C5'	N5'	H5'	120.0°	120.0°
C4'	C5'	N5'	H5'A	120.0°	120.0°
C4'	C5'	H5'	H5'A	121.2°	120.0°
C4'	C5'	N5'	S	161.1°	165.0°
C4'	C5'	N5'	HN5'	41.0°	15.0°
O4'	C4'	C5'	N5'	75.8°	69.6°
O4'	C4'	C5'	H5'	164.2°	170.4°
O4'	C4'	C5'	H5'A	44.2°	50.4°
H4'	C4'	C5'	N5'	47.0°	52.8°
H4'	C4'	C5'	H5'	73.0°	67.2°
H4'	C4'	C5'	H5'A	167.0°	172.8°
N5'	C5'	H5'	H5'A	121.2°	120.0°
C5'	N5'	S	HN5'	120.0°	180.0°
H5'	C5'	N5'	S	78.9°	45.0°
H5'	C5'	N5'	HN5'	161.0°	134.9°
H5'A	C5'	N5'	S	41.1°	75.0°
H5'A	C5'	N5'	HN5'	79.0°	105.0°
N5'	S	C22	H221	11.6°	60.0°
H211	C21	C22	H221	72.9°	60.0°

Definition date:	2011-04-12
Last modified:	2012-03-02
Release status:	REL
Processing site:	RCSB
Derived from:	3RG2