VSN

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O6	C6	doub	1.22Å	1.22Å
C6	N1	sing	1.35Å	1.33Å
C6	C5	sing	1.41Å	1.42Å
N1	C2	sing	1.36Å	1.33Å
C5	N7	sing	1.36Å	1.34Å	Aromatic
C5	C4	doub	1.40Å	1.37Å	Aromatic
N7	C8	doub	1.30Å	1.32Å	Aromatic
C2	N2	sing	1.37Å	1.46Å
C2	N3	doub	1.31Å	1.33Å
C4	N3	sing	1.34Å	1.35Å
C4	N9	sing	1.37Å	1.33Å	Aromatic
C8	N9	sing	1.37Å	1.32Å	Aromatic
N9	C1'	sing	1.46Å	1.44Å
OP1	P	doub	1.48Å	1.52Å
C1'	O4'	sing	1.45Å	1.29Å
C1'	C2'	sing	1.55Å	1.67Å
O4'	C4'	sing	1.44Å	1.61Å
OP2	P	sing	1.61Å	1.53Å
P	O5'	sing	1.61Å	1.68Å
P	OP3	sing	1.61Å	1.66Å
O5'	C5'	sing	1.43Å	1.43Å
O2B	PB	sing	1.61Å	1.66Å
C2'	O2'	sing	1.43Å	1.42Å
C2'	C3'	sing	1.55Å	1.33Å
C4'	C5'	sing	1.53Å	1.37Å
C4'	C3'	sing	1.54Å	1.55Å
OP3	PB	sing	1.61Å	1.67Å
PB	S1B	doub	1.86Å	1.91Å
PB	O3B	sing	1.61Å	1.65Å
C3'	O3'	sing	1.43Å	1.49Å
C3'	H3'	sing	1.09Å	1.10Å
C4'	H4'	sing	1.09Å	1.10Å
C5'	H5'	sing	1.09Å	1.10Å
C5'	H5''	sing	1.09Å	1.10Å
C1'	H1'	sing	1.09Å	1.10Å
C2'	H2'	sing	1.09Å	1.10Å
C8	H8	sing	1.08Å	1.08Å
N2	H22	sing	0.97Å	1.00Å
N2	H21	sing	0.97Å	1.00Å
N1	HOP3	sing	0.97Å	1.00Å
O3'	HO3'	sing	0.97Å	0.95Å
OP2	HOP2	sing	0.97Å	0.95Å
O3B	HOB3	sing	0.97Å	0.95Å
O2B	HOB2	sing	0.97Å	0.95Å
O2'	HO2'	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O6	C6	N1	119.9°	120.8°
O6	C6	C5	120.5°	120.8°
N1	C6	C5	119.5°	118.3°
C6	N1	C2	120.6°	120.4°
C6	N1	HOP3	119.7°	119.8°
C6	C5	N7	135.2°	134.1°
C6	C5	C4	117.7°	118.6°
N1	C2	N2	119.4°	119.1°
N1	C2	N3	122.0°	121.9°
C2	N1	HOP3	119.7°	119.9°
N7	C5	C4	107.1°	107.3°
C5	N7	C8	108.1°	109.3°
C5	C4	N3	120.1°	119.7°
C5	C4	N9	107.1°	106.1°
N7	C8	N9	109.3°	109.8°
N7	C8	H8	125.3°	125.1°
N2	C2	N3	118.6°	119.0°
C2	N2	H22	120.0°	120.0°
C2	N2	H21	120.0°	120.0°
C2	N3	C4	120.0°	121.1°
N3	C4	N9	132.8°	134.2°
C4	N9	C8	108.4°	107.5°
C4	N9	C1'	124.3°	126.3°
C8	N9	C1'	127.3°	126.3°
N9	C8	H8	125.3°	125.1°
N9	C1'	O4'	110.7°	110.6°
N9	C1'	C2'	108.5°	110.7°
N9	C1'	H1'	110.4°	110.7°
OP1	P	OP2	109.6°	109.5°
OP1	P	O5'	109.3°	109.5°
OP1	P	OP3	110.3°	109.5°
O4'	C1'	C2'	106.7°	103.5°
C1'	O4'	C4'	105.9°	107.0°
O4'	C1'	H1'	112.9°	110.6°
C1'	C2'	O2'	110.1°	110.9°
C1'	C2'	C3'	105.4°	102.1°
C2'	C1'	H1'	107.5°	110.5°
C1'	C2'	H2'	107.7°	110.9°
O4'	C4'	C5'	109.3°	109.9°
O4'	C4'	C3'	105.7°	107.3°
O4'	C4'	H4'	108.9°	110.0°
OP2	P	O5'	109.2°	109.5°
OP2	P	OP3	110.0°	109.5°
P	OP2	HOP2	109.5°	114.0°
O5'	P	OP3	108.4°	109.4°
P	O5'	C5'	117.5°	123.0°
P	OP3	PB	124.9°	134.0°
O5'	C5'	C4'	108.1°	109.5°
O5'	C5'	H5'	109.8°	109.5°
O5'	C5'	H5''	109.8°	109.5°
O2B	PB	OP3	109.4°	109.4°
O2B	PB	S1B	109.4°	109.5°
O2B	PB	O3B	109.5°	109.5°
PB	O2B	HOB2	109.5°	114.0°
O2'	C2'	C3'	110.0°	110.9°
O2'	C2'	H2'	111.0°	110.8°
C2'	O2'	HO2'	109.5°	114.0°
C2'	C3'	C4'	104.3°	104.3°
C2'	C3'	O3'	110.0°	110.5°
C2'	C3'	H3'	112.6°	110.5°
C3'	C2'	H2'	112.5°	110.8°
C5'	C4'	C3'	110.6°	109.9°
C5'	C4'	H4'	112.3°	109.9°
C4'	C5'	H5'	109.8°	109.5°
C4'	C5'	H5''	109.8°	109.5°
C4'	C3'	O3'	110.3°	110.5°
C4'	C3'	H3'	109.3°	110.5°
C3'	C4'	H4'	109.7°	109.8°
OP3	PB	S1B	109.5°	109.5°
OP3	PB	O3B	109.6°	109.5°
S1B	PB	O3B	109.3°	109.5°
PB	O3B	HOB3	109.5°	114.0°
O3'	C3'	H3'	110.1°	110.4°
C3'	O3'	HO3'	109.5°	113.9°
H5'	C5'	H5''	109.5°	109.4°
H22	N2	H21	120.0°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O6	C6	N1	C5	179.9°	179.9°
O6	C6	N1	C2	179.9°	179.9°
O6	C6	C5	N7	0.1°	0.0°
O6	C6	C5	C4	179.8°	179.7°
O6	C6	N1	HOP3	0.1°	0.0°
C6	N1	C2	HOP3	180.0°	179.9°
N1	C6	C5	N7	180.0°	180.0°
N1	C6	C5	C4	0.1°	0.2°
C6	N1	C2	N2	180.0°	180.0°
C6	N1	C2	N3	0.0°	0.1°
C5	C6	N1	C2	0.0°	0.1°
C6	C5	N7	C4	179.9°	179.8°
C6	C5	N7	C8	180.0°	180.0°
C6	C5	C4	N3	0.2°	0.2°
C6	C5	C4	N9	179.9°	179.8°
C5	C6	N1	HOP3	180.0°	180.0°
N1	C2	N2	N3	180.0°	179.8°
N1	C2	N3	C4	0.2°	0.2°
N1	C2	N2	H22	180.0°	179.9°
N1	C2	N2	H21	0.0°	0.1°
N7	C5	C4	N3	179.9°	180.0°
N7	C5	C4	N9	0.1°	0.4°
C5	N7	C8	N9	0.0°	0.0°
C5	N7	C8	H8	180.0°	179.7°
C4	C5	N7	C8	0.1°	0.2°
C5	C4	N3	C2	0.2°	0.0°
C5	C4	N3	N9	179.7°	179.5°
C5	C4	N9	C8	0.1°	0.4°
C5	C4	N9	C1'	179.6°	179.7°
N7	C8	N9	C4	0.0°	0.2°
N7	C8	N9	H8	180.0°	179.7°
N7	C8	N9	C1'	179.6°	179.8°
N2	C2	N3	C4	179.9°	180.0°
C2	N2	H22	H21	180.0°	180.0°
N2	C2	N1	HOP3	0.0°	0.1°
C2	N3	C4	N9	179.9°	179.5°
N3	C2	N2	H22	0.0°	0.1°
N3	C2	N2	H21	180.0°	180.0°
N3	C2	N1	HOP3	180.0°	179.7°
N3	C4	N9	C8	179.8°	179.9°
N3	C4	N9	C1'	0.1°	0.1°
C4	N9	C8	C1'	179.7°	180.0°
C4	N9	C1'	O4'	154.2°	156.4°
C4	N9	C1'	C2'	89.0°	89.5°
C4	N9	C1'	H1'	28.5°	33.5°
C4	N9	C8	H8	179.9°	180.0°
C8	N9	C1'	O4'	26.2°	23.6°
C8	N9	C1'	C2'	90.6°	90.5°
C8	N9	C1'	H1'	151.9°	146.5°
N9	C1'	O4'	C2'	117.8°	118.6°
N9	C1'	O4'	H1'	124.3°	123.0°
N9	C1'	C2'	H1'	119.4°	123.0°
N9	C1'	O4'	C4'	136.5°	158.6°
N9	C1'	C2'	O2'	86.7°	86.3°
N9	C1'	C2'	C3'	154.7°	155.5°
N9	C1'	C2'	H2'	34.5°	37.4°
C1'	N9	C8	H8	0.4°	0.1°
OP1	P	OP2	O5'	119.7°	120.0°
OP1	P	OP2	OP3	121.4°	120.0°
OP1	P	O5'	OP3	120.2°	120.0°
OP1	P	O5'	C5'	111.5°	55.0°
OP1	P	OP3	PB	0.1°	45.0°
OP1	P	OP2	HOP2	0.0°	180.0°
O4'	C1'	C2'	H1'	121.4°	118.4°
O4'	C1'	C2'	O2'	154.1°	155.2°
O4'	C1'	C2'	C3'	35.5°	37.0°
C1'	O4'	C4'	C5'	119.5°	145.8°
C1'	O4'	C4'	C3'	0.4°	26.3°
C1'	O4'	C4'	H4'	117.4°	93.1°
O4'	C1'	C2'	H2'	84.8°	81.2°
C2'	C1'	O4'	C4'	18.6°	39.9°
C1'	C2'	O2'	C3'	115.7°	112.7°
C1'	C2'	O2'	H2'	119.2°	123.7°
C1'	C2'	C3'	H2'	117.1°	118.2°
C1'	C2'	C3'	C4'	32.5°	21.0°
C1'	C2'	C3'	O3'	85.7°	97.8°
C1'	C2'	C3'	H3'	151.0°	139.7°
C1'	C2'	O2'	HO2'	180.0°	180.0°
O4'	C4'	C5'	O5'	41.5°	67.2°
O4'	C4'	C3'	C2'	22.7°	1.9°
O4'	C4'	C5'	C3'	116.0°	117.9°
O4'	C4'	C5'	H4'	121.0°	121.2°
O4'	C4'	C3'	H4'	117.3°	119.5°
O4'	C4'	C3'	O3'	95.4°	120.7°
O4'	C4'	C3'	H3'	143.4°	116.8°
O4'	C4'	C5'	H5'	78.3°	172.8°
O4'	C4'	C5'	H5''	161.3°	52.9°
C4'	O4'	C1'	H1'	99.3°	78.4°
OP2	P	O5'	OP3	119.9°	120.0°
OP2	P	O5'	C5'	128.5°	65.0°
OP2	P	OP3	PB	120.9°	75.0°
P	O5'	C5'	C4'	176.3°	180.0°
O5'	P	OP3	PB	119.7°	165.0°
P	O5'	C5'	H5'	56.5°	60.0°
P	O5'	C5'	H5''	63.9°	60.0°
O5'	P	OP2	HOP2	119.7°	59.9°
OP3	P	O5'	C5'	8.7°	175.0°
P	OP3	PB	O2B	24.6°	180.0°
P	OP3	PB	S1B	95.4°	60.0°
P	OP3	PB	O3B	144.7°	60.0°
OP3	P	OP2	HOP2	121.4°	60.0°
O5'	C5'	C4'	H5'	119.8°	120.0°
O5'	C5'	C4'	H5''	119.8°	120.0°
O5'	C5'	C4'	C3'	157.5°	175.0°
O5'	C5'	C4'	H4'	79.5°	54.0°
O5'	C5'	H5'	H5''	120.7°	120.0°
O2B	PB	OP3	S1B	120.0°	120.0°
O2B	PB	OP3	O3B	120.1°	120.0°
O2B	PB	S1B	O3B	119.9°	120.0°
O2B	PB	O3B	HOB3	119.9°	60.0°
O2'	C2'	C3'	H2'	124.3°	123.6°
O2'	C2'	C3'	C4'	151.2°	139.2°
O2'	C2'	C3'	O3'	32.9°	20.4°
O2'	C2'	C3'	H3'	90.4°	102.1°
O2'	C2'	C1'	H1'	32.7°	36.8°
C2'	C3'	C4'	C5'	95.5°	121.4°
C2'	C3'	C4'	O3'	118.1°	118.8°
C2'	C3'	C4'	H3'	120.7°	118.7°
C2'	C3'	O3'	H3'	124.8°	122.6°
C2'	C3'	C4'	H4'	140.0°	117.6°
C3'	C2'	C1'	H1'	85.9°	81.5°
C2'	C3'	O3'	HO3'	180.0°	63.2°
C3'	C2'	O2'	HO2'	64.3°	67.3°
C5'	C4'	C3'	H4'	124.5°	121.0°
C5'	C4'	C3'	O3'	146.4°	119.8°
C5'	C4'	C3'	H3'	25.2°	2.7°
C4'	C5'	H5'	H5''	120.6°	120.0°
C4'	C3'	O3'	H3'	120.8°	122.5°
C3'	C4'	C5'	H5'	37.7°	55.0°
C3'	C4'	C5'	H5''	82.7°	65.0°
C4'	C3'	C2'	H2'	84.5°	97.2°
C4'	C3'	O3'	HO3'	65.5°	178.2°
OP3	PB	S1B	O3B	120.1°	120.0°
OP3	PB	O3B	HOB3	120.1°	60.0°
OP3	PB	O2B	HOB2	24.0°	180.0°
S1B	PB	O3B	HOB3	0.0°	180.0°
S1B	PB	O2B	HOB2	96.1°	60.0°
O3B	PB	O2B	HOB2	144.1°	60.0°
O3'	C3'	C4'	H4'	21.9°	1.2°
O3'	C3'	C2'	H2'	157.2°	144.0°
H3'	C3'	C4'	H4'	99.3°	123.7°
H3'	C3'	C2'	H2'	33.9°	21.5°
H3'	C3'	O3'	HO3'	55.2°	59.3°
H4'	C4'	C5'	H5'	160.7°	66.0°
H4'	C4'	C5'	H5''	40.3°	174.0°
H1'	C1'	C2'	H2'	153.9°	160.4°
H2'	C2'	O2'	HO2'	60.8°	56.3°

Release date:	2023-11-22
Definition date:	2023-09-16
Last modified:	2023-11-17
Release status:	REL
Processing site:	RCSB
Derived from:	8SQJ