A1JLN

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C2	N3	doub	1.32Å	1.33Å	Aromatic
C2	N1	sing	1.32Å	1.34Å	Aromatic
N3	C4	sing	1.33Å	1.35Å	Aromatic
N1	C6	doub	1.33Å	1.36Å	Aromatic
O2'	C2'	sing	1.43Å	1.42Å
C4	C5	doub	1.40Å	1.39Å	Aromatic
C4	N9	sing	1.37Å	1.38Å	Aromatic
C6	N6	sing	1.38Å	1.33Å
C6	C5	sing	1.41Å	1.40Å	Aromatic
C1'	N9	sing	1.46Å	1.46Å
C1'	C2'	sing	1.55Å	1.52Å
C1'	O4'	sing	1.44Å	1.43Å
C5	N7	sing	1.35Å	1.39Å	Aromatic
N9	C8	sing	1.36Å	1.38Å	Aromatic
C2'	C3'	sing	1.55Å	1.53Å
O4'	C4'	sing	1.44Å	1.45Å
C8	N7	doub	1.30Å	1.32Å	Aromatic
C4'	C3'	sing	1.54Å	1.53Å
C4'	C5'	sing	1.53Å	1.52Å
C3'	O3'	sing	1.43Å	1.41Å
O1	C9	doub	1.21Å	1.20Å
O5'	C5'	sing	1.43Å	1.45Å
O5'	P	sing	1.61Å	1.70Å
O2P	P	doub	1.48Å	1.48Å
C9	O1P	sing	1.35Å	1.35Å
C9	C3	sing	1.47Å	1.48Å
P	O1P	sing	1.61Å	1.63Å
P	O3P	sing	1.61Å	1.47Å
C15	C3	doub	1.40Å	1.40Å	Aromatic
C15	C16	sing	1.38Å	1.38Å	Aromatic
C3	C7	sing	1.40Å	1.37Å	Aromatic
C16	C17	doub	1.39Å	1.40Å	Aromatic
C7	C1	doub	1.38Å	1.41Å	Aromatic
C17	C1	sing	1.40Å	1.41Å	Aromatic
C17	O9	sing	1.36Å	1.36Å
C1	N2	sing	1.40Å	1.37Å
N2	H1	sing	0.97Å	1.00Å
N2	H4	sing	0.97Å	1.00Å
C7	H3	sing	1.08Å	1.08Å
O3P	HOP3	sing	0.97Å	0.95Å
C5'	H5'1	sing	1.09Å	1.10Å
C5'	H5'2	sing	1.09Å	1.10Å
C4'	H4'	sing	1.09Å	1.10Å
C1'	H1'	sing	1.09Å	1.10Å
C8	H8	sing	1.08Å	1.08Å
N6	HN61	sing	0.97Å	1.00Å
N6	HN62	sing	0.97Å	1.00Å
C2	H2	sing	1.08Å	1.08Å
C2'	H2'	sing	1.09Å	1.10Å
O2'	HO2'	sing	0.97Å	0.95Å
C3'	H3'	sing	1.09Å	1.10Å
O3'	HO3'	sing	0.97Å	0.95Å
C15	H17	sing	1.08Å	1.08Å
C16	H18	sing	1.08Å	1.08Å
O9	H19	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N3	C2	N1	128.6°	122.4°
C2	N3	C4	111.2°	120.7°
N3	C2	H2	115.7°	118.8°
C2	N1	C6	119.2°	121.2°
N1	C2	H2	115.7°	118.8°
N3	C4	C5	126.2°	119.1°
N3	C4	N9	127.7°	134.9°
N1	C6	N6	119.1°	120.7°
N1	C6	C5	117.1°	118.5°
O2'	C2'	C1'	109.0°	110.5°
O2'	C2'	C3'	115.6°	110.5°
O2'	C2'	H2'	111.4°	110.5°
C2'	O2'	HO2'	109.5°	114.0°
C5	C4	N9	106.1°	106.0°
C4	C5	C6	117.6°	118.2°
C4	C5	N7	110.8°	107.1°
C4	N9	C1'	126.5°	126.3°
C4	N9	C8	105.3°	107.4°
N6	C6	C5	123.8°	120.8°
C6	N6	HN61	109.5°	119.9°
C6	N6	HN62	109.5°	120.0°
C6	C5	N7	131.7°	134.7°
N9	C1'	C2'	115.2°	110.3°
N9	C1'	O4'	110.5°	110.4°
C1'	N9	C8	127.7°	126.2°
N9	C1'	H1'	107.9°	110.4°
C2'	C1'	O4'	107.5°	104.8°
C1'	C2'	C3'	100.3°	104.1°
C2'	C1'	H1'	107.2°	110.4°
C1'	C2'	H2'	110.0°	110.5°
C1'	O4'	C4'	110.1°	105.3°
O4'	C1'	H1'	108.3°	110.5°
C5	N7	C8	103.6°	109.4°
N9	C8	N7	114.1°	109.9°
N9	C8	H8	122.9°	125.1°
C2'	C3'	C4'	102.7°	104.0°
C2'	C3'	O3'	99.1°	110.5°
C3'	C2'	H2'	109.9°	110.5°
C2'	C3'	H3'	110.6°	110.5°
O4'	C4'	C3'	102.8°	104.8°
O4'	C4'	C5'	109.3°	110.4°
O4'	C4'	H4'	110.1°	110.5°
N7	C8	H8	123.0°	125.0°
C3'	C4'	C5'	116.4°	110.4°
C4'	C3'	O3'	119.9°	110.5°
C3'	C4'	H4'	109.0°	110.4°
C4'	C3'	H3'	110.7°	110.5°
C4'	C5'	O5'	110.9°	109.5°
C4'	C5'	H5'1	109.1°	109.5°
C4'	C5'	H5'2	109.1°	109.5°
C5'	C4'	H4'	109.1°	110.3°
O3'	C3'	H3'	112.5°	110.6°
C3'	O3'	HO3'	109.5°	114.0°
O1	C9	O1P	132.7°	120.0°
O1	C9	C3	112.3°	120.0°
C5'	O5'	P	121.1°	123.0°
O5'	C5'	H5'1	109.1°	109.4°
O5'	C5'	H5'2	109.1°	109.4°
O5'	P	O2P	100.4°	109.5°
O5'	P	O1P	105.3°	109.5°
O5'	P	O3P	108.9°	109.5°
O2P	P	O1P	110.1°	109.5°
O2P	P	O3P	119.0°	109.5°
O1P	C9	C3	113.6°	120.0°
C9	O1P	P	132.2°	117.0°
C9	C3	C15	121.6°	120.1°
C9	C3	C7	118.1°	120.1°
O1P	P	O3P	111.6°	109.5°
P	O3P	HOP3	109.5°	114.0°
C3	C15	C16	121.2°	120.0°
C15	C3	C7	120.3°	119.8°
C3	C15	H17	119.4°	120.0°
C15	C16	C17	119.5°	120.2°
C16	C15	H17	119.4°	119.9°
C15	C16	H18	120.2°	119.9°
C3	C7	C1	119.3°	119.8°
C3	C7	H3	120.4°	120.1°
C16	C17	C1	119.3°	120.1°
C16	C17	O9	121.7°	120.0°
C17	C16	H18	120.2°	119.9°
C7	C1	C17	120.4°	119.9°
C7	C1	N2	119.2°	120.0°
C1	C7	H3	120.4°	120.1°
C1	C17	O9	119.0°	119.9°
C17	C1	N2	120.4°	120.1°
C17	O9	H19	109.5°	114.0°
C1	N2	H1	109.5°	120.0°
C1	N2	H4	109.5°	120.0°
H1	N2	H4	109.4°	120.0°
H5'1	C5'	H5'2	109.5°	109.5°
HN61	N6	HN62	109.5°	120.1°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N3	C2	N1	H2	180.0°	179.7°
N3	C2	N1	C6	1.3°	0.0°
C2	N3	C4	C5	0.4°	0.6°
C2	N3	C4	N9	177.1°	179.6°
N1	C2	N3	C4	2.0°	0.3°
C2	N1	C6	N6	178.3°	180.0°
C2	N1	C6	C5	1.0°	0.0°
N3	C4	C5	N9	177.9°	179.3°
N3	C4	C5	C6	1.6°	0.6°
N3	C4	N9	C1'	7.0°	0.7°
N3	C4	C5	N7	179.2°	179.7°
N3	C4	N9	C8	179.7°	179.5°
C4	N3	C2	H2	178.0°	180.0°
N1	C6	C5	C4	2.2°	0.3°
N1	C6	N6	C5	179.1°	180.0°
N1	C6	C5	N7	178.7°	180.0°
N1	C6	N6	HN61	0.0°	180.0°
N1	C6	N6	HN62	120.0°	0.0°
C6	N1	C2	H2	178.7°	179.7°
O2'	C2'	C1'	N9	141.1°	98.5°
O2'	C2'	C1'	C3'	121.8°	118.6°
O2'	C2'	C1'	H2'	122.5°	122.7°
O2'	C2'	C1'	O4'	95.2°	142.6°
O2'	C2'	C3'	H2'	127.2°	122.7°
O2'	C2'	C3'	C4'	78.2°	118.6°
O2'	C2'	C3'	O3'	45.4°	0.0°
O2'	C2'	C1'	H1'	21.1°	23.7°
O2'	C2'	C3'	H3'	163.7°	122.7°
C4	C5	C6	N6	177.0°	179.7°
C4	C5	C6	N7	179.0°	179.7°
C5	C4	N9	C1'	175.1°	179.8°
C5	C4	N9	C8	1.8°	0.4°
C4	C5	N7	C8	0.1°	0.2°
N9	C4	C5	C6	179.5°	179.9°
C4	N9	C1'	C8	171.8°	179.8°
C4	N9	C1'	C2'	61.5°	84.8°
C4	N9	C1'	O4'	176.4°	159.9°
N9	C4	C5	N7	1.2°	0.4°
C4	N9	C8	N7	1.9°	0.2°
C4	N9	C1'	H1'	58.2°	37.5°
C4	N9	C8	H8	178.1°	179.8°
N6	C6	C5	N7	2.1°	0.0°
C6	N6	HN61	HN62	120.0°	180.0°
C6	C5	N7	C8	179.2°	179.9°
C5	C6	N6	HN61	179.2°	0.0°
C5	C6	N6	HN62	59.2°	180.0°
N9	C1'	C2'	O4'	123.7°	118.8°
N9	C1'	C2'	H1'	120.1°	122.2°
N9	C1'	O4'	H1'	118.0°	122.3°
N9	C1'	C2'	C3'	97.1°	142.8°
N9	C1'	O4'	C4'	123.1°	159.3°
C1'	N9	C8	N7	175.1°	180.0°
C1'	N9	C8	H8	4.9°	0.0°
N9	C1'	C2'	H2'	18.7°	24.1°
C2'	C1'	O4'	H1'	115.5°	118.9°
C2'	C1'	N9	C8	126.7°	95.0°
C1'	C2'	C3'	H2'	115.8°	118.7°
C2'	C1'	O4'	C4'	3.3°	40.5°
C1'	C2'	C3'	C4'	38.9°	0.0°
C1'	C2'	C3'	O3'	162.4°	118.6°
C1'	C2'	O2'	HO2'	180.0°	179.9°
C1'	C2'	C3'	H3'	79.3°	118.7°
O4'	C1'	N9	C8	4.7°	20.4°
O4'	C1'	C2'	C3'	26.6°	24.0°
C1'	O4'	C4'	C3'	21.6°	40.5°
C1'	O4'	C4'	C5'	145.8°	159.4°
C1'	O4'	C4'	H4'	94.3°	78.4°
O4'	C1'	C2'	H2'	142.4°	94.7°
C5	N7	C8	N9	1.1°	0.0°
C5	N7	C8	H8	178.8°	180.0°
N9	C8	N7	H8	180.0°	180.0°
C8	N9	C1'	H1'	113.6°	142.8°
C2'	C3'	C4'	O4'	37.9°	24.0°
C2'	C3'	C4'	O3'	108.5°	118.6°
C2'	C3'	C4'	H3'	118.1°	118.6°
C2'	C3'	C4'	C5'	157.2°	142.8°
C2'	C3'	O3'	H3'	116.9°	122.7°
C2'	C3'	C4'	H4'	78.9°	95.0°
C3'	C2'	C1'	H1'	142.9°	94.9°
C3'	C2'	O2'	HO2'	68.0°	65.3°
C2'	C3'	O3'	HO3'	180.0°	65.4°
O4'	C4'	C3'	C5'	119.4°	118.8°
O4'	C4'	C3'	H4'	116.8°	119.0°
O4'	C4'	C5'	H4'	120.4°	122.4°
O4'	C4'	C3'	O3'	146.3°	142.6°
O4'	C4'	C5'	O5'	45.0°	69.6°
O4'	C4'	C5'	H5'1	165.2°	50.4°
O4'	C4'	C5'	H5'2	75.2°	170.4°
C4'	O4'	C1'	H1'	118.8°	78.3°
O4'	C4'	C3'	H3'	80.2°	94.6°
C3'	C4'	C5'	H4'	123.8°	122.2°
C4'	C3'	O3'	H3'	132.7°	122.7°
C3'	C4'	C5'	O5'	160.8°	175.0°
C3'	C4'	C5'	H5'1	79.0°	65.0°
C3'	C4'	C5'	H5'2	40.6°	55.0°
C4'	C3'	C2'	H2'	154.7°	118.7°
C4'	C3'	O3'	HO3'	69.6°	180.0°
C5'	C4'	C3'	O3'	94.3°	98.6°
C4'	C5'	O5'	H5'1	120.2°	120.0°
C4'	C5'	O5'	H5'2	120.2°	120.0°
C4'	C5'	O5'	P	178.3°	180.0°
C4'	C5'	H5'1	H5'2	119.3°	120.0°
C5'	C4'	C3'	H3'	39.1°	24.2°
O3'	C3'	C4'	H4'	29.5°	23.7°
O3'	C3'	C2'	H2'	81.8°	122.7°
O1	C9	O1P	C3	164.9°	180.0°
O1	C9	O1P	P	23.1°	0.0°
O1	C9	C3	C15	5.9°	180.0°
O1	C9	C3	C7	172.6°	0.0°
C5'	O5'	P	O2P	152.0°	55.0°
C5'	O5'	P	O1P	93.5°	175.0°
C5'	O5'	P	O3P	26.3°	65.0°
O5'	C5'	H5'1	H5'2	119.3°	119.9°
O5'	C5'	C4'	H4'	75.4°	52.8°
O5'	P	O2P	O1P	110.7°	120.0°
O5'	P	O2P	O3P	118.6°	120.0°
O5'	P	O1P	C9	14.3°	175.0°
O5'	P	O1P	O3P	118.0°	120.0°
O5'	P	O3P	HOP3	114.1°	60.0°
P	O5'	C5'	H5'1	58.1°	60.0°
P	O5'	C5'	H5'2	61.5°	60.0°
O2P	P	O1P	C9	93.2°	55.0°
O2P	P	O1P	O3P	134.5°	120.0°
O2P	P	O3P	HOP3	0.0°	180.0°
C9	O1P	P	O3P	132.3°	65.0°
O1P	C9	C3	C15	174.0°	0.0°
O1P	C9	C3	C7	4.5°	180.0°
C3	C9	O1P	P	141.8°	180.0°
C9	C3	C15	C7	178.4°	180.0°
C9	C3	C15	C16	179.1°	180.0°
C9	C3	C7	C1	178.2°	180.0°
C9	C3	C7	H3	1.8°	0.0°
C9	C3	C15	H17	0.9°	0.0°
O1P	P	O3P	HOP3	130.0°	60.0°
C3	C15	C16	H17	180.0°	180.0°
C3	C15	C16	C17	1.6°	0.3°
C15	C3	C7	C1	0.2°	0.0°
C15	C3	C7	H3	179.8°	180.0°
C3	C15	C16	H18	178.4°	180.0°
C16	C15	C3	C7	0.7°	0.0°
C15	C16	C17	H18	180.0°	179.7°
C15	C16	C17	C1	1.7°	0.5°
C15	C16	C17	O9	179.9°	180.0°
C3	C7	C1	H3	180.0°	180.0°
C3	C7	C1	C17	0.2°	0.2°
C3	C7	C1	N2	179.2°	180.0°
C7	C3	C15	H17	179.3°	180.0°
C16	C17	C1	C7	0.8°	0.5°
C16	C17	C1	O9	178.3°	179.5°
C16	C17	C1	N2	179.8°	179.7°
C17	C16	C15	H17	178.4°	179.7°
C16	C17	O9	H19	180.0°	89.9°
C7	C1	C17	N2	179.4°	179.8°
C7	C1	C17	O9	179.0°	180.0°
C7	C1	N2	H1	180.0°	0.0°
C7	C1	N2	H4	60.0°	179.7°
C17	C1	N2	H1	0.6°	179.8°
C17	C1	N2	H4	120.6°	0.6°
C17	C1	C7	H3	179.8°	179.8°
C1	C17	C16	H18	178.3°	179.7°
C1	C17	O9	H19	1.8°	90.6°
O9	C17	C1	N2	1.6°	0.2°
O9	C17	C16	H18	0.1°	0.2°
C1	N2	H1	H4	120.0°	179.7°
N2	C1	C7	H3	0.8°	0.0°
H5'1	C5'	C4'	H4'	44.8°	172.7°
H5'2	C5'	C4'	H4'	164.4°	67.2°
H4'	C4'	C3'	H3'	163.0°	146.4°
H1'	C1'	C2'	H2'	101.4°	146.4°
H2'	C2'	O2'	HO2'	58.4°	57.4°
H2'	C2'	C3'	H3'	36.5°	0.0°
H3'	C3'	O3'	HO3'	63.1°	57.3°
H17	C15	C16	H18	1.6°	0.0°

Release date:	2026-03-18
Definition date:	2025-07-29
Last modified:	2026-03-13
Release status:	REL
Processing site:	PDBE
Derived from:	9S45