U5P

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N1	C2	sing	1.35Å	1.40Å
N1	C6	sing	1.37Å	1.40Å
N1	C1'	sing	1.46Å	1.47Å
C2	N3	sing	1.35Å	1.37Å
C2	O2	doub	1.22Å	1.22Å
N3	C4	sing	1.35Å	1.40Å
N3	HN3	sing	0.97Å	1.00Å
C4	C5	sing	1.42Å	1.44Å
C4	O4	doub	1.22Å	1.20Å
C5	C6	doub	1.35Å	1.33Å
C5	H5	sing	1.08Å	1.08Å
C6	H6	sing	1.08Å	1.08Å
C1'	C2'	sing	1.54Å	1.52Å
C1'	O4'	sing	1.44Å	1.41Å
C1'	H1'	sing	1.09Å	1.10Å
C2'	O2'	sing	1.43Å	1.44Å
C2'	C3'	sing	1.54Å	1.53Å
C2'	H2'	sing	1.09Å	1.10Å
O2'	HO2'	sing	0.97Å	0.95Å
C3'	C4'	sing	1.54Å	1.52Å
C3'	O3'	sing	1.43Å	1.45Å
C3'	H3'	sing	1.09Å	1.10Å
C4'	O4'	sing	1.45Å	1.46Å
C4'	C5'	sing	1.53Å	1.52Å
C4'	H4'	sing	1.09Å	1.10Å
O3'	HO3'	sing	0.97Å	0.95Å
C5'	O5'	sing	1.43Å	1.43Å
C5'	H5'1	sing	1.09Å	1.10Å
C5'	H5'2	sing	1.09Å	1.10Å
O5'	P	sing	1.61Å	1.61Å
P	O1P	doub	1.48Å	1.51Å
P	O2P	sing	1.61Å	1.49Å
P	O3P	sing	1.61Å	1.64Å
O2P	HOP2	sing	0.97Å	0.95Å
O3P	HOP3	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	N1	C6	120.3°	120.6°
C2	N1	C1'	116.6°	119.7°
N1	C2	N3	115.3°	120.9°
N1	C2	O2	120.8°	119.5°
C6	N1	C1'	123.1°	119.7°
N1	C6	C5	122.6°	119.7°
N1	C6	H6	118.7°	120.2°
N1	C1'	C2'	118.0°	110.4°
N1	C1'	O4'	114.0°	110.5°
N1	C1'	H1'	98.6°	110.4°
N3	C2	O2	123.9°	119.5°
C2	N3	C4	126.8°	120.3°
C2	N3	HN3	116.6°	119.9°
C4	N3	HN3	116.6°	119.9°
N3	C4	C5	114.5°	119.4°
N3	C4	O4	117.9°	120.3°
C5	C4	O4	127.5°	120.3°
C4	C5	C6	120.4°	119.1°
C4	C5	H5	119.8°	120.4°
C6	C5	H5	119.8°	120.5°
C5	C6	H6	118.7°	120.1°
C2'	C1'	O4'	106.4°	104.8°
C2'	C1'	H1'	107.5°	110.3°
C1'	C2'	O2'	113.2°	110.7°
C1'	C2'	C3'	104.1°	104.1°
C1'	C2'	H2'	112.7°	110.5°
O4'	C1'	H1'	112.2°	110.4°
C1'	O4'	C4'	110.3°	105.4°
O2'	C2'	C3'	114.8°	110.5°
O2'	C2'	H2'	101.4°	110.5°
C2'	O2'	HO2'	109.5°	106.8°
C3'	C2'	H2'	110.9°	110.5°
C2'	C3'	C4'	100.9°	104.2°
C2'	C3'	O3'	111.8°	110.5°
C2'	C3'	H3'	115.6°	110.5°
C4'	C3'	O3'	115.1°	110.5°
C4'	C3'	H3'	112.4°	110.6°
C3'	C4'	O4'	105.7°	104.7°
C3'	C4'	C5'	119.0°	110.6°
C3'	C4'	H4'	104.6°	110.3°
O3'	C3'	H3'	101.6°	110.4°
C3'	O3'	HO3'	109.5°	106.8°
O4'	C4'	C5'	106.1°	110.4°
O4'	C4'	H4'	117.9°	110.4°
C5'	C4'	H4'	104.2°	110.3°
C4'	C5'	O5'	113.1°	109.5°
C4'	C5'	H5'1	108.3°	109.5°
C4'	C5'	H5'2	107.5°	109.4°
O5'	C5'	H5'1	108.2°	109.5°
O5'	C5'	H5'2	107.4°	109.5°
C5'	O5'	P	121.9°	106.8°
H5'1	C5'	H5'2	112.4°	109.5°
O5'	P	O1P	117.2°	109.5°
O5'	P	O2P	110.5°	109.5°
O5'	P	O3P	100.4°	109.5°
O1P	P	O2P	105.1°	109.5°
O1P	P	O3P	115.6°	109.5°
O2P	P	O3P	107.8°	109.5°
P	O2P	HOP2	109.5°	106.8°
P	O3P	HOP3	109.5°	106.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C2	N1	C6	C1'	179.9°	179.7°
N1	C2	N3	O2	179.8°	179.6°
N1	C2	N3	C4	0.1°	0.5°
N1	C2	N3	HN3	180.0°	179.7°
C2	N1	C6	C5	0.1°	0.2°
C2	N1	C6	H6	179.9°	179.8°
C2	N1	C1'	C2'	119.9°	65.3°
C2	N1	C1'	O4'	114.2°	50.2°
C2	N1	C1'	H1'	4.8°	172.5°
C6	N1	C2	N3	0.2°	0.5°
C6	N1	C2	O2	179.9°	180.0°
N1	C6	C5	C4	0.1°	0.0°
N1	C6	C5	H6	180.0°	180.0°
N1	C6	C5	H5	179.9°	180.0°
C6	N1	C1'	C2'	60.2°	115.0°
C6	N1	C1'	O4'	65.7°	129.6°
C6	N1	C1'	H1'	175.3°	7.2°
C1'	N1	C2	N3	179.7°	179.8°
C1'	N1	C2	O2	0.1°	0.2°
C1'	N1	C6	C5	179.8°	180.0°
C1'	N1	C6	H6	0.2°	0.1°
N1	C1'	C2'	O4'	129.5°	119.0°
N1	C1'	C2'	H1'	110.2°	122.2°
N1	C1'	O4'	H1'	111.0°	122.4°
N1	C1'	C2'	O2'	79.9°	98.4°
N1	C1'	C2'	C3'	154.7°	142.9°
N1	C1'	C2'	H2'	34.4°	24.3°
N1	C1'	O4'	C4'	136.7°	159.3°
C2	N3	C4	HN3	180.0°	179.8°
C2	N3	C4	C5	0.2°	0.2°
C2	N3	C4	O4	179.5°	179.8°
O2	C2	N3	C4	179.9°	180.0°
O2	C2	N3	HN3	0.1°	0.2°
N3	C4	C5	O4	179.7°	180.0°
N3	C4	C5	C6	0.3°	0.0°
N3	C4	C5	H5	179.7°	180.0°
HN3	N3	C4	C5	179.8°	180.0°
HN3	N3	C4	O4	0.5°	0.0°
C4	C5	C6	H5	180.0°	180.0°
C4	C5	C6	H6	179.9°	180.0°
O4	C4	C5	C6	179.4°	180.0°
O4	C4	C5	H5	0.6°	0.0°
H5	C5	C6	H6	0.1°	0.0°
C2'	C1'	O4'	H1'	117.2°	118.7°
C1'	C2'	O2'	C3'	119.4°	114.7°
C1'	C2'	O2'	H2'	121.0°	122.7°
C1'	C2'	C3'	H2'	121.5°	118.6°
C1'	C2'	O2'	HO2'	32.2°	176.2°
C1'	C2'	C3'	C4'	34.6°	0.0°
C1'	C2'	C3'	O3'	88.3°	118.6°
C1'	C2'	C3'	H3'	156.1°	118.8°
C2'	C1'	O4'	C4'	4.9°	40.4°
O4'	C1'	C2'	O2'	150.7°	142.7°
O4'	C1'	C2'	C3'	25.3°	23.9°
O4'	C1'	C2'	H2'	95.0°	94.7°
C1'	O4'	C4'	C3'	17.7°	40.4°
C1'	O4'	C4'	C5'	109.5°	159.5°
C1'	O4'	C4'	H4'	134.2°	78.3°
H1'	C1'	C2'	O2'	30.3°	23.9°
H1'	C1'	C2'	C3'	95.0°	94.9°
H1'	C1'	C2'	H2'	144.7°	146.5°
H1'	C1'	O4'	C4'	112.3°	78.3°
O2'	C2'	C3'	H2'	114.2°	122.5°
O2'	C2'	C3'	C4'	158.9°	118.8°
O2'	C2'	C3'	O3'	36.0°	0.2°
O2'	C2'	C3'	H3'	79.6°	122.4°
C3'	C2'	O2'	HO2'	87.2°	61.4°
C2'	C3'	C4'	O3'	120.5°	118.7°
C2'	C3'	C4'	H3'	123.8°	118.8°
C2'	C3'	O3'	H3'	123.9°	122.6°
C2'	C3'	C4'	O4'	32.0°	23.9°
C2'	C3'	C4'	C5'	87.0°	142.8°
C2'	C3'	C4'	H4'	157.1°	94.9°
C2'	C3'	O3'	HO3'	128.2°	63.3°
H2'	C2'	O2'	HO2'	153.2°	61.1°
H2'	C2'	C3'	C4'	86.9°	118.6°
H2'	C2'	C3'	O3'	150.2°	122.7°
H2'	C2'	C3'	H3'	34.6°	0.1°
C4'	C3'	O3'	H3'	121.7°	122.6°
C3'	C4'	O4'	C5'	127.3°	119.1°
C3'	C4'	O4'	H4'	116.5°	118.7°
C3'	C4'	C5'	H4'	116.0°	122.3°
C4'	C3'	O3'	HO3'	13.9°	178.1°
C3'	C4'	C5'	O5'	174.1°	178.2°
C3'	C4'	C5'	H5'1	54.2°	58.1°
C3'	C4'	C5'	H5'2	67.4°	61.8°
O3'	C3'	C4'	O4'	88.6°	142.6°
O3'	C3'	C4'	C5'	152.4°	98.6°
O3'	C3'	C4'	H4'	36.6°	23.8°
H3'	C3'	C4'	O4'	155.7°	94.9°
H3'	C3'	C4'	C5'	36.7°	24.0°
H3'	C3'	C4'	H4'	79.1°	146.3°
H3'	C3'	O3'	HO3'	107.9°	59.3°
O4'	C4'	C5'	H4'	125.2°	122.3°
O4'	C4'	C5'	O5'	67.1°	66.5°
O4'	C4'	C5'	H5'1	172.9°	173.5°
O4'	C4'	C5'	H5'2	51.3°	53.5°
C4'	C5'	O5'	H5'1	120.0°	120.0°
C4'	C5'	O5'	H5'2	118.4°	120.0°
C4'	C5'	H5'1	H5'2	118.5°	120.0°
C4'	C5'	O5'	P	93.0°	180.0°
H4'	C4'	C5'	O5'	58.1°	55.8°
H4'	C4'	C5'	H5'1	61.9°	64.2°
H4'	C4'	C5'	H5'2	176.5°	175.8°
O5'	C5'	H5'1	H5'2	118.5°	120.0°
C5'	O5'	P	O1P	59.6°	55.0°
C5'	O5'	P	O2P	60.7°	65.0°
C5'	O5'	P	O3P	174.3°	175.0°
H5'1	C5'	O5'	P	27.0°	60.0°
H5'2	C5'	O5'	P	148.5°	60.0°
O5'	P	O1P	O2P	123.1°	120.0°
O5'	P	O1P	O3P	118.1°	120.0°
O5'	P	O2P	O3P	108.8°	120.0°
O5'	P	O2P	HOP2	134.6°	60.0°
O5'	P	O3P	HOP3	25.8°	180.0°
O1P	P	O2P	O3P	123.9°	120.0°
O1P	P	O2P	HOP2	98.1°	180.0°
O1P	P	O3P	HOP3	101.2°	60.0°
O2P	P	O3P	HOP3	141.5°	60.0°
O3P	P	O2P	HOP2	25.8°	60.0°

Definition date:	1999-07-08
Last modified:	2024-09-27
Release status:	REL
Processing site:	RCSB
Replaces:	U25