URD

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O5'	C5'	sing	1.43Å	1.42Å
O5'	HO5'	sing	0.97Å	0.95Å
C5'	C4'	sing	1.53Å	1.51Å
C5'	H5'	sing	1.09Å	1.10Å
C5'	H5''	sing	1.09Å	1.10Å
C4'	O4'	sing	1.44Å	1.45Å
C4'	C3'	sing	1.54Å	1.52Å
C4'	H4'	sing	1.09Å	1.10Å
O4'	C1'	sing	1.44Å	1.41Å
C1'	N1	sing	1.46Å	1.47Å
C1'	C2'	sing	1.55Å	1.52Å
C1'	H1'	sing	1.09Å	1.10Å
N1	C6	sing	1.36Å	1.38Å
N1	C2	sing	1.35Å	1.39Å
C6	C5	doub	1.34Å	1.34Å
C6	H6	sing	1.08Å	1.08Å
C2	O2	doub	1.21Å	1.22Å
C2	C3	sing	1.52Å	1.37Å
C3	C4	sing	1.52Å	1.38Å
C3	H31	sing	1.09Å	1.10Å
C3	H32	sing	1.09Å	1.10Å
C4	O4	doub	1.21Å	1.24Å
C4	C5	sing	1.41Å	1.43Å
C5	H5	sing	1.08Å	1.08Å
C2'	O2'	sing	1.43Å	1.41Å
C2'	C3'	sing	1.55Å	1.53Å
C2'	H2'	sing	1.09Å	1.10Å
O2'	HO2'	sing	0.97Å	0.95Å
C3'	O3'	sing	1.43Å	1.42Å
C3'	H3'	sing	1.09Å	1.10Å
O3'	HO3'	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C5'	O5'	HO5'	109.5°	106.8°
O5'	C5'	C4'	110.2°	109.4°
O5'	C5'	H5'	109.1°	109.4°
O5'	C5'	H5''	109.2°	109.5°
C4'	C5'	H5'	109.1°	109.5°
C4'	C5'	H5''	109.2°	109.5°
C5'	C4'	O4'	109.2°	109.9°
C5'	C4'	C3'	115.3°	109.9°
C5'	C4'	H4'	104.5°	109.9°
H5'	C5'	H5''	110.0°	109.5°
O4'	C4'	C3'	105.7°	107.4°
O4'	C4'	H4'	114.3°	109.9°
C4'	O4'	C1'	109.8°	107.0°
C3'	C4'	H4'	108.2°	109.8°
C4'	C3'	C2'	102.2°	104.0°
C4'	C3'	O3'	109.2°	110.8°
C4'	C3'	H3'	115.1°	110.4°
O4'	C1'	N1	108.3°	110.6°
O4'	C1'	C2'	104.8°	103.5°
O4'	C1'	H1'	114.8°	110.6°
N1	C1'	C2'	113.9°	110.8°
N1	C1'	H1'	105.9°	110.6°
C1'	N1	C6	121.4°	118.7°
C1'	N1	C2	117.8°	118.7°
C2'	C1'	H1'	109.3°	110.6°
C1'	C2'	O2'	111.6°	110.9°
C1'	C2'	C3'	100.8°	102.1°
C1'	C2'	H2'	116.1°	110.9°
C6	N1	C2	120.8°	122.6°
N1	C6	C5	122.8°	124.3°
N1	C6	H6	118.6°	117.9°
N1	C2	O2	122.9°	120.9°
N1	C2	C3	115.0°	118.3°
C5	C6	H6	118.6°	117.8°
C6	C5	C4	120.0°	121.0°
C6	C5	H5	120.0°	119.5°
O2	C2	C3	122.1°	120.8°
C2	C3	C4	127.2°	116.6°
C2	C3	H31	99.8°	108.2°
C2	C3	H32	103.9°	107.8°
C4	C3	H31	99.7°	108.1°
C4	C3	H32	103.9°	108.1°
C3	C4	O4	118.7°	121.4°
C3	C4	C5	114.3°	117.3°
H31	C3	H32	124.8°	107.8°
O4	C4	C5	125.4°	121.4°
C4	C5	H5	120.0°	119.5°
O2'	C2'	C3'	115.7°	110.9°
O2'	C2'	H2'	101.3°	110.8°
C2'	O2'	HO2'	109.5°	106.8°
C3'	C2'	H2'	112.1°	111.0°
C2'	C3'	O3'	111.9°	110.5°
C2'	C3'	H3'	112.6°	110.5°
O3'	C3'	H3'	106.0°	110.5°
C3'	O3'	HO3'	109.5°	106.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O5'	C5'	C4'	H5'	119.7°	120.0°
O5'	C5'	C4'	H5''	120.0°	120.0°
O5'	C5'	H5'	H5''	119.8°	120.0°
O5'	C5'	C4'	O4'	74.7°	66.7°
O5'	C5'	C4'	C3'	44.0°	175.3°
O5'	C5'	C4'	H4'	162.6°	54.3°
HO5'	O5'	C5'	C4'	166.1°	180.0°
HO5'	O5'	C5'	H5'	74.2°	60.0°
HO5'	O5'	C5'	H5''	46.1°	60.0°
C4'	C5'	H5'	H5''	119.8°	120.0°
C5'	C4'	O4'	C3'	124.5°	119.5°
C5'	C4'	O4'	H4'	116.7°	121.1°
C5'	C4'	C3'	H4'	116.5°	121.1°
C5'	C4'	O4'	C1'	123.1°	145.9°
C5'	C4'	C3'	C2'	95.1°	121.4°
C5'	C4'	C3'	O3'	146.3°	119.9°
C5'	C4'	C3'	H3'	27.3°	2.8°
H5'	C5'	C4'	O4'	45.0°	53.3°
H5'	C5'	C4'	C3'	163.7°	64.7°
H5'	C5'	C4'	H4'	77.7°	174.3°
H5''	C5'	C4'	O4'	165.3°	173.3°
H5''	C5'	C4'	C3'	76.0°	55.3°
H5''	C5'	C4'	H4'	42.6°	65.7°
O4'	C4'	C3'	H4'	122.8°	119.5°
C4'	O4'	C1'	N1	145.6°	158.7°
C4'	O4'	C1'	C2'	23.7°	40.1°
C4'	O4'	C1'	H1'	96.3°	78.4°
O4'	C4'	C3'	C2'	25.6°	1.9°
O4'	C4'	C3'	O3'	93.1°	120.6°
O4'	C4'	C3'	H3'	147.9°	116.7°
C3'	C4'	O4'	C1'	1.4°	26.5°
C4'	C3'	C2'	C1'	38.4°	21.0°
C4'	C3'	C2'	O2'	158.8°	139.2°
C4'	C3'	C2'	O3'	116.8°	118.9°
C4'	C3'	C2'	H3'	124.0°	118.5°
C4'	C3'	C2'	H2'	85.7°	97.2°
C4'	C3'	O3'	H3'	124.5°	122.7°
C4'	C3'	O3'	HO3'	119.0°	65.3°
H4'	C4'	O4'	C1'	120.2°	93.0°
H4'	C4'	C3'	C2'	148.4°	117.5°
H4'	C4'	C3'	O3'	29.7°	1.2°
H4'	C4'	C3'	H3'	89.3°	123.9°
O4'	C1'	N1	C2'	116.2°	114.1°
O4'	C1'	N1	H1'	123.7°	122.9°
O4'	C1'	C2'	H1'	123.6°	118.5°
O4'	C1'	N1	C6	39.6°	53.5°
O4'	C1'	N1	C2	139.8°	126.7°
O4'	C1'	C2'	O2'	162.0°	155.3°
O4'	C1'	C2'	C3'	38.6°	37.1°
O4'	C1'	C2'	H2'	82.6°	81.2°
N1	C1'	C2'	H1'	118.2°	123.0°
C1'	N1	C6	C2	179.4°	179.7°
C1'	N1	C6	C5	178.4°	180.0°
C1'	N1	C6	H6	1.5°	0.0°
C1'	N1	C2	O2	1.8°	0.2°
C1'	N1	C2	C3	178.3°	179.8°
N1	C1'	C2'	O2'	79.8°	86.2°
N1	C1'	C2'	C3'	156.9°	155.7°
N1	C1'	C2'	H2'	35.6°	37.4°
C2'	C1'	N1	C6	76.6°	60.6°
C2'	C1'	N1	C2	103.9°	119.2°
C1'	C2'	O2'	C3'	114.4°	112.7°
C1'	C2'	O2'	H2'	124.2°	123.6°
C1'	C2'	C3'	H2'	124.1°	118.2°
C1'	C2'	O2'	HO2'	10.1°	180.0°
C1'	C2'	C3'	O3'	78.4°	97.9°
C1'	C2'	C3'	H3'	162.4°	139.5°
H1'	C1'	N1	C6	163.2°	176.4°
H1'	C1'	N1	C2	16.2°	3.8°
H1'	C1'	C2'	O2'	38.4°	36.8°
H1'	C1'	C2'	C3'	84.9°	81.4°
H1'	C1'	C2'	H2'	153.8°	160.3°
N1	C6	C5	H6	180.0°	180.0°
C6	N1	C2	O2	178.8°	179.9°
C6	N1	C2	C3	1.1°	0.5°
N1	C6	C5	C4	0.1°	0.0°
N1	C6	C5	H5	179.9°	180.0°
C2	N1	C6	C5	0.9°	0.3°
C2	N1	C6	H6	179.1°	179.8°
N1	C2	O2	C3	179.9°	179.6°
N1	C2	C3	C4	0.4°	0.4°
N1	C2	C3	H31	109.9°	121.5°
N1	C2	C3	H32	120.4°	122.1°
C6	C5	C4	C3	0.8°	0.0°
C6	C5	C4	O4	164.0°	180.0°
C6	C5	C4	H5	180.0°	180.0°
H6	C6	C5	C4	179.9°	180.0°
H6	C6	C5	H5	0.1°	0.0°
O2	C2	C3	C4	179.6°	179.9°
O2	C2	C3	H31	70.2°	58.1°
O2	C2	C3	H32	59.5°	58.2°
C2	C3	C4	H31	110.3°	122.0°
C2	C3	C4	H32	120.0°	121.6°
C2	C3	H31	H32	114.7°	116.4°
C2	C3	C4	O4	165.3°	179.8°
C2	C3	C4	C5	0.6°	0.2°
C4	C3	H31	H32	114.6°	116.6°
C3	C4	O4	C5	164.1°	179.9°
C3	C4	C5	H5	179.2°	180.0°
H31	C3	C4	O4	55.0°	58.2°
H31	C3	C4	C5	110.9°	121.8°
H32	C3	C4	O4	74.7°	58.3°
H32	C3	C4	C5	119.5°	121.8°
O4	C4	C5	H5	16.0°	0.1°
O2'	C2'	C3'	H2'	115.5°	123.6°
O2'	C2'	C3'	O3'	42.1°	20.3°
O2'	C2'	C3'	H3'	77.1°	102.2°
C3'	C2'	O2'	HO2'	104.3°	67.3°
C2'	C3'	O3'	H3'	123.1°	122.6°
C2'	C3'	O3'	HO3'	6.6°	180.0°
H2'	C2'	O2'	HO2'	134.3°	56.4°
H2'	C2'	C3'	O3'	157.6°	143.9°
H2'	C2'	C3'	H3'	38.3°	21.3°
H3'	C3'	O3'	HO3'	116.4°	57.4°

Definition date:	2005-04-08
Last modified:	2021-03-01
Release status:	REL
Processing site:	RCSB