5FD

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O2'	C2'	sing	1.43Å	1.44Å
O2'	HO2	sing	0.97Å	0.95Å
C2'	C3'	sing	1.55Å	1.53Å
C2'	C1'	sing	1.55Å	1.55Å
C2'	H2'	sing	1.09Å	1.10Å
C3'	O3'	sing	1.43Å	1.44Å
C3'	C4'	sing	1.54Å	1.53Å
C3'	H3''	sing	1.09Å	1.10Å
O3'	HO3	sing	0.97Å	0.95Å
C4'	C5'	sing	1.53Å	1.49Å
C4'	O4'	sing	1.44Å	1.41Å
C4'	H4'	sing	1.09Å	1.10Å
C5'	F19	sing	1.40Å	1.36Å
C5'	H5'1	sing	1.09Å	1.10Å
C5'	H5'2	sing	1.09Å	1.10Å
O4'	C1'	sing	1.44Å	1.39Å
C1'	N9	sing	1.47Å	1.43Å
C1'	H1'	sing	1.09Å	1.10Å
N9	C8	sing	1.36Å	1.34Å	Aromatic
N9	C4	sing	1.37Å	1.31Å	Aromatic
C8	N7	doub	1.30Å	1.33Å	Aromatic
C8	HC8	sing	1.08Å	1.08Å
N7	C5	sing	1.35Å	1.33Å	Aromatic
C5	C4	doub	1.40Å	1.40Å	Aromatic
C5	C6	sing	1.41Å	1.37Å	Aromatic
C4	N3	sing	1.33Å	1.35Å	Aromatic
N3	C2	doub	1.32Å	1.32Å	Aromatic
C2	N1	sing	1.32Å	1.40Å	Aromatic
C2	HC2	sing	1.08Å	1.08Å
N1	C6	doub	1.33Å	1.42Å	Aromatic
C6	N6	sing	1.38Å	1.33Å
HN2	N6	sing	0.97Å	1.00Å
N6	H1	sing	0.97Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2'	O2'	HO2	109.5°	114.0°
O2'	C2'	C3'	110.5°	110.9°
O2'	C2'	C1'	110.3°	110.9°
O2'	C2'	H2'	111.9°	110.8°
C3'	C2'	C1'	102.9°	102.1°
C3'	C2'	H2'	110.5°	110.9°
C2'	C3'	O3'	110.4°	110.5°
C2'	C3'	C4'	101.8°	104.2°
C2'	C3'	H3''	110.9°	110.5°
C1'	C2'	H2'	110.3°	111.0°
C2'	C1'	O4'	106.0°	103.5°
C2'	C1'	N9	110.7°	110.6°
C2'	C1'	H1'	110.0°	110.6°
O3'	C3'	C4'	110.2°	110.5°
O3'	C3'	H3''	112.2°	110.4°
C3'	O3'	HO3	109.5°	114.0°
C4'	C3'	H3''	110.9°	110.6°
C3'	C4'	C5'	114.4°	109.9°
C3'	C4'	O4'	102.7°	107.3°
C3'	C4'	H4'	111.0°	109.9°
C5'	C4'	O4'	103.9°	109.9°
C5'	C4'	H4'	111.5°	109.9°
C4'	C5'	F19	110.5°	109.4°
C4'	C5'	H5'1	109.2°	109.5°
C4'	C5'	H5'2	109.2°	109.5°
O4'	C4'	H4'	112.8°	110.0°
C4'	O4'	C1'	104.6°	107.0°
F19	C5'	H5'1	109.2°	109.5°
F19	C5'	H5'2	109.2°	109.4°
H5'1	C5'	H5'2	109.5°	109.5°
O4'	C1'	N9	105.9°	110.7°
O4'	C1'	H1'	112.3°	110.6°
N9	C1'	H1'	111.7°	110.7°
C1'	N9	C8	126.8°	126.2°
C1'	N9	C4	124.7°	126.3°
C8	N9	C4	108.6°	107.5°
N9	C8	N7	110.5°	109.9°
N9	C8	HC8	124.7°	125.1°
N9	C4	C5	105.6°	106.0°
N9	C4	N3	131.5°	134.9°
N7	C8	HC8	124.7°	125.0°
C8	N7	C5	105.6°	109.4°
N7	C5	C4	109.7°	107.1°
N7	C5	C6	131.8°	134.7°
C4	C5	C6	118.5°	118.1°
C5	C4	N3	122.9°	119.1°
C5	C6	N1	117.3°	118.5°
C5	C6	N6	119.8°	120.8°
C4	N3	C2	120.6°	120.7°
N3	C2	N1	119.2°	122.4°
N3	C2	HC2	120.4°	118.8°
N1	C2	HC2	120.4°	118.7°
C2	N1	C6	121.6°	121.2°
N1	C6	N6	122.9°	120.7°
C6	N6	HN2	109.5°	120.1°
C6	N6	H1	109.5°	120.0°
HN2	N6	H1	109.5°	119.9°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2'	C2'	C3'	C1'	117.8°	118.2°
O2'	C2'	C3'	H2'	124.4°	123.6°
O2'	C2'	C1'	H2'	124.2°	123.6°
O2'	C2'	C3'	O3'	13.1°	20.4°
O2'	C2'	C3'	C4'	103.8°	139.0°
O2'	C2'	C3'	H3''	138.2°	102.1°
O2'	C2'	C1'	O4'	131.9°	155.2°
O2'	C2'	C1'	N9	113.7°	86.3°
O2'	C2'	C1'	H1'	10.2°	36.7°
HO2	O2'	C2'	C3'	180.0°	61.4°
HO2	O2'	C2'	C1'	66.8°	174.1°
HO2	O2'	C2'	H2'	56.4°	62.2°
C3'	C2'	C1'	H2'	117.9°	118.2°
C2'	C3'	O3'	C4'	111.6°	114.8°
C2'	C3'	O3'	H3''	124.3°	122.6°
C2'	C3'	C4'	H3''	118.0°	118.8°
C2'	C3'	O3'	HO3	180.0°	180.0°
C2'	C3'	C4'	C5'	149.3°	121.5°
C2'	C3'	C4'	O4'	37.4°	2.0°
C2'	C3'	C4'	H4'	83.4°	117.6°
C3'	C2'	C1'	O4'	13.9°	37.0°
C3'	C2'	C1'	N9	128.3°	155.5°
C3'	C2'	C1'	H1'	107.7°	81.5°
C1'	C2'	C3'	O3'	130.9°	97.8°
C1'	C2'	C3'	C4'	14.0°	20.9°
C1'	C2'	C3'	H3''	104.0°	139.7°
C2'	C1'	O4'	C4'	39.1°	40.1°
C2'	C1'	O4'	N9	117.6°	118.5°
C2'	C1'	O4'	H1'	120.2°	118.5°
C2'	C1'	N9	H1'	123.0°	123.0°
C2'	C1'	N9	C8	48.9°	95.0°
C2'	C1'	N9	C4	130.2°	84.7°
H2'	C2'	C3'	O3'	111.3°	143.9°
H2'	C2'	C3'	C4'	131.8°	97.4°
H2'	C2'	C3'	H3''	13.8°	21.4°
H2'	C2'	C1'	O4'	104.0°	81.2°
H2'	C2'	C1'	N9	10.4°	37.3°
H2'	C2'	C1'	H1'	134.4°	160.3°
O3'	C3'	C4'	H3''	124.9°	122.5°
O3'	C3'	C4'	C5'	93.5°	119.9°
O3'	C3'	C4'	O4'	154.6°	120.7°
O3'	C3'	C4'	H4'	33.8°	1.1°
C4'	C3'	O3'	HO3	68.4°	65.2°
C3'	C4'	C5'	O4'	111.2°	117.8°
C3'	C4'	C5'	H4'	126.9°	121.0°
C3'	C4'	O4'	H4'	119.5°	119.5°
C3'	C4'	C5'	F19	75.3°	175.0°
C3'	C4'	C5'	H5'1	44.9°	55.0°
C3'	C4'	C5'	H5'2	164.6°	65.0°
C3'	C4'	O4'	C1'	48.4°	26.5°
H3''	C3'	O3'	HO3	55.7°	57.5°
H3''	C3'	C4'	C5'	31.4°	2.7°
H3''	C3'	C4'	O4'	80.6°	116.7°
H3''	C3'	C4'	H4'	158.6°	123.7°
C5'	C4'	O4'	H4'	121.0°	121.1°
C4'	C5'	F19	H5'1	120.1°	120.1°
C4'	C5'	F19	H5'2	120.1°	120.0°
C4'	C5'	H5'1	H5'2	119.5°	120.0°
C5'	C4'	O4'	C1'	167.9°	145.9°
O4'	C4'	C5'	F19	173.5°	67.2°
O4'	C4'	C5'	H5'1	66.4°	172.8°
O4'	C4'	C5'	H5'2	53.3°	52.8°
C4'	O4'	C1'	N9	156.8°	158.6°
C4'	O4'	C1'	H1'	81.0°	78.4°
H4'	C4'	C5'	F19	51.6°	54.0°
H4'	C4'	C5'	H5'1	171.8°	66.0°
H4'	C4'	C5'	H5'2	68.5°	174.0°
H4'	C4'	O4'	C1'	71.1°	93.0°
F19	C5'	H5'1	H5'2	119.6°	120.0°
O4'	C1'	N9	H1'	122.6°	123.0°
O4'	C1'	N9	C8	65.6°	19.1°
O4'	C1'	N9	C4	115.4°	161.2°
C1'	N9	C8	C4	179.2°	179.8°
C1'	N9	C8	N7	179.4°	180.0°
C1'	N9	C8	HC8	0.6°	0.1°
C1'	N9	C4	C5	178.8°	179.9°
C1'	N9	C4	N3	0.3°	0.1°
H1'	C1'	N9	C8	171.9°	142.0°
H1'	C1'	N9	C4	7.2°	38.2°
N9	C8	N7	HC8	180.0°	179.9°
N9	C8	N7	C5	0.7°	0.0°
C8	N9	C4	C5	0.3°	0.4°
C8	N9	C4	N3	179.5°	179.7°
C4	N9	C8	N7	0.2°	0.3°
C4	N9	C8	HC8	179.8°	179.9°
N9	C4	C5	N7	0.8°	0.3°
N9	C4	C5	N3	179.2°	180.0°
N9	C4	C5	C6	179.8°	179.9°
N9	C4	N3	C2	179.8°	180.0°
C8	N7	C5	C4	0.9°	0.2°
C8	N7	C5	C6	179.8°	180.0°
HC8	C8	N7	C5	179.3°	179.9°
N7	C5	C4	C6	179.4°	179.8°
N7	C5	C4	N3	179.9°	179.7°
N7	C5	C6	N1	179.1°	179.3°
N7	C5	C6	N6	0.8°	0.0°
C5	C4	N3	C2	0.8°	0.1°
C4	C5	C6	N1	0.1°	0.5°
C4	C5	C6	N6	180.0°	179.8°
C6	C5	C4	N3	0.6°	0.1°
C5	C6	N1	C2	0.6°	0.7°
C5	C6	N1	N6	179.9°	179.3°
C5	C6	N6	HN2	179.9°	180.0°
C5	C6	N6	H1	59.9°	0.0°
C4	N3	C2	N1	0.3°	0.1°
C4	N3	C2	HC2	179.7°	180.0°
N3	C2	N1	HC2	180.0°	179.9°
N3	C2	N1	C6	0.4°	0.5°
C2	N1	C6	N6	179.5°	180.0°
HC2	C2	N1	C6	179.6°	179.6°
N1	C6	N6	HN2	0.0°	0.7°
N1	C6	N6	H1	120.0°	179.3°
C6	N6	HN2	H1	120.0°	180.0°

Definition date:	2003-12-16
Last modified:	2022-06-06
Release status:	REL
Processing site:	RCSB
Derived from:	1RQR