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Summary Geometry Related PDB entries

N3D

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N1	C2	sing	1.47Å	1.52Å
C2	C3	sing	1.53Å	1.48Å
C3	C4	sing	1.53Å	1.51Å
C4	N5	sing	1.47Å	1.52Å
N5	C6	sing	1.47Å	1.51Å
N1	HN1	sing	1.01Å	1.00Å
N1	HN1A	sing	1.01Å	1.00Å
C2	H2	sing	1.09Å	1.10Å
C2	H2A	sing	1.09Å	1.10Å
C3	H3	sing	1.09Å	1.10Å
C3	H3A	sing	1.09Å	1.10Å
C4	H4	sing	1.09Å	1.10Å
C4	H4A	sing	1.09Å	1.10Å
N5	HN5	sing	1.01Å	1.00Å
C6	H6	sing	1.09Å	1.10Å
C6	H6A	sing	1.09Å	1.10Å
C6	H6B	sing	1.09Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N1	C2	C3	107.9°	109.5°
C2	N1	HN1	109.5°	111.0°
C2	N1	HN1A	109.4°	110.9°
N1	C2	H2	110.0°	109.4°
N1	C2	H2A	110.4°	109.4°
C2	C3	C4	112.6°	109.5°
C3	C2	H2	110.0°	109.5°
C3	C2	H2A	110.4°	109.5°
C2	C3	H3	108.4°	109.5°
C2	C3	H3A	107.7°	109.5°
C3	C4	N5	109.6°	109.5°
C4	C3	H3	108.4°	109.5°
C4	C3	H3A	107.7°	109.4°
C3	C4	H4	109.4°	109.5°
C3	C4	H4A	109.4°	109.5°
C4	N5	C6	108.9°	111.1°
N5	C4	H4	109.4°	109.5°
N5	C4	H4A	109.4°	109.4°
C4	N5	HN5	109.6°	111.0°
C6	N5	HN5	109.7°	110.9°
N5	C6	H6	109.5°	109.5°
N5	C6	H6A	109.4°	109.4°
N5	C6	H6B	109.4°	109.5°
HN1	N1	HN1A	109.5°	111.0°
H2	C2	H2A	108.2°	109.5°
H3	C3	H3A	112.0°	109.5°
H4	C4	H4A	109.5°	109.4°
H6	C6	H6A	109.5°	109.5°
H6	C6	H6B	109.5°	109.5°
H6A	C6	H6B	109.5°	109.4°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N1	C2	C3	H2	120.0°	120.0°
N1	C2	C3	H2A	120.7°	119.9°
N1	C2	C3	C4	177.5°	180.0°
C2	N1	HN1	HN1A	120.0°	123.9°
N1	C2	H2	H2A	120.7°	119.9°
N1	C2	C3	H3	57.5°	60.0°
N1	C2	C3	H3A	63.8°	60.1°
C2	C3	C4	H3	120.0°	120.0°
C2	C3	C4	H3A	118.6°	120.0°
C2	C3	C4	N5	151.2°	180.0°
C3	C2	N1	HN1	61.5°	180.0°
C3	C2	N1	HN1A	58.5°	56.1°
C3	C2	H2	H2A	120.7°	120.1°
C2	C3	H3	H3A	118.7°	120.0°
C2	C3	C4	H4	31.2°	60.0°
C2	C3	C4	H4A	88.8°	60.0°
C3	C4	N5	H4	120.0°	120.1°
C3	C4	N5	H4A	119.9°	120.0°
C3	C4	N5	C6	174.2°	180.0°
C4	C3	C2	H2	62.4°	60.0°
C4	C3	C2	H2A	56.9°	60.1°
C4	C3	H3	H3A	118.7°	120.0°
C3	C4	H4	H4A	119.9°	120.0°
C3	C4	N5	HN5	54.1°	56.1°
C4	N5	C6	HN5	120.0°	124.0°
N5	C4	C3	H3	88.8°	60.0°
N5	C4	C3	H3A	32.6°	60.0°
N5	C4	H4	H4A	120.0°	119.9°
C4	N5	C6	H6	27.6°	180.0°
C4	N5	C6	H6A	147.6°	60.0°
C4	N5	C6	H6B	92.3°	60.0°
C6	N5	C4	H4	65.8°	59.9°
C6	N5	C4	H4A	54.2°	59.9°
N5	C6	H6	H6A	120.0°	120.0°
N5	C6	H6	H6B	120.0°	120.0°
N5	C6	H6A	H6B	120.0°	120.0°
HN1	N1	C2	H2	58.5°	59.9°
HN1	N1	C2	H2A	177.9°	60.0°
HN1A	N1	C2	H2	178.5°	64.0°
HN1A	N1	C2	H2A	62.1°	176.1°
H2	C2	C3	H3	177.5°	180.0°
H2	C2	C3	H3A	56.2°	59.9°
H2A	C2	C3	H3	63.1°	60.0°
H2A	C2	C3	H3A	175.5°	180.0°
H3	C3	C4	H4	151.2°	180.0°
H3	C3	C4	H4A	31.2°	60.0°
H3A	C3	C4	H4	87.4°	60.0°
H3A	C3	C4	H4A	152.6°	180.0°
H4	C4	N5	HN5	174.2°	176.1°
H4A	C4	N5	HN5	65.8°	64.0°
HN5	N5	C6	H6	92.4°	56.0°
HN5	N5	C6	H6A	27.6°	176.1°
HN5	N5	C6	H6B	147.7°	64.0°
H6	C6	H6A	H6B	120.0°	120.0°

222415

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