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Summary Geometry Related PDB entries

A1AM5

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C	N	sing	1.47Å	1.46Å
N	C1	sing	1.47Å	1.46Å
C1	C2	sing	1.51Å	1.51Å
C2	C3	doub	1.38Å	1.39Å	Aromatic
C3	C4	sing	1.38Å	1.38Å	Aromatic
C4	C5	doub	1.38Å	1.39Å	Aromatic
C6	C5	sing	1.38Å	1.39Å	Aromatic
C7	C6	doub	1.38Å	1.38Å	Aromatic
C2	C7	sing	1.38Å	1.39Å	Aromatic
C5	C8	sing	1.51Å	1.50Å
F	C8	sing	1.40Å	1.33Å
F1	C8	sing	1.40Å	1.34Å
C8	F2	sing	1.40Å	1.34Å
C4	H7	sing	1.08Å	1.08Å
C6	H8	sing	1.08Å	1.08Å
C7	H9	sing	1.08Å	1.08Å
N	H3	sing	1.01Å	1.00Å
C	H1	sing	1.09Å	1.10Å
C	H2	sing	1.09Å	1.10Å
C	H	sing	1.09Å	1.10Å
C1	H5	sing	1.09Å	1.10Å
C1	H4	sing	1.09Å	1.10Å
C3	H6	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C	N	C1	111.5°	111.0°
C	N	H3	108.9°	111.0°
N	C	H1	109.5°	109.5°
N	C	H2	109.4°	109.5°
N	C	H	109.5°	109.5°
N	C1	C2	114.0°	109.5°
C1	N	H3	109.0°	111.0°
N	C1	H5	108.3°	109.4°
N	C1	H4	108.3°	109.5°
C1	C2	C3	120.5°	120.0°
C1	C2	C7	121.3°	120.0°
C2	C1	H5	108.3°	109.5°
C2	C1	H4	108.3°	109.4°
C2	C3	C4	121.0°	120.0°
C3	C2	C7	118.1°	120.0°
C2	C3	H6	119.5°	120.0°
C3	C4	C5	120.8°	120.0°
C3	C4	H7	119.6°	120.0°
C4	C3	H6	119.5°	120.0°
C4	C5	C6	118.2°	120.0°
C4	C5	C8	120.6°	120.0°
C5	C4	H7	119.6°	120.0°
C5	C6	C7	120.7°	120.0°
C6	C5	C8	121.1°	120.0°
C5	C6	H8	119.7°	120.0°
C6	C7	C2	121.1°	120.0°
C7	C6	H8	119.6°	120.0°
C6	C7	H9	119.5°	120.0°
C2	C7	H9	119.5°	120.0°
C5	C8	F	112.4°	109.4°
C5	C8	F1	112.8°	109.5°
C5	C8	F2	113.2°	109.5°
F	C8	F1	105.8°	109.4°
F	C8	F2	105.8°	109.5°
F1	C8	F2	106.3°	109.5°
H1	C	H2	109.5°	109.5°
H1	C	H	109.5°	109.4°
H2	C	H	109.5°	109.5°
H5	C1	H4	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C	N	C1	H3	120.3°	124.0°
C	N	C1	C2	174.2°	180.0°
N	C	H1	H2	120.0°	120.1°
N	C	H1	H	120.0°	120.0°
N	C	H2	H	120.0°	120.1°
C	N	C1	H5	65.2°	60.0°
C	N	C1	H4	53.5°	60.0°
N	C1	C2	H5	120.7°	120.0°
N	C1	C2	H4	120.6°	120.0°
N	C1	C2	C3	139.6°	90.0°
N	C1	C2	C7	44.6°	90.6°
C1	N	C	H1	180.0°	60.0°
C1	N	C	H2	60.0°	60.0°
C1	N	C	H	60.0°	180.0°
N	C1	H5	H4	117.9°	120.0°
C1	C2	C3	C7	176.0°	179.4°
C1	C2	C3	C4	174.6°	180.0°
C1	C2	C7	C6	175.1°	179.7°
C1	C2	C7	H9	4.9°	0.3°
C2	C1	N	H3	53.9°	56.0°
C2	C1	H5	H4	117.9°	120.0°
C1	C2	C3	H6	5.4°	0.1°
C2	C3	C4	H6	180.0°	179.9°
C2	C3	C4	C5	0.7°	0.6°
C3	C2	C7	C6	0.9°	0.3°
C2	C3	C4	H7	179.2°	179.7°
C3	C2	C7	H9	179.2°	179.7°
C3	C2	C1	H5	18.9°	30.0°
C3	C2	C1	H4	99.8°	150.0°
C3	C4	C5	H7	180.0°	179.7°
C3	C4	C5	C6	0.5°	0.3°
C4	C3	C2	C7	1.4°	0.6°
C3	C4	C5	C8	178.3°	179.7°
C4	C5	C6	C8	178.8°	180.0°
C4	C5	C6	C7	1.0°	0.0°
C4	C5	C8	F	37.4°	150.0°
C4	C5	C8	F1	82.1°	30.1°
C4	C5	C8	F2	157.2°	90.0°
C4	C5	C6	H8	179.0°	180.0°
C5	C4	C3	H6	179.3°	179.4°
C5	C6	C7	H8	180.0°	180.0°
C5	C6	C7	C2	0.3°	0.0°
C6	C5	C8	F	143.8°	30.0°
C6	C5	C8	F1	96.6°	150.0°
C6	C5	C8	F2	24.0°	90.0°
C6	C5	C4	H7	179.6°	180.0°
C5	C6	C7	H9	179.7°	180.0°
C6	C7	C2	H9	180.0°	180.0°
C7	C6	C5	C8	177.8°	180.0°
C2	C7	C6	H8	179.7°	180.0°
C7	C2	C1	H5	165.2°	149.4°
C7	C2	C1	H4	76.1°	29.4°
C7	C2	C3	H6	178.6°	179.4°
C5	C8	F	F1	123.5°	120.0°
C5	C8	F	F2	124.0°	120.0°
C5	C8	F1	F2	124.5°	120.1°
C8	C5	C4	H7	1.6°	0.0°
C8	C5	C6	H8	2.2°	0.0°
F	C8	F1	F2	112.2°	120.0°
H7	C4	C3	H6	0.7°	0.3°
H8	C6	C7	H9	0.3°	0.0°
H3	N	C	H1	59.7°	63.9°
H3	N	C	H2	60.4°	176.0°
H3	N	C	H	179.7°	56.0°
H3	N	C1	H5	174.5°	176.1°
H3	N	C1	H4	66.8°	64.0°
H1	C	H2	H	120.0°	119.9°

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PDB entries from 2026-03-18

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