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Summary Geometry Related PDB entries

A1ARV

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	C2	doub	1.40Å	1.39Å	Aromatic
C1	C6	sing	1.41Å	1.39Å	Aromatic
C1	C9	sing	1.47Å	1.43Å	Aromatic
C3	C2	sing	1.37Å	1.40Å	Aromatic
C2	C10	sing	1.51Å	1.49Å
C4	C3	doub	1.39Å	1.40Å	Aromatic
C5	C4	sing	1.38Å	1.39Å	Aromatic
C6	C5	doub	1.39Å	1.40Å	Aromatic
N7	C6	sing	1.38Å	1.35Å	Aromatic
C8	N7	sing	1.37Å	1.37Å	Aromatic
C9	C8	doub	1.34Å	1.38Å	Aromatic
C10	O14	sing	1.43Å	1.43Å
C10	H1	sing	1.09Å	1.10Å
C3	H3	sing	1.08Å	1.08Å
C4	H4	sing	1.08Å	1.08Å
C5	H5	sing	1.08Å	1.08Å
C8	H8	sing	1.08Å	1.08Å
C9	H9	sing	1.08Å	1.08Å
N7	HN7	sing	0.97Å	1.00Å
O14	HO14	sing	0.97Å	0.95Å
C10	S1	sing	1.81Å	1.86Å
S1	H2	sing	1.34Å	1.30Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	C1	C6	119.6°	119.9°
C2	C1	C9	129.5°	134.0°
C1	C2	C3	119.7°	119.7°
C1	C2	C10	118.5°	120.2°
C6	C1	C9	110.9°	106.1°
C1	C6	C5	121.5°	119.4°
C1	C6	N7	105.2°	107.1°
C1	C9	C8	103.0°	107.0°
C1	C9	H9	128.5°	126.5°
C3	C2	C10	121.8°	120.1°
C2	C3	C4	120.7°	120.5°
C2	C3	H3	119.7°	119.7°
C2	C10	O14	105.5°	109.5°
C2	C10	H1	115.0°	109.5°
C2	C10	S1	123.7°	109.5°
C3	C4	C5	119.7°	120.7°
C4	C3	H3	119.7°	119.7°
C3	C4	H4	120.2°	119.7°
C4	C5	C6	118.9°	119.8°
C5	C4	H4	120.1°	119.7°
C4	C5	H5	120.6°	120.1°
C5	C6	N7	133.3°	133.5°
C6	C5	H5	120.6°	120.1°
C6	N7	C8	111.0°	109.9°
C6	N7	HN7	124.5°	125.1°
N7	C8	C9	109.9°	110.0°
N7	C8	H8	125.0°	125.0°
C8	N7	HN7	124.5°	125.0°
C9	C8	H8	125.0°	125.0°
C8	C9	H9	128.5°	126.6°
O14	C10	H1	116.2°	109.5°
C10	O14	HO14	109.5°	114.0°
O14	C10	S1	82.4°	109.5°
H1	C10	S1	109.8°	109.5°
C10	S1	H2	102.0°	103.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C2	C1	C6	C9	179.6°	179.7°
C1	C2	C3	C10	178.7°	180.0°
C1	C2	C3	C4	0.3°	0.0°
C2	C1	C6	C5	0.3°	0.0°
C2	C1	C6	N7	179.5°	179.9°
C2	C1	C9	C8	179.3°	180.0°
C1	C2	C10	O14	136.8°	165.0°
C1	C2	C10	H1	93.9°	45.0°
C1	C2	C3	H3	179.7°	180.0°
C2	C1	C9	H9	0.7°	0.1°
C1	C2	C10	S1	45.7°	75.0°
C6	C1	C2	C3	0.5°	0.0°
C6	C1	C2	C10	179.2°	180.0°
C1	C6	C5	C4	0.1°	0.0°
C1	C6	C5	N7	179.7°	179.9°
C1	C6	N7	C8	0.0°	0.1°
C6	C1	C9	C8	0.3°	0.3°
C1	C6	C5	H5	179.9°	179.9°
C6	C1	C9	H9	179.7°	179.7°
C1	C6	N7	HN7	180.0°	179.7°
C9	C1	C2	C3	180.0°	179.6°
C9	C1	C2	C10	1.2°	0.4°
C9	C1	C6	C5	179.9°	179.7°
C9	C1	C6	N7	0.2°	0.2°
C1	C9	C8	N7	0.3°	0.3°
C1	C9	C8	H9	180.0°	180.0°
C1	C9	C8	H8	179.7°	179.9°
C2	C3	C4	H3	180.0°	180.0°
C2	C3	C4	C5	0.0°	0.0°
C3	C2	C10	O14	41.9°	15.0°
C3	C2	C10	H1	87.4°	135.0°
C2	C3	C4	H4	180.0°	180.0°
C3	C2	C10	S1	133.0°	105.0°
C10	C2	C3	C4	179.0°	180.0°
C2	C10	O14	H1	128.6°	120.0°
C2	C10	O14	S1	122.9°	120.0°
C2	C10	H1	S1	145.0°	120.0°
C10	C2	C3	H3	1.0°	0.1°
C2	C10	O14	HO14	180.0°	60.0°
C2	C10	S1	H2	180.0°	180.0°
C3	C4	C5	H4	180.0°	179.9°
C3	C4	C5	C6	0.2°	0.0°
C3	C4	C5	H5	179.8°	179.9°
C4	C5	C6	H5	180.0°	180.0°
C4	C5	C6	N7	179.7°	179.9°
C5	C4	C3	H3	180.0°	180.0°
C5	C6	N7	C8	179.7°	179.9°
C6	C5	C4	H4	179.8°	180.0°
C5	C6	N7	HN7	0.3°	0.3°
C6	N7	C8	HN7	180.0°	179.8°
C6	N7	C8	C9	0.2°	0.1°
N7	C6	C5	H5	0.3°	0.1°
C6	N7	C8	H8	179.8°	180.0°
N7	C8	C9	H8	180.0°	179.9°
N7	C8	C9	H9	179.7°	179.8°
C9	C8	N7	HN7	179.8°	179.9°
O14	C10	H1	S1	91.2°	120.0°
O14	C10	S1	H2	76.5°	60.0°
H1	C10	O14	HO14	51.4°	180.0°
H1	C10	S1	H2	38.7°	60.0°
H3	C3	C4	H4	0.0°	0.0°
H4	C4	C5	H5	0.2°	0.0°
H8	C8	C9	H9	0.3°	0.1°
H8	C8	N7	HN7	0.2°	0.2°
HO14	O14	C10	S1	57.1°	60.0°

249697

PDB entries from 2026-02-25

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