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Summary Geometry Related PDB entries

D1N

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O2	C2	sing	1.36Å	1.43Å
O2	HO2	sing	0.97Å	0.95Å
C2	C3	doub	1.39Å	1.41Å
C2	C1	sing	1.39Å	1.39Å
C3	C4	sing	1.40Å	1.40Å
C3	H3	sing	1.09Å	1.08Å
C4	C5	doub	1.40Å	1.41Å
C4	H4	sing	1.09Å	1.08Å
C5	C10	sing	1.42Å	1.40Å
C5	C6	sing	1.40Å	1.39Å
C10	C1	doub	1.40Å	1.40Å
C10	C9	sing	1.40Å	1.41Å
C1	O1	sing	1.37Å	1.42Å
O1	HO1	sing	0.97Å	0.95Å
C9	C8	doub	1.39Å	1.40Å
C9	H9	sing	1.09Å	1.08Å
C8	C7	sing	1.39Å	1.40Å
C8	H8	sing	1.09Å	1.08Å
C7	C6	doub	1.40Å	1.40Å
C7	H7	sing	1.09Å	1.08Å
C6	H6	sing	1.09Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	O2	HO2	109.5°	110.2°
O2	C2	C3	121.8°	119.3°
O2	C2	C1	117.4°	120.6°
C3	C2	C1	120.9°	120.1°
C2	C3	C4	118.3°	120.0°
C2	C3	H3	120.8°	120.4°
C2	C1	C10	120.9°	120.7°
C2	C1	O1	116.9°	118.6°
C4	C3	H3	120.8°	119.6°
C3	C4	C5	120.6°	120.7°
C3	C4	H4	119.7°	118.8°
C5	C4	H4	119.7°	120.6°
C4	C5	C10	120.5°	119.3°
C4	C5	C6	119.6°	121.4°
C10	C5	C6	119.9°	119.3°
C5	C10	C1	118.7°	119.3°
C5	C10	C9	121.3°	119.3°
C5	C6	C7	119.6°	120.7°
C5	C6	H6	120.2°	120.5°
C1	C10	C9	120.0°	121.5°
C10	C1	O1	122.2°	120.8°
C10	C9	C8	117.9°	120.7°
C10	C9	H9	121.1°	121.1°
C1	O1	HO1	109.5°	109.9°
C8	C9	H9	121.0°	118.1°
C9	C8	C7	120.9°	120.0°
C9	C8	H8	119.6°	120.0°
C7	C8	H8	119.6°	120.0°
C8	C7	C6	120.4°	120.0°
C8	C7	H7	119.8°	120.0°
C6	C7	H7	119.8°	120.0°
C7	C6	H6	120.2°	118.8°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2	C2	C3	C1	179.6°	180.0°
O2	C2	C3	C4	179.4°	179.9°
O2	C2	C3	H3	0.6°	0.0°
O2	C2	C1	C10	180.0°	180.0°
O2	C2	C1	O1	0.9°	0.2°
HO2	O2	C2	C3	98.9°	71.5°
HO2	O2	C2	C1	80.7°	108.6°
C2	C3	C4	H3	180.0°	179.9°
C2	C3	C4	C5	1.2°	0.0°
C2	C3	C4	H4	178.8°	180.0°
C3	C2	C1	C10	0.4°	0.0°
C3	C2	C1	O1	179.5°	179.9°
C1	C2	C3	C4	1.0°	0.0°
C1	C2	C3	H3	179.0°	179.9°
C2	C1	C10	C5	0.1°	0.0°
C2	C1	C10	O1	179.0°	179.9°
C2	C1	C10	C9	179.2°	180.0°
C2	C1	O1	HO1	110.1°	88.8°
C3	C4	C5	H4	180.0°	180.0°
C3	C4	C5	C10	0.6°	0.1°
C3	C4	C5	C6	179.9°	180.0°
H3	C3	C4	C5	178.9°	179.9°
H3	C3	C4	H4	1.2°	0.1°
C4	C5	C10	C6	179.2°	179.9°
C4	C5	C10	C1	0.0°	0.1°
C4	C5	C10	C9	179.1°	180.0°
C4	C5	C6	C7	179.7°	180.0°
C4	C5	C6	H6	0.3°	0.1°
H4	C4	C5	C10	179.4°	180.0°
H4	C4	C5	C6	0.1°	0.0°
C5	C10	C1	C9	179.1°	179.9°
C5	C10	C1	O1	178.9°	179.9°
C5	C10	C9	C8	0.3°	0.1°
C5	C10	C9	H9	179.7°	180.0°
C10	C5	C6	C7	0.5°	0.1°
C10	C5	C6	H6	179.5°	180.0°
C6	C5	C10	C1	179.2°	180.0°
C6	C5	C10	C9	0.1°	0.1°
C5	C6	C7	C8	1.0°	0.0°
C5	C6	C7	H6	180.0°	180.0°
C5	C6	C7	H7	179.0°	179.9°
C10	C1	O1	HO1	70.9°	91.1°
C1	C10	C9	C8	179.3°	180.0°
C1	C10	C9	H9	0.7°	0.1°
C9	C10	C1	O1	0.2°	0.2°
C10	C9	C8	H9	180.0°	179.9°
C10	C9	C8	C7	0.2°	0.1°
C10	C9	C8	H8	179.8°	180.0°
C9	C8	C7	H8	180.0°	179.9°
C9	C8	C7	C6	0.8°	0.0°
C9	C8	C7	H7	179.2°	179.9°
H9	C9	C8	C7	179.8°	180.0°
H9	C9	C8	H8	0.2°	0.1°
C8	C7	C6	H7	180.0°	180.0°
C8	C7	C6	H6	179.0°	180.0°
H8	C8	C7	C6	179.2°	180.0°
H8	C8	C7	H7	0.8°	0.0°
H7	C7	C6	H6	1.0°	0.0°

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