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Summary Geometry Related PDB entries

YG0

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C	O	doub	1.21Å	1.24Å
N	C	sing	1.35Å	1.36Å
C1	N	sing	1.40Å	1.43Å
C1	C2	sing	1.39Å	1.39Å	Aromatic
C2	C3	doub	1.38Å	1.40Å	Aromatic
C3	C4	sing	1.38Å	1.38Å	Aromatic
C4	C5	doub	1.38Å	1.37Å	Aromatic
C5	C6	sing	1.38Å	1.40Å	Aromatic
C6	C1	doub	1.39Å	1.39Å	Aromatic
C7	C	sing	1.51Å	1.51Å
C7	C8	sing	1.53Å	1.50Å
C8	C9	sing	1.53Å	1.48Å
C9	C7	sing	1.53Å	1.50Å
C4	H3	sing	1.08Å	1.08Å
C5	H4	sing	1.08Å	1.08Å
C6	H5	sing	1.08Å	1.08Å
C7	H6	sing	1.09Å	1.10Å
C8	H8	sing	1.09Å	1.10Å
C8	H7	sing	1.09Å	1.10Å
C9	H10	sing	1.09Å	1.10Å
C9	H9	sing	1.09Å	1.10Å
N	H	sing	0.97Å	1.00Å
C3	H2	sing	1.08Å	1.08Å
C2	H1	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O	C	N	123.5°	120.0°
O	C	C7	121.8°	120.0°
C	N	C1	124.5°	120.0°
N	C	C7	114.6°	120.0°
C	N	H	117.7°	119.9°
N	C1	C2	124.6°	120.1°
N	C1	C6	116.5°	120.1°
C1	N	H	117.8°	120.0°
C1	C2	C3	120.2°	120.0°
C2	C1	C6	119.0°	119.8°
C1	C2	H1	119.9°	120.0°
C2	C3	C4	120.5°	120.0°
C2	C3	H2	119.8°	120.0°
C3	C2	H1	119.9°	120.0°
C3	C4	C5	119.5°	120.2°
C3	C4	H3	120.3°	119.9°
C4	C3	H2	119.8°	120.0°
C4	C5	C6	120.6°	120.1°
C5	C4	H3	120.3°	119.9°
C4	C5	H4	119.7°	119.9°
C5	C6	C1	120.3°	119.9°
C6	C5	H4	119.7°	120.0°
C5	C6	H5	119.9°	120.0°
C1	C6	H5	119.8°	120.0°
C	C7	C8	117.9°	117.5°
C	C7	C9	117.0°	117.5°
C	C7	H6	116.7°	115.5°
C7	C8	C9	60.6°	60.0°
C8	C7	C9	58.9°	60.0°
C8	C7	H6	116.9°	117.5°
C7	C8	H8	119.9°	117.5°
C7	C8	H7	119.9°	117.5°
C8	C9	C7	60.6°	60.0°
C9	C8	H8	119.9°	117.5°
C9	C8	H7	119.9°	117.6°
C8	C9	H10	119.9°	117.5°
C8	C9	H9	119.9°	117.5°
C9	C7	H6	116.9°	117.5°
C7	C9	H10	119.9°	117.5°
C7	C9	H9	119.9°	117.5°
H8	C8	H7	109.4°	115.5°
H10	C9	H9	109.5°	115.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O	C	N	C7	178.1°	180.0°
O	C	N	C1	4.1°	4.6°
O	C	C7	C8	29.0°	0.0°
O	C	C7	C9	38.2°	68.7°
O	C	C7	H6	176.2°	145.7°
O	C	N	H	175.9°	175.4°
C	N	C1	H	180.0°	180.0°
C	N	C1	C2	130.9°	144.9°
C	N	C1	C6	49.1°	35.0°
N	C	C7	C8	149.1°	180.0°
N	C	C7	C9	143.7°	111.3°
N	C	C7	H6	2.0°	34.3°
N	C1	C2	C6	180.0°	179.9°
N	C1	C2	C3	179.4°	179.7°
N	C1	C6	C5	178.9°	180.0°
C1	N	C	C7	174.0°	175.4°
N	C1	C6	H5	1.1°	0.1°
N	C1	C2	H1	0.6°	0.1°
C1	C2	C3	H1	180.0°	179.8°
C1	C2	C3	C4	0.2°	0.5°
C2	C1	C6	C5	1.1°	0.0°
C2	C1	C6	H5	178.9°	179.9°
C2	C1	N	H	49.1°	35.1°
C1	C2	C3	H2	179.7°	180.0°
C2	C3	C4	H2	180.0°	179.4°
C2	C3	C4	C5	0.6°	0.5°
C3	C2	C1	C6	0.6°	0.2°
C2	C3	C4	H3	179.4°	179.7°
C3	C4	C5	H3	180.0°	179.7°
C3	C4	C5	C6	0.1°	0.3°
C3	C4	C5	H4	179.9°	179.7°
C4	C3	C2	H1	179.7°	179.7°
C4	C5	C6	H4	180.0°	179.9°
C4	C5	C6	C1	0.8°	0.0°
C4	C5	C6	H5	179.2°	179.9°
C5	C4	C3	H2	179.4°	180.0°
C5	C6	C1	H5	180.0°	179.9°
C6	C5	C4	H3	179.9°	180.0°
C1	C6	C5	H4	179.2°	180.0°
C6	C1	N	H	130.9°	144.9°
C6	C1	C2	H1	179.4°	180.0°
C	C7	C8	C9	106.3°	107.5°
C	C7	C8	H6	147.1°	145.0°
C	C7	C9	H6	145.6°	145.0°
C	C7	C8	H8	144.1°	145.0°
C	C7	C8	H7	3.4°	0.0°
C	C7	C9	H10	142.6°	0.1°
C	C7	C9	H9	1.8°	145.0°
C7	C	N	H	6.0°	4.7°
C7	C8	C9	H8	109.6°	107.5°
C7	C8	C9	H7	109.6°	107.5°
C8	C7	C9	H6	106.6°	107.5°
C7	C8	H8	H7	144.4°	145.6°
C8	C7	C9	H10	109.6°	107.4°
C8	C7	C9	H9	109.6°	107.5°
C9	C8	H8	H7	144.4°	145.8°
C8	C9	H10	H9	144.4°	145.6°
C7	C9	H10	H9	144.4°	145.8°
H3	C4	C5	H4	0.1°	0.0°
H3	C4	C3	H2	0.6°	0.3°
H4	C5	C6	H5	0.8°	0.1°
H6	C7	C8	H8	3.0°	0.0°
H6	C7	C8	H7	143.7°	145.0°
H6	C7	C9	H10	3.0°	145.1°
H6	C7	C9	H9	143.7°	0.0°
H8	C8	C9	H10	0.0°	145.0°
H8	C8	C9	H9	140.7°	0.1°
H7	C8	C9	H10	140.7°	0.1°
H7	C8	C9	H9	0.0°	145.0°
H2	C3	C2	H1	0.3°	0.3°

223532

PDB entries from 2024-08-07

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