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Summary Geometry Related PDB entries

GM1

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	N1	sing	1.35Å	1.34Å
C1	O1	doub	1.21Å	1.24Å
C1	C2	sing	1.51Å	1.51Å
N1	HN11	sing	0.97Å	1.01Å
N1	HN12	sing	0.97Å	1.01Å
C2	N2	sing	1.47Å	1.44Å
C2	H21	sing	1.09Å	1.11Å
C2	H22	sing	1.09Å	1.12Å
N2	HN21	sing	1.01Å	0.98Å
N2	HN22	sing	1.01Å	1.02Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N1	C1	O1	122.2°	120.0°
N1	C1	C2	114.4°	120.1°
C1	N1	HN11	120.4°	120.0°
C1	N1	HN12	113.6°	119.9°
O1	C1	C2	117.5°	120.0°
C1	C2	N2	117.9°	109.5°
C1	C2	H21	109.2°	109.5°
C1	C2	H22	109.2°	109.5°
HN11	N1	HN12	126.0°	120.0°
N2	C2	H21	109.2°	109.5°
N2	C2	H22	109.2°	109.5°
C2	N2	HN21	119.8°	106.7°
C2	N2	HN22	109.1°	106.7°
H21	C2	H22	100.9°	109.4°
HN21	N2	HN22	38.1°	106.7°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N1	C1	O1	C2	151.3°	180.0°
C1	N1	HN11	HN12	179.0°	180.0°
N1	C1	C2	N2	80.1°	180.0°
N1	C1	C2	H21	154.6°	60.0°
N1	C1	C2	H22	45.2°	59.9°
O1	C1	N1	HN11	153.2°	0.0°
O1	C1	N1	HN12	25.9°	179.9°
O1	C1	C2	N2	126.4°	0.0°
O1	C1	C2	H21	1.1°	120.0°
O1	C1	C2	H22	108.3°	120.0°
C2	C1	N1	HN11	1.1°	180.0°
C2	C1	N1	HN12	178.0°	0.0°
C1	C2	N2	H21	125.3°	120.1°
C1	C2	N2	H22	125.3°	120.0°
C1	C2	H21	H22	114.9°	120.0°
C1	C2	N2	HN21	95.2°	180.0°
C1	C2	N2	HN22	54.7°	66.2°
N2	C2	H21	H22	114.9°	120.0°
C2	N2	HN21	HN22	83.2°	113.7°
H21	C2	N2	HN21	30.1°	59.9°
H21	C2	N2	HN22	70.6°	53.8°
H22	C2	N2	HN21	139.6°	60.0°
H22	C2	N2	HN22	180.0°	173.8°

222415

PDB entries from 2024-07-10

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