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Summary Geometry Related PDB entries

PGL

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N	C	sing	1.47Å	1.38Å
N	HN1	sing	1.01Å	1.00Å
N	HN2	sing	1.01Å	1.00Å
C	P	sing	1.82Å	1.79Å
C	H1	sing	1.09Å	1.10Å
C	H2	sing	1.09Å	1.10Å
P	O1	doub	1.48Å	1.41Å
P	O2	sing	1.61Å	1.56Å
P	O3	sing	1.61Å	1.72Å
O2	HO2	sing	0.97Å	0.95Å
O3	H6	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C	N	HN1	109.5°	110.9°
C	N	HN2	109.4°	111.0°
N	C	P	97.7°	109.5°
N	C	H1	113.6°	109.4°
N	C	H2	113.6°	109.5°
HN1	N	HN2	109.5°	111.0°
P	C	H1	113.6°	109.5°
P	C	H2	113.6°	109.5°
C	P	O1	115.9°	109.5°
C	P	O2	118.2°	109.5°
C	P	O3	97.1°	109.5°
H1	C	H2	105.0°	109.5°
O1	P	O2	108.5°	109.5°
O1	P	O3	109.4°	109.5°
O2	P	O3	106.5°	109.5°
P	O2	HO2	109.5°	114.0°
P	O3	H6	109.5°	114.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C	N	HN1	HN2	120.0°	123.9°
N	C	P	H1	120.0°	120.0°
N	C	P	H2	120.0°	120.0°
N	C	H1	H2	124.8°	120.0°
N	C	P	O1	81.5°	55.0°
N	C	P	O2	49.9°	65.0°
N	C	P	O3	162.9°	175.0°
HN1	N	C	P	180.0°	56.1°
HN1	N	C	H1	60.0°	176.1°
HN1	N	C	H2	60.0°	64.0°
HN2	N	C	P	60.0°	180.0°
HN2	N	C	H1	60.0°	60.0°
HN2	N	C	H2	180.0°	59.9°
P	C	H1	H2	124.7°	120.0°
C	P	O1	O2	135.8°	120.0°
C	P	O1	O3	108.4°	120.0°
C	P	O2	O3	107.7°	120.0°
C	P	O2	HO2	134.6°	60.0°
C	P	O3	H6	120.7°	180.0°
H1	C	P	O1	158.5°	175.0°
H1	C	P	O2	70.1°	55.0°
H1	C	P	O3	42.9°	65.0°
H2	C	P	O1	38.6°	65.0°
H2	C	P	O2	169.9°	175.0°
H2	C	P	O3	77.0°	55.0°
O1	P	O2	O3	117.7°	120.0°
O1	P	O2	HO2	0.0°	179.9°
O1	P	O3	H6	0.0°	60.0°
O2	P	O3	H6	117.1°	60.0°
O3	P	O2	HO2	117.7°	60.0°

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PDB entries from 2024-07-10

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