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Summary Geometry Related PDB entries

PPF

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C1	O4	sing	1.34Å	1.19Å
C1	O5	doub	1.21Å	1.30Å
C1	P1	sing	1.81Å	1.77Å
O1	P1	sing	1.61Å	1.49Å
O1	HO1	sing	0.97Å	0.95Å
O2	P1	sing	1.61Å	1.50Å
O2	HO2	sing	0.97Å	0.95Å
O3	P1	doub	1.48Å	1.49Å
O4	HO4	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O4	C1	O5	122.1°	120.0°
O4	C1	P1	116.9°	120.1°
C1	O4	HO4	109.5°	120.0°
O5	C1	P1	120.9°	120.0°
C1	P1	O1	109.0°	109.5°
C1	P1	O2	108.8°	109.5°
C1	P1	O3	106.8°	109.4°
P1	O1	HO1	109.5°	106.8°
O1	P1	O2	111.7°	109.5°
O1	P1	O3	111.1°	109.5°
P1	O2	HO2	109.5°	106.8°
O2	P1	O3	109.3°	109.4°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O4	C1	O5	P1	177.1°	180.0°
O4	C1	P1	O1	173.1°	180.0°
O4	C1	P1	O2	51.1°	59.9°
O4	C1	P1	O3	66.8°	60.0°
O5	C1	P1	O1	9.7°	0.1°
O5	C1	P1	O2	131.7°	120.0°
O5	C1	P1	O3	110.4°	120.0°
O5	C1	O4	HO4	0.0°	0.0°
C1	P1	O1	O2	120.2°	120.1°
C1	P1	O1	O3	117.4°	119.9°
C1	P1	O1	HO1	115.7°	180.0°
C1	P1	O2	O3	116.3°	119.9°
C1	P1	O2	HO2	2.7°	60.0°
P1	C1	O4	HO4	177.2°	179.9°
O1	P1	O2	O3	123.4°	120.0°
O1	P1	O2	HO2	117.6°	60.1°
HO1	O1	P1	O2	124.0°	59.9°
HO1	O1	P1	O3	1.7°	60.1°
HO2	O2	P1	O3	119.0°	179.9°

220113

PDB entries from 2024-05-22

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