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Summary Geometry Related PDB entries

GPF

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
P1	C1	sing	1.82Å	1.73Å
C1	N1	sing	1.47Å	1.45Å
C1	H1	sing	1.09Å	1.10Å
C1	H1A	sing	1.09Å	1.10Å
N1	C2	sing	1.47Å	1.46Å
C2	C3	sing	1.51Å	1.52Å
C2	H2	sing	1.09Å	1.10Å
C2	H2A	sing	1.09Å	1.10Å
O4	C3	doub	1.21Å	1.28Å
C3	O5	sing	1.34Å	1.23Å
P1	O1	sing	1.61Å	1.49Å
O1	HO1	sing	0.97Å	0.95Å
O2	P1	doub	1.48Å	1.50Å
O3	P1	sing	1.61Å	1.52Å
O3	HO3	sing	0.97Å	0.95Å
O5	HO5	sing	0.97Å	0.95Å
N1	HN1	sing	1.01Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
P1	C1	N1	111.2°	109.5°
P1	C1	H1	108.9°	109.5°
P1	C1	H1A	108.5°	109.5°
C1	P1	O1	108.2°	109.5°
C1	P1	O2	103.0°	109.5°
C1	P1	O3	107.7°	109.5°
N1	C1	H1	108.9°	109.5°
N1	C1	H1A	108.5°	109.5°
C1	N1	C2	119.7°	111.0°
C1	N1	HN1	106.2°	111.0°
H1	C1	H1A	110.9°	109.4°
N1	C2	C3	110.2°	109.5°
N1	C2	H2	109.2°	109.4°
N1	C2	H2A	109.1°	109.5°
C2	N1	HN1	106.2°	111.0°
C3	C2	H2	109.2°	109.5°
C3	C2	H2A	109.1°	109.5°
C2	C3	O4	118.7°	120.0°
C2	C3	O5	116.6°	120.0°
H2	C2	H2A	110.0°	109.5°
O4	C3	O5	124.6°	120.0°
C3	O5	HO5	109.5°	117.0°
P1	O1	HO1	109.5°	114.0°
O1	P1	O2	115.1°	109.4°
O1	P1	O3	109.4°	109.5°
O2	P1	O3	112.9°	109.5°
P1	O3	HO3	109.5°	114.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
P1	C1	N1	H1	120.0°	120.1°
P1	C1	N1	H1A	119.2°	120.0°
P1	C1	H1	H1A	119.3°	120.0°
P1	C1	N1	C2	179.4°	95.0°
C1	P1	O1	O2	114.5°	120.0°
C1	P1	O1	O3	117.1°	120.0°
C1	P1	O1	HO1	13.5°	60.1°
C1	P1	O2	O3	115.9°	120.0°
C1	P1	O3	HO3	137.4°	180.0°
P1	C1	N1	HN1	60.6°	141.0°
N1	C1	H1	H1A	119.3°	119.9°
C1	N1	C2	HN1	120.0°	124.0°
C1	N1	C2	C3	173.9°	180.0°
C1	N1	C2	H2	66.1°	60.0°
C1	N1	C2	H2A	54.2°	59.9°
N1	C1	P1	O1	23.3°	65.0°
N1	C1	P1	O2	145.6°	55.0°
N1	C1	P1	O3	94.8°	175.0°
H1	C1	N1	C2	59.4°	25.1°
H1	C1	P1	O1	96.7°	55.1°
H1	C1	P1	O2	25.6°	175.0°
H1	C1	P1	O3	145.1°	65.0°
H1	C1	N1	HN1	179.4°	98.9°
H1A	C1	N1	C2	61.3°	145.0°
H1A	C1	P1	O1	142.5°	175.0°
H1A	C1	P1	O2	95.2°	65.0°
H1A	C1	P1	O3	24.4°	55.0°
H1A	C1	N1	HN1	58.7°	21.0°
N1	C2	C3	H2	120.0°	119.9°
N1	C2	C3	H2A	119.7°	120.0°
N1	C2	H2	H2A	119.7°	119.9°
N1	C2	C3	O4	1.2°	0.0°
N1	C2	C3	O5	178.9°	180.0°
C3	C2	H2	H2A	119.7°	120.1°
C2	C3	O4	O5	179.9°	180.0°
C2	C3	O5	HO5	179.9°	180.0°
C3	C2	N1	HN1	53.9°	56.0°
H2	C2	C3	O4	118.8°	120.0°
H2	C2	C3	O5	61.1°	60.0°
H2	C2	N1	HN1	173.9°	64.0°
H2A	C2	C3	O4	120.9°	120.0°
H2A	C2	C3	O5	59.2°	60.0°
H2A	C2	N1	HN1	65.8°	176.0°
O4	C3	O5	HO5	0.0°	0.0°
O1	P1	O2	O3	126.6°	120.0°
O1	P1	O3	HO3	105.2°	60.0°
HO1	O1	P1	O2	128.0°	180.0°
HO1	O1	P1	O3	103.6°	60.0°
O2	P1	O3	HO3	24.3°	60.0°

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