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Summary Geometry Related PDB entries

Obsolete: 1PY

1PY was replaced with PPY on

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O1	C	doub	1.21Å	1.22Å
O2	C	sing	1.35Å	1.31Å
O2	HO2	sing	0.97Å	0.95Å
O	CA	doub	1.21Å	1.21Å
CA	CB	sing	1.51Å	1.48Å
CA	C	sing	1.49Å	1.51Å
CB	CG	sing	1.51Å	1.51Å
CB	HB1	sing	1.09Å	1.11Å
CB	HB2	sing	1.09Å	1.11Å
CG	CD1	doub	1.38Å	1.39Å	Aromatic
CG	CD2	sing	1.38Å	1.40Å	Aromatic
CD1	CE1	sing	1.38Å	1.40Å	Aromatic
CD1	HD1	sing	1.08Å	1.10Å
CE1	CZ	doub	1.38Å	1.40Å	Aromatic
CE1	HE1	sing	1.08Å	1.10Å
CZ	CE2	sing	1.38Å	1.40Å	Aromatic
CZ	HZ	sing	1.08Å	1.10Å
CE2	CD2	doub	1.38Å	1.40Å	Aromatic
CE2	HE2	sing	1.08Å	1.10Å
CD2	HD2	sing	1.08Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O1	C	O2	125.0°	120.0°
O1	C	CA	119.1°	120.0°
C	O2	HO2	125.0°	120.0°
O2	C	CA	115.8°	120.0°
O	CA	CB	120.6°	120.0°
O	CA	C	120.2°	120.0°
CB	CA	C	119.1°	120.0°
CA	CB	CG	110.0°	109.4°
CA	CB	HB1	112.0°	109.4°
CA	CB	HB2	112.0°	109.5°
CG	CB	HB1	112.0°	109.5°
CG	CB	HB2	112.0°	109.5°
CB	CG	CD1	118.6°	120.0°
CB	CG	CD2	122.8°	120.0°
HB1	CB	HB2	98.5°	109.5°
CD1	CG	CD2	118.5°	119.9°
CG	CD1	CE1	121.6°	120.0°
CG	CD1	HD1	119.2°	120.0°
CG	CD2	CE2	121.0°	120.1°
CG	CD2	HD2	119.4°	119.9°
CE1	CD1	HD1	119.2°	120.0°
CD1	CE1	CZ	119.2°	120.0°
CD1	CE1	HE1	120.2°	120.0°
CZ	CE1	HE1	120.7°	120.0°
CE1	CZ	CE2	120.1°	120.0°
CE1	CZ	HZ	120.1°	120.0°
CE2	CZ	HZ	119.7°	120.0°
CZ	CE2	CD2	119.5°	120.0°
CZ	CE2	HE2	120.1°	120.0°
CD2	CE2	HE2	120.3°	120.0°
CE2	CD2	HD2	119.6°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O1	C	O2	CA	176.7°	179.9°
O1	C	O2	HO2	179.9°	0.0°
O1	C	CA	O	145.2°	179.9°
O1	C	CA	CB	33.1°	0.1°
O2	C	CA	O	31.7°	0.1°
O2	C	CA	CB	149.9°	180.0°
HO2	O2	C	CA	3.2°	180.0°
O	CA	CB	C	178.3°	179.9°
O	CA	CB	CG	70.0°	0.1°
O	CA	CB	HB1	164.8°	120.0°
O	CA	CB	HB2	55.2°	120.0°
CA	CB	CG	HB1	125.2°	120.0°
CA	CB	CG	HB2	125.3°	120.1°
CA	CB	HB1	HB2	118.0°	120.0°
CA	CB	CG	CD1	67.3°	90.0°
CA	CB	CG	CD2	111.3°	90.4°
C	CA	CB	CG	108.3°	179.9°
C	CA	CB	HB1	16.9°	60.1°
C	CA	CB	HB2	126.4°	59.9°
CG	CB	HB1	HB2	117.9°	120.0°
CB	CG	CD1	CD2	178.7°	179.7°
CB	CG	CD1	CE1	179.4°	179.9°
CB	CG	CD1	HD1	0.6°	0.1°
CB	CG	CD2	CE2	179.4°	179.8°
CB	CG	CD2	HD2	0.6°	0.3°
HB1	CB	CG	CD1	57.9°	30.0°
HB1	CB	CG	CD2	123.5°	149.7°
HB2	CB	CG	CD1	167.4°	150.0°
HB2	CB	CG	CD2	14.0°	29.7°
CG	CD1	CE1	HD1	180.0°	180.0°
CG	CD1	CE1	CZ	1.5°	0.0°
CG	CD1	CE1	HE1	178.5°	179.9°
CD1	CG	CD2	CE2	2.0°	0.5°
CD1	CG	CD2	HD2	178.0°	180.0°
CD2	CG	CD1	CE1	1.9°	0.3°
CD2	CG	CD1	HD1	178.1°	179.7°
CG	CD2	CE2	CZ	1.7°	0.5°
CG	CD2	CE2	HD2	180.0°	179.5°
CG	CD2	CE2	HE2	178.3°	179.7°
CD1	CE1	CZ	HE1	180.0°	179.9°
CD1	CE1	CZ	CE2	1.2°	0.1°
CD1	CE1	CZ	HZ	178.8°	179.9°
HD1	CD1	CE1	CZ	178.5°	180.0°
HD1	CD1	CE1	HE1	1.5°	0.1°
CE1	CZ	CE2	HZ	180.0°	180.0°
CE1	CZ	CE2	CD2	1.2°	0.2°
CE1	CZ	CE2	HE2	178.8°	180.0°
HE1	CE1	CZ	CE2	178.8°	180.0°
HE1	CE1	CZ	HZ	1.2°	0.0°
CZ	CE2	CD2	HE2	180.0°	179.8°
CZ	CE2	CD2	HD2	178.3°	180.0°
HZ	CZ	CE2	CD2	178.7°	179.8°
HZ	CZ	CE2	HE2	1.3°	0.0°
HE2	CE2	CD2	HD2	1.6°	0.2°

222415

PDB entries from 2024-07-10

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