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Summary Geometry Related PDB entries

Obsolete: HII

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C	O	doub	1.21Å	1.24Å
C	CA	sing	1.51Å	1.54Å
C	H	sing	1.08Å	1.10Å
CA	CN	sing	1.53Å	1.55Å
CA	CB	sing	1.53Å	1.53Å
CA	HA	sing	1.09Å	1.12Å
CN	HN1	sing	1.09Å	1.12Å
CN	HN2	sing	1.09Å	1.12Å
CN	HN3	sing	1.09Å	1.11Å
CB	CG	sing	1.51Å	1.54Å
CB	HB1	sing	1.09Å	1.12Å
CB	HB2	sing	1.09Å	1.11Å
CG	CD2	doub	1.35Å	1.32Å	Aromatic
CG	ND1	sing	1.32Å	1.33Å	Aromatic
CD2	SE2	sing	1.79Å	1.78Å	Aromatic
CD2	HD2	sing	1.08Å	1.10Å
SE2	CE1	sing	1.74Å	1.78Å	Aromatic
CE1	ND1	doub	1.32Å	1.25Å	Aromatic
CE1	NZ	sing	1.39Å	1.28Å
NZ	HNZ1	sing	0.97Å	1.02Å
NZ	HNZ2	sing	0.97Å	1.02Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O	C	CA	119.3°	120.1°
O	C	H	109.7°	120.0°
CA	C	H	131.0°	120.0°
C	CA	CN	104.6°	109.4°
C	CA	CB	111.2°	109.5°
C	CA	HA	111.7°	109.4°
CN	CA	CB	109.8°	109.5°
CN	CA	HA	113.0°	109.4°
CA	CN	HN1	104.7°	109.5°
CA	CN	HN2	114.0°	109.5°
CA	CN	HN3	114.1°	109.5°
CB	CA	HA	106.7°	109.5°
CA	CB	CG	109.8°	109.5°
CA	CB	HB1	112.1°	109.5°
CA	CB	HB2	112.1°	109.4°
HN1	CN	HN2	114.0°	109.4°
HN1	CN	HN3	114.0°	109.4°
HN2	CN	HN3	96.4°	109.5°
CG	CB	HB1	112.1°	109.5°
CG	CB	HB2	112.1°	109.4°
CB	CG	CD2	122.7°	120.7°
CB	CG	ND1	122.4°	120.8°
HB1	CB	HB2	98.3°	109.5°
CD2	CG	ND1	114.9°	118.5°
CG	CD2	SE2	112.0°	100.7°
CG	CD2	HD2	111.6°	129.7°
CG	ND1	CE1	112.9°	121.2°
SE2	CD2	HD2	136.4°	129.6°
CD2	SE2	CE1	83.7°	97.5°
SE2	CE1	ND1	116.2°	102.1°
SE2	CE1	NZ	121.2°	128.9°
ND1	CE1	NZ	122.3°	129.0°
CE1	NZ	HNZ1	121.1°	120.0°
CE1	NZ	HNZ2	108.0°	120.0°
HNZ1	NZ	HNZ2	108.0°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O	C	CA	H	180.0°	179.9°
O	C	CA	CN	77.7°	120.0°
O	C	CA	CB	40.7°	120.0°
O	C	CA	HA	159.7°	0.1°
C	CA	CN	CB	119.4°	120.1°
C	CA	CN	HA	121.7°	119.9°
C	CA	CB	HA	122.0°	120.0°
C	CA	CN	HN1	180.0°	60.1°
C	CA	CN	HN2	54.8°	180.0°
C	CA	CN	HN3	54.7°	59.9°
C	CA	CB	CG	89.5°	180.0°
C	CA	CB	HB1	145.2°	60.0°
C	CA	CB	HB2	35.7°	60.0°
H	C	CA	CN	102.3°	60.1°
H	C	CA	CB	139.3°	59.9°
H	C	CA	HA	20.3°	180.0°
CN	CA	CB	HA	122.8°	120.0°
CA	CN	HN1	HN2	125.2°	120.0°
CA	CN	HN1	HN3	125.3°	120.1°
CA	CN	HN2	HN3	120.0°	120.1°
CN	CA	CB	CG	155.2°	60.0°
CN	CA	CB	HB1	29.9°	60.0°
CN	CA	CB	HB2	79.5°	180.0°
CB	CA	CN	HN1	60.6°	60.0°
CB	CA	CN	HN2	174.2°	60.0°
CB	CA	CN	HN3	64.7°	180.0°
CA	CB	CG	HB1	125.2°	120.0°
CA	CB	CG	HB2	125.2°	120.0°
CA	CB	HB1	HB2	118.0°	120.0°
CA	CB	CG	CD2	98.2°	120.0°
CA	CB	CG	ND1	83.5°	60.2°
HA	CA	CN	HN1	58.3°	180.0°
HA	CA	CN	HN2	66.9°	60.0°
HA	CA	CN	HN3	176.4°	60.0°
HA	CA	CB	CG	32.4°	60.0°
HA	CA	CB	HB1	92.9°	NaN°
HA	CA	CB	HB2	157.7°	60.0°
HN1	CN	HN2	HN3	119.9°	119.9°
CG	CB	HB1	HB2	118.1°	120.0°
CB	CG	CD2	ND1	178.4°	179.8°
CB	CG	CD2	SE2	179.6°	180.0°
CB	CG	CD2	HD2	0.5°	0.0°
CB	CG	ND1	CE1	176.0°	179.8°
HB1	CB	CG	CD2	136.6°	0.0°
HB1	CB	CG	ND1	41.7°	179.7°
HB2	CB	CG	CD2	27.1°	120.0°
HB2	CB	CG	ND1	151.3°	59.7°
CG	CD2	SE2	HD2	180.0°	180.0°
CG	CD2	SE2	CE1	3.0°	0.0°
CD2	CG	ND1	CE1	2.4°	0.5°
ND1	CG	CD2	SE2	1.2°	0.2°
ND1	CG	CD2	HD2	178.9°	179.8°
CG	ND1	CE1	SE2	5.1°	0.4°
CG	ND1	CE1	NZ	179.1°	179.8°
CD2	SE2	CE1	ND1	4.6°	0.2°
CD2	SE2	CE1	NZ	178.7°	180.0°
HD2	CD2	SE2	CE1	177.0°	180.0°
SE2	CE1	ND1	NZ	174.0°	179.8°
SE2	CE1	NZ	HNZ1	180.0°	0.0°
SE2	CE1	NZ	HNZ2	54.8°	180.0°
ND1	CE1	NZ	HNZ1	6.2°	179.7°
ND1	CE1	NZ	HNZ2	119.0°	0.2°
CE1	NZ	HNZ1	HNZ2	125.2°	180.0°

222415

PDB entries from 2024-07-10

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