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Summary Geometry Related PDB entries

4VI

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
N	CA	doub	1.28Å	1.25Å
O	C	doub	1.21Å	1.25Å
CA	C	sing	1.48Å	1.53Å
CA	CB	sing	1.51Å	1.53Å
CG	CB	sing	1.51Å	1.52Å
CG	CD	doub	1.32Å	1.31Å
C	OXT	sing	1.35Å	1.26Å
NE	CD	sing	1.39Å	1.45Å
NE	CZ	sing	1.38Å	1.45Å
NH1	CZ	doub	1.30Å	1.45Å
CZ	NH2	sing	1.38Å	1.25Å
CD	HD2	sing	1.08Å	1.08Å
CG	HG2	sing	1.08Å	1.08Å
CB	HB2	sing	1.09Å	1.10Å
CB	HB3	sing	1.09Å	1.10Å
NH1	HH11	sing	0.97Å	1.00Å
N	H	sing	0.97Å	1.00Å
NH2	HH21	sing	0.97Å	1.00Å
NH2	HH22	sing	0.97Å	1.00Å
OXT	HXT	sing	0.97Å	0.95Å
NE	H1	sing	0.97Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
N	CA	C	119.8°	120.0°
N	CA	CB	120.3°	120.0°
CA	N	H	112.0°	120.0°
O	C	CA	120.2°	120.0°
O	C	OXT	119.0°	120.0°
C	CA	CB	119.9°	120.0°
CA	C	OXT	120.8°	120.0°
CA	CB	CG	114.4°	109.5°
CA	CB	HB2	108.2°	109.4°
CA	CB	HB3	108.2°	109.5°
CB	CG	CD	119.4°	120.0°
CB	CG	HG2	120.3°	120.0°
CG	CB	HB2	108.2°	109.4°
CG	CB	HB3	108.2°	109.5°
CG	CD	NE	118.8°	120.0°
CG	CD	HD2	120.7°	120.0°
CD	CG	HG2	120.3°	120.0°
C	OXT	HXT	109.5°	117.0°
CD	NE	CZ	119.9°	120.0°
NE	CD	HD2	120.6°	120.0°
CD	NE	H1	120.0°	120.0°
NE	CZ	NH1	119.5°	120.0°
NE	CZ	NH2	120.2°	120.0°
CZ	NE	H1	120.0°	120.0°
NH1	CZ	NH2	120.3°	120.0°
CZ	NH1	HH11	112.0°	120.0°
CZ	NH2	HH21	120.0°	120.0°
CZ	NH2	HH22	120.0°	120.0°
HB2	CB	HB3	109.5°	109.5°
HH21	NH2	HH22	120.0°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
N	CA	C	O	0.0°	180.0°
N	CA	C	CB	179.5°	180.0°
N	CA	CB	CG	35.9°	0.0°
N	CA	C	OXT	179.9°	0.1°
N	CA	CB	HB2	84.8°	120.0°
N	CA	CB	HB3	156.6°	120.0°
O	C	CA	OXT	179.8°	179.9°
O	C	CA	CB	179.5°	0.0°
O	C	OXT	HXT	0.0°	0.1°
C	CA	CB	CG	144.6°	180.0°
C	CA	CB	HB2	94.7°	60.0°
C	CA	CB	HB3	23.8°	60.0°
C	CA	N	H	179.5°	180.0°
CA	C	OXT	HXT	179.8°	180.0°
CA	CB	CG	HB2	120.7°	119.9°
CA	CB	CG	HB3	120.7°	120.0°
CA	CB	CG	CD	170.3°	125.0°
CB	CA	C	OXT	0.3°	179.9°
CA	CB	CG	HG2	9.7°	54.9°
CA	CB	HB2	HB3	117.7°	120.0°
CB	CA	N	H	0.0°	0.0°
CB	CG	CD	HG2	180.0°	179.9°
CB	CG	CD	NE	178.9°	180.0°
CB	CG	CD	HD2	1.1°	0.1°
CG	CB	HB2	HB3	117.8°	120.0°
CG	CD	NE	HD2	180.0°	180.0°
CG	CD	NE	CZ	173.5°	180.0°
CD	CG	CB	HB2	49.6°	115.1°
CD	CG	CB	HB3	69.0°	5.0°
CG	CD	NE	H1	6.5°	0.0°
CD	NE	CZ	H1	180.0°	180.0°
CD	NE	CZ	NH1	179.3°	0.3°
CD	NE	CZ	NH2	0.8°	180.0°
NE	CD	CG	HG2	1.1°	0.0°
NE	CZ	NH1	NH2	179.9°	179.7°
CZ	NE	CD	HD2	6.5°	0.0°
NE	CZ	NH1	HH11	180.0°	179.7°
NE	CZ	NH2	HH21	179.9°	179.7°
NE	CZ	NH2	HH22	0.0°	0.3°
NH1	CZ	NH2	HH21	0.0°	0.0°
NH1	CZ	NH2	HH22	180.0°	180.0°
NH1	CZ	NE	H1	0.7°	179.7°
NH2	CZ	NH1	HH11	0.0°	0.0°
CZ	NH2	HH21	HH22	180.0°	179.9°
NH2	CZ	NE	H1	179.2°	0.0°
HD2	CD	CG	HG2	178.9°	180.0°
HD2	CD	NE	H1	173.5°	180.0°
HG2	CG	CB	HB2	130.4°	65.0°
HG2	CG	CB	HB3	111.0°	175.0°

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PDB entries from 2024-10-09

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