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Summary Geometry Related PDB entries

A1AJZ

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C	C1	sing	1.51Å	1.49Å
C1	N	sing	1.37Å	1.34Å
N	N1	sing	1.40Å	1.39Å
N1	C2	sing	1.35Å	1.35Å
C2	O	doub	1.22Å	1.23Å
C3	C2	sing	1.41Å	1.46Å
C1	C3	doub	1.35Å	1.39Å
C4	C3	sing	1.51Å	1.50Å
C5	C4	sing	1.53Å	1.50Å
O1	C5	sing	1.43Å	1.42Å
N1	H1	sing	0.97Å	1.00Å
C4	H5	sing	1.09Å	1.10Å
C4	H6	sing	1.09Å	1.10Å
C5	H7	sing	1.09Å	1.10Å
C5	H8	sing	1.09Å	1.10Å
N	H	sing	0.97Å	1.00Å
C	H2	sing	1.09Å	1.10Å
C	H4	sing	1.09Å	1.10Å
C	H3	sing	1.09Å	1.10Å
O1	H9	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C	C1	N	121.3°	125.7°
C	C1	C3	130.7°	125.8°
C1	C	H2	109.5°	109.6°
C1	C	H4	109.5°	109.4°
C1	C	H3	109.5°	109.5°
C1	N	N1	110.4°	108.2°
N	C1	C3	107.9°	108.4°
C1	N	H	109.3°	125.9°
N	N1	C2	108.4°	107.7°
N	N1	H1	125.8°	126.1°
N1	N	H	109.2°	125.9°
N1	C2	O	124.2°	126.2°
N1	C2	C3	106.6°	107.6°
C2	N1	H1	125.8°	126.2°
O	C2	C3	129.1°	126.2°
C2	C3	C1	106.6°	108.1°
C2	C3	C4	121.9°	126.0°
C1	C3	C4	131.4°	126.0°
C3	C4	C5	112.8°	109.5°
C3	C4	H5	108.6°	109.4°
C3	C4	H6	108.6°	109.5°
C4	C5	O1	110.6°	109.5°
C5	C4	H5	108.6°	109.5°
C5	C4	H6	108.6°	109.4°
C4	C5	H7	109.2°	109.5°
C4	C5	H8	109.2°	109.5°
O1	C5	H7	109.2°	109.4°
O1	C5	H8	109.2°	109.5°
C5	O1	H9	109.5°	114.0°
H5	C4	H6	109.5°	109.5°
H7	C5	H8	109.5°	109.4°
H2	C	H4	109.4°	109.5°
H2	C	H3	109.5°	109.4°
H4	C	H3	109.5°	109.4°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C	C1	N	C3	178.8°	179.8°
C	C1	N	N1	178.3°	179.9°
C	C1	C3	C2	177.9°	179.8°
C	C1	C3	C4	4.1°	0.2°
C	C1	N	H	58.2°	0.1°
C1	C	H2	H4	120.0°	120.0°
C1	C	H2	H3	120.0°	120.1°
C1	C	H4	H3	120.0°	120.0°
C1	N	N1	H	120.2°	179.9°
C1	N	N1	C2	0.0°	0.0°
N	C1	C3	C2	0.8°	0.4°
N	C1	C3	C4	177.2°	180.0°
C1	N	N1	H1	180.0°	179.8°
N	C1	C	H2	180.0°	0.0°
N	C1	C	H4	60.0°	120.0°
N	C1	C	H3	60.0°	120.0°
N	N1	C2	H1	180.0°	179.8°
N	N1	C2	O	177.7°	179.8°
N	N1	C2	C3	0.5°	0.2°
N1	N	C1	C3	0.5°	0.3°
N1	C2	O	C3	177.8°	180.0°
N1	C2	C3	C1	0.8°	0.4°
N1	C2	C3	C4	177.4°	180.0°
C2	N1	N	H	120.2°	179.9°
O	C2	C3	C1	177.3°	179.6°
O	C2	C3	C4	4.5°	0.0°
O	C2	N1	H1	2.3°	0.0°
C2	C3	C1	C4	178.0°	179.6°
C2	C3	C4	C5	69.6°	85.0°
C3	C2	N1	H1	179.5°	180.0°
C2	C3	C4	H5	51.0°	155.0°
C2	C3	C4	H6	169.9°	35.0°
C1	C3	C4	C5	112.7°	95.5°
C1	C3	C4	H5	126.8°	24.5°
C1	C3	C4	H6	7.8°	144.5°
C3	C1	N	H	120.7°	179.8°
C3	C1	C	H2	1.5°	179.7°
C3	C1	C	H4	121.4°	59.7°
C3	C1	C	H3	118.5°	60.2°
C3	C4	C5	H5	120.5°	120.0°
C3	C4	C5	H6	120.5°	120.0°
C3	C4	C5	O1	118.2°	180.0°
C3	C4	H5	H6	118.5°	120.0°
C3	C4	C5	H7	121.6°	60.0°
C3	C4	C5	H8	2.0°	60.0°
C4	C5	O1	H7	120.2°	120.0°
C4	C5	O1	H8	120.2°	120.1°
C5	C4	H5	H6	118.4°	120.0°
C4	C5	H7	H8	119.5°	120.0°
C4	C5	O1	H9	180.0°	180.0°
O1	C5	C4	H5	2.3°	60.0°
O1	C5	C4	H6	121.3°	60.0°
O1	C5	H7	H8	119.5°	119.9°
H1	N1	N	H	59.8°	0.1°
H5	C4	C5	H7	117.9°	60.0°
H5	C4	C5	H8	122.5°	180.0°
H6	C4	C5	H7	1.1°	180.0°
H6	C4	C5	H8	118.5°	60.0°
H7	C5	O1	H9	59.9°	59.9°
H8	C5	O1	H9	59.8°	60.0°
H2	C	H4	H3	120.0°	119.9°

248335

PDB entries from 2026-01-28

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