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Summary Geometry Related PDB entries

A1EMK

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O1	C5	doub	1.21Å	0.00Å
N3	C4	sing	1.37Å	0.00Å
C5	O2	sing	1.34Å	0.00Å
C5	C1	sing	1.51Å	0.00Å
C2	N1	sing	1.46Å	0.00Å
C2	C1	sing	1.53Å	0.00Å
N1	C4	doub	1.29Å	0.00Å
C1	C3	sing	1.54Å	0.00Å
C3	N2	sing	1.47Å	0.00Å
C4	N2	sing	1.37Å	0.00Å
N3	H3	sing	0.97Å	0.00Å
N3	H4	sing	0.97Å	0.00Å
C1	H7	sing	1.09Å	0.00Å
C2	H8	sing	1.09Å	0.00Å
C2	H9	sing	1.09Å	0.00Å
C3	H10	sing	1.09Å	0.00Å
C3	H11	sing	1.09Å	0.00Å
N2	H12	sing	0.97Å	0.00Å
O2	H14	sing	0.97Å	0.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O1	C5	O2	90.0°	120.0°
O1	C5	C1	90.0°	120.0°
N3	C4	N1	90.0°	118.9°
N3	C4	N2	90.0°	118.9°
C4	N3	H3	90.0°	120.0°
C4	N3	H4	90.0°	120.0°
O2	C5	C1	90.0°	120.0°
C5	O2	H14	90.0°	117.0°
C5	C1	C2	90.0°	109.6°
C5	C1	C3	90.0°	109.6°
C5	C1	H7	90.0°	109.7°
N1	C2	C1	90.0°	110.6°
C2	N1	C4	90.0°	123.8°
N1	C2	H8	90.0°	109.2°
N1	C2	H9	90.0°	109.2°
C2	C1	C3	90.0°	108.4°
C2	C1	H7	90.0°	109.8°
C1	C2	H8	90.0°	109.3°
C1	C2	H9	90.0°	109.2°
N1	C4	N2	90.0°	122.2°
C1	C3	N2	90.0°	107.4°
C3	C1	H7	90.0°	109.7°
C1	C3	H10	90.0°	109.9°
C1	C3	H11	90.0°	109.9°
C3	N2	C4	90.0°	118.7°
N2	C3	H10	90.0°	109.9°
N2	C3	H11	90.0°	109.9°
C3	N2	H12	90.0°	120.7°
C4	N2	H12	90.0°	120.6°
H3	N3	H4	90.0°	120.0°
H8	C2	H9	90.0°	109.3°
H10	C3	H11	90.0°	109.9°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O1	C5	O2	C1	90.0°	179.9°
O1	C5	C1	C2	90.0°	119.0°
O1	C5	C1	C3	90.0°	0.1°
O1	C5	C1	H7	90.0°	120.4°
O1	C5	O2	H14	90.0°	0.0°
N3	C4	N1	C2	90.0°	179.0°
N3	C4	N1	N2	90.0°	179.9°
N3	C4	N2	C3	90.0°	167.1°
C4	N3	H3	H4	90.0°	180.0°
N3	C4	N2	H12	90.0°	12.9°
O2	C5	C1	C2	90.0°	61.1°
O2	C5	C1	C3	90.0°	180.0°
O2	C5	C1	H7	90.0°	59.5°
C5	C1	C2	N1	90.0°	169.1°
C5	C1	C2	C3	90.0°	119.7°
C5	C1	C2	H7	90.0°	120.5°
C5	C1	C3	H7	90.0°	120.5°
C5	C1	C3	N2	90.0°	179.1°
C5	C1	C2	H8	90.0°	48.8°
C5	C1	C2	H9	90.0°	70.7°
C5	C1	C3	H10	90.0°	59.6°
C5	C1	C3	H11	90.0°	61.5°
C1	C5	O2	H14	90.0°	180.0°
N1	C2	C1	H8	90.0°	120.3°
N1	C2	C1	H9	90.0°	120.2°
N1	C2	C1	C3	90.0°	49.4°
C2	N1	C4	N2	90.0°	0.9°
N1	C2	C1	H7	90.0°	70.4°
N1	C2	H8	H9	90.0°	119.5°
C1	C2	N1	C4	90.0°	20.8°
C2	C1	C3	H7	90.0°	119.9°
C2	C1	C3	N2	90.0°	59.4°
C1	C2	H8	H9	90.0°	119.5°
C2	C1	C3	H10	90.0°	60.0°
C2	C1	C3	H11	90.0°	178.9°
N1	C4	N2	C3	90.0°	12.9°
N1	C4	N3	H3	90.0°	0.1°
N1	C4	N3	H4	90.0°	180.0°
C4	N1	C2	H8	90.0°	99.5°
C4	N1	C2	H9	90.0°	141.0°
N1	C4	N2	H12	90.0°	167.2°
C1	C3	N2	H10	90.0°	119.5°
C1	C3	N2	H11	90.0°	119.4°
C1	C3	N2	C4	90.0°	42.3°
C3	C1	C2	H8	90.0°	70.9°
C3	C1	C2	H9	90.0°	169.7°
C1	C3	H10	H11	90.0°	121.0°
C1	C3	N2	H12	90.0°	137.7°
C3	N2	C4	H12	90.0°	180.0°
N2	C3	C1	H7	90.0°	60.4°
N2	C3	H10	H11	90.0°	121.0°
N2	C4	N3	H3	90.0°	180.0°
N2	C4	N3	H4	90.0°	0.0°
C4	N2	C3	H10	90.0°	77.2°
C4	N2	C3	H11	90.0°	161.8°
H7	C1	C2	H8	90.0°	169.4°
H7	C1	C2	H9	90.0°	49.9°
H7	C1	C3	H10	90.0°	179.9°
H7	C1	C3	H11	90.0°	59.0°
H10	C3	N2	H12	90.0°	102.8°
H11	C3	N2	H12	90.0°	18.3°

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PDB entries from 2026-05-27

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