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Summary Geometry Related PDB entries

9U1

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O4	C3	doub	1.22Å	1.24Å
N5	C3	sing	1.35Å	1.33Å
C3	N2	sing	1.34Å	1.39Å
N2	C1	doub	1.32Å	1.34Å
N7	C1	sing	1.36Å	1.33Å
C1	N6	sing	1.36Å	1.33Å
N5	H2	sing	0.97Å	1.00Å
N5	H3	sing	0.97Å	1.00Å
N6	H4	sing	0.97Å	1.00Å
N6	H5	sing	0.97Å	1.00Å
N7	H6	sing	0.97Å	1.00Å
N7	H1	sing	0.97Å	1.00Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O4	C3	N5	124.1°	120.0°
O4	C3	N2	124.2°	120.0°
N5	C3	N2	111.7°	120.0°
C3	N5	H2	120.0°	120.0°
C3	N5	H3	120.0°	120.0°
C3	N2	C1	118.5°	120.0°
N2	C1	N7	121.1°	120.0°
N2	C1	N6	121.0°	120.0°
N7	C1	N6	117.9°	120.0°
C1	N7	H6	120.0°	120.0°
C1	N7	H1	120.0°	120.0°
C1	N6	H4	120.0°	120.0°
C1	N6	H5	120.0°	120.0°
H2	N5	H3	120.0°	120.0°
H4	N6	H5	120.0°	120.0°
H6	N7	H1	120.0°	120.0°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O4	C3	N5	N2	179.9°	180.0°
O4	C3	N2	C1	47.5°	107.5°
O4	C3	N5	H2	0.0°	179.9°
O4	C3	N5	H3	180.0°	0.0°
N5	C3	N2	C1	132.4°	72.5°
C3	N5	H2	H3	180.0°	179.9°
C3	N2	C1	N7	0.3°	177.1°
C3	N2	C1	N6	179.9°	3.1°
N2	C3	N5	H2	179.9°	0.0°
N2	C3	N5	H3	0.1°	180.0°
N2	C1	N7	N6	179.8°	179.8°
N2	C1	N6	H4	179.8°	6.6°
N2	C1	N6	H5	0.2°	173.4°
N2	C1	N7	H6	179.8°	179.7°
N2	C1	N7	H1	0.2°	0.2°
N7	C1	N6	H4	0.0°	173.6°
N7	C1	N6	H5	180.0°	6.4°
C1	N7	H6	H1	180.0°	179.9°
C1	N6	H4	H5	180.0°	180.0°
N6	C1	N7	H6	0.0°	0.1°
N6	C1	N7	H1	180.0°	180.0°

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PDB entries from 2026-01-28

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