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Summary Geometry Related PDB entries

A1BD5

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O2	C7	doub	1.22Å	1.22Å
N3	C7	sing	1.34Å	1.36Å
N3	C4	sing	1.38Å	1.37Å
C7	N2	sing	1.34Å	1.37Å
N1	C4	doub	1.32Å	1.35Å	Aromatic
N1	C3	sing	1.32Å	1.33Å	Aromatic
C4	C5	sing	1.41Å	1.41Å	Aromatic
N2	C6	sing	1.35Å	1.37Å
C3	C2	doub	1.40Å	1.42Å	Aromatic
C5	C6	sing	1.47Å	1.46Å
C5	C1	doub	1.39Å	1.41Å	Aromatic
C6	O1	doub	1.22Å	1.21Å
C2	C1	sing	1.40Å	1.37Å	Aromatic
C2	C8	sing	1.48Å	1.50Å
O3	C8	doub	1.22Å	1.26Å
C8	O4	sing	1.35Å	1.25Å
N3	H1	sing	0.97Å	1.00Å
C1	H2	sing	1.08Å	1.08Å
C3	H3	sing	1.08Å	1.08Å
N2	H4	sing	0.97Å	1.00Å
O4	H5	sing	0.97Å	0.95Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O2	C7	N3	121.9°	118.5°
O2	C7	N2	121.7°	118.5°
C7	N3	C4	122.8°	120.9°
N3	C7	N2	116.4°	123.0°
C7	N3	H1	118.6°	119.5°
N3	C4	N1	117.2°	121.3°
N3	C4	C5	119.8°	118.4°
C4	N3	H1	118.6°	119.6°
C7	N2	C6	127.2°	121.0°
C7	N2	H4	116.4°	119.5°
C4	N1	C3	117.8°	121.8°
N1	C4	C5	122.9°	120.3°
N1	C3	C2	123.9°	121.3°
N1	C3	H3	118.0°	119.4°
C4	C5	C6	119.4°	118.5°
C4	C5	C1	117.2°	119.7°
N2	C6	C5	114.4°	118.2°
N2	C6	O1	120.6°	120.9°
C6	N2	H4	116.4°	119.5°
C3	C2	C1	117.4°	119.1°
C3	C2	C8	120.2°	120.4°
C2	C3	H3	118.0°	119.3°
C6	C5	C1	123.4°	121.8°
C5	C6	O1	125.0°	121.0°
C5	C1	C2	120.7°	117.8°
C5	C1	H2	119.6°	121.1°
C1	C2	C8	122.4°	120.4°
C2	C1	H2	119.7°	121.1°
C2	C8	O3	118.3°	120.0°
C2	C8	O4	117.6°	120.0°
O3	C8	O4	124.1°	120.0°
C8	O4	H5	109.5°	116.9°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O2	C7	N3	N2	179.8°	179.9°
O2	C7	N3	C4	179.3°	179.9°
O2	C7	N2	C6	179.9°	179.9°
O2	C7	N3	H1	0.7°	0.1°
O2	C7	N2	H4	0.1°	0.0°
C7	N3	C4	H1	180.0°	180.0°
C7	N3	C4	N1	179.1°	180.0°
C7	N3	C4	C5	0.8°	0.0°
N3	C7	N2	C6	0.1°	0.0°
N3	C7	N2	H4	179.9°	179.9°
C4	N3	C7	N2	0.9°	0.0°
N3	C4	N1	C5	179.9°	180.0°
N3	C4	N1	C3	179.5°	180.0°
N3	C4	C5	C6	0.2°	0.0°
N3	C4	C5	C1	179.9°	180.0°
C7	N2	C6	H4	180.0°	179.9°
C7	N2	C6	C5	0.7°	0.0°
C7	N2	C6	O1	180.0°	180.0°
N2	C7	N3	H1	179.1°	180.0°
C4	N1	C3	C2	0.2°	0.0°
N1	C4	C5	C6	180.0°	180.0°
N1	C4	C5	C1	0.2°	0.0°
N1	C4	N3	H1	0.9°	0.0°
C4	N1	C3	H3	179.8°	180.0°
C3	N1	C4	C5	0.4°	0.0°
N1	C3	C2	H3	180.0°	180.0°
N1	C3	C2	C1	0.6°	0.0°
N1	C3	C2	C8	179.9°	180.0°
C4	C5	C6	N2	0.8°	0.0°
C4	C5	C6	C1	179.8°	180.0°
C4	C5	C6	O1	179.9°	180.0°
C4	C5	C1	C2	1.0°	0.0°
C5	C4	N3	H1	179.2°	180.0°
C4	C5	C1	H2	179.0°	179.9°
N2	C6	C5	O1	179.2°	180.0°
N2	C6	C5	C1	179.4°	180.0°
C3	C2	C1	C5	1.2°	0.0°
C3	C2	C1	C8	179.6°	180.0°
C3	C2	C8	O3	23.1°	180.0°
C3	C2	C8	O4	157.7°	0.0°
C3	C2	C1	H2	178.8°	179.9°
C6	C5	C1	C2	179.2°	180.0°
C6	C5	C1	H2	0.8°	0.1°
C5	C6	N2	H4	179.2°	179.9°
C1	C5	C6	O1	0.2°	0.0°
C5	C1	C2	H2	180.0°	179.9°
C5	C1	C2	C8	179.3°	180.0°
O1	C6	N2	H4	0.0°	0.1°
C1	C2	C8	O3	157.4°	0.0°
C1	C2	C8	O4	21.9°	180.0°
C1	C2	C3	H3	179.4°	180.0°
C2	C8	O3	O4	179.2°	180.0°
C8	C2	C1	H2	0.7°	0.1°
C8	C2	C3	H3	0.1°	0.0°
C2	C8	O4	H5	179.2°	179.9°
O3	C8	O4	H5	0.0°	0.1°

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PDB entries from 2026-01-21

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