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Summary Geometry Related PDB entries

VZQ

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C5	C4	doub	1.38Å	1.39Å	Aromatic
C5	C6	sing	1.40Å	1.37Å	Aromatic
C4	C3	sing	1.38Å	1.34Å	Aromatic
O2	C9	doub	1.21Å	1.08Å
C9	C6	sing	1.48Å	1.44Å
C9	O3	sing	1.35Å	1.09Å
C6	C7	doub	1.40Å	1.21Å	Aromatic
C3	C2	sing	1.51Å	1.44Å
C3	C8	doub	1.38Å	1.27Å	Aromatic
O1	C2	sing	1.45Å	1.36Å
O1	C1	sing	1.34Å	1.41Å
O	C1	doub	1.21Å	1.09Å
C7	C8	sing	1.38Å	1.29Å	Aromatic
C1	C	sing	1.51Å	1.42Å
C7	H1	sing	1.08Å	1.08Å
C8	H2	sing	1.08Å	1.08Å
C5	H3	sing	1.08Å	1.08Å
C4	H4	sing	1.08Å	1.08Å
O3	H5	sing	0.97Å	0.95Å
C2	H6	sing	1.09Å	1.10Å
C2	H7	sing	1.09Å	1.10Å
C	H8	sing	1.09Å	1.10Å
C	H9	sing	1.09Å	1.10Å
C	H10	sing	1.09Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C4	C5	C6	118.1°	119.8°
C5	C4	C3	116.3°	120.1°
C4	C5	H3	120.9°	120.1°
C5	C4	H4	121.8°	119.9°
C5	C6	C9	123.0°	120.1°
C5	C6	C7	119.7°	119.7°
C6	C5	H3	120.9°	120.1°
C4	C3	C2	129.2°	119.8°
C4	C3	C8	120.1°	120.3°
C3	C4	H4	121.9°	120.0°
O2	C9	C6	112.7°	120.0°
O2	C9	O3	122.9°	120.0°
C6	C9	O3	124.4°	120.0°
C9	C6	C7	117.3°	120.1°
C9	O3	H5	109.5°	117.0°
C6	C7	C8	123.2°	119.8°
C6	C7	H1	118.4°	120.1°
C2	C3	C8	110.6°	119.9°
C3	C2	O1	125.8°	109.4°
C3	C2	H6	105.3°	109.4°
C3	C2	H7	105.3°	109.5°
C3	C8	C7	122.5°	120.1°
C3	C8	H2	118.7°	119.9°
C2	O1	C1	124.6°	117.0°
O1	C2	H6	105.3°	109.5°
O1	C2	H7	105.3°	109.5°
O1	C1	O	113.6°	120.0°
O1	C1	C	134.3°	120.0°
O	C1	C	110.2°	120.0°
C8	C7	H1	118.4°	120.1°
C7	C8	H2	118.7°	119.9°
C1	C	H8	109.5°	109.5°
C1	C	H9	109.5°	109.4°
C1	C	H10	109.4°	109.5°
H6	C2	H7	109.5°	109.5°
H8	C	H9	109.4°	109.5°
H8	C	H10	109.5°	109.5°
H9	C	H10	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C4	C5	C6	H3	180.0°	179.2°
C5	C4	C3	H4	180.0°	179.2°
C4	C5	C6	C9	179.4°	179.4°
C4	C5	C6	C7	0.9°	0.6°
C5	C4	C3	C2	179.1°	180.0°
C5	C4	C3	C8	0.2°	0.5°
C6	C5	C4	C3	0.2°	0.8°
C5	C6	C9	O2	18.4°	0.0°
C5	C6	C9	C7	179.7°	180.0°
C5	C6	C9	O3	162.7°	180.0°
C5	C6	C7	C8	1.2°	0.0°
C5	C6	C7	H1	178.8°	179.7°
C6	C5	C4	H4	179.8°	180.0°
C4	C3	C2	C8	179.0°	179.5°
C4	C3	C2	O1	25.7°	90.0°
C4	C3	C8	C7	0.1°	0.1°
C4	C3	C8	H2	180.0°	180.0°
C3	C4	C5	H3	179.7°	180.0°
C4	C3	C2	H6	96.5°	29.9°
C4	C3	C2	H7	147.9°	150.0°
O2	C9	C6	O3	178.9°	180.0°
O2	C9	C6	C7	161.4°	180.0°
O2	C9	O3	H5	0.0°	0.0°
C9	C6	C7	C8	179.1°	180.0°
C9	C6	C7	H1	0.9°	0.3°
C9	C6	C5	H3	0.6°	0.3°
C6	C9	O3	H5	178.8°	180.0°
O3	C9	C6	C7	17.5°	0.0°
C6	C7	C8	C3	0.8°	0.3°
C6	C7	C8	H1	180.0°	179.7°
C6	C7	C8	H2	179.3°	179.8°
C7	C6	C5	H3	179.1°	179.7°
C3	C2	O1	H6	122.2°	119.9°
C3	C2	O1	H7	122.2°	120.0°
C3	C2	O1	C1	151.4°	180.0°
C2	C3	C8	C7	179.1°	179.4°
C2	C3	C8	H2	0.9°	0.5°
C2	C3	C4	H4	0.9°	0.8°
C3	C2	H6	H7	112.7°	120.0°
C8	C3	C2	O1	153.4°	89.5°
C3	C8	C7	H2	180.0°	179.9°
C3	C8	C7	H1	179.2°	180.0°
C8	C3	C4	H4	179.8°	179.7°
C8	C3	C2	H6	84.5°	150.6°
C8	C3	C2	H7	31.2°	30.5°
C2	O1	C1	O	137.1°	0.1°
C2	O1	C1	C	24.9°	180.0°
O1	C2	H6	H7	112.7°	120.1°
O1	C1	O	C	166.4°	179.9°
C1	O1	C2	H6	86.4°	60.1°
C1	O1	C2	H7	29.2°	60.0°
O1	C1	C	H8	162.4°	60.1°
O1	C1	C	H9	42.5°	180.0°
O1	C1	C	H10	77.6°	60.0°
O	C1	C	H8	0.0°	120.0°
O	C1	C	H9	120.0°	0.1°
O	C1	C	H10	120.0°	119.9°
C1	C	H8	H9	120.0°	120.0°
C1	C	H8	H10	120.0°	120.0°
C1	C	H9	H10	120.0°	120.0°
H1	C7	C8	H2	0.7°	0.0°
H3	C5	C4	H4	0.2°	0.8°
H8	C	H9	H10	120.0°	120.0°

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PDB entries from 2024-08-07

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