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Summary Geometry Related PDB entries

1MJ

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
O11	C10	doub	1.21Å	1.20Å
C10	C08	sing	1.47Å	1.48Å
C07	C08	doub	1.40Å	1.41Å	Aromatic
C07	N06	sing	1.31Å	1.34Å	Aromatic
C08	C09	sing	1.40Å	1.39Å	Aromatic
N06	C05	doub	1.33Å	1.34Å	Aromatic
C09	C04	doub	1.39Å	1.40Å	Aromatic
C05	C04	sing	1.41Å	1.40Å	Aromatic
C05	C01	sing	1.42Å	1.40Å	Aromatic
C04	N03	sing	1.38Å	1.32Å	Aromatic
C01	C02	doub	1.35Å	1.38Å	Aromatic
N03	C02	sing	1.36Å	1.35Å	Aromatic
C01	H1	sing	1.08Å	1.08Å
C02	H2	sing	1.08Å	1.08Å
N03	H3	sing	0.97Å	1.00Å
C07	H4	sing	1.08Å	1.08Å
C09	H5	sing	1.08Å	1.08Å
C10	H7	sing	1.08Å	1.08Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
O11	C10	C08	119.2°	120.0°
O11	C10	H7	120.4°	120.0°
C10	C08	C07	122.0°	120.4°
C10	C08	C09	120.2°	120.4°
C08	C10	H7	120.4°	120.0°
C08	C07	N06	121.6°	121.1°
C07	C08	C09	117.7°	119.2°
C08	C07	H4	119.2°	119.5°
C07	N06	C05	120.5°	121.7°
N06	C07	H4	119.2°	119.4°
C08	C09	C04	120.5°	118.2°
C08	C09	H5	119.8°	120.9°
N06	C05	C04	121.7°	120.5°
N06	C05	C01	132.4°	133.1°
C09	C04	C05	118.0°	119.3°
C09	C04	N03	132.4°	133.6°
C04	C09	H5	119.7°	120.9°
C04	C05	C01	105.9°	106.3°
C05	C04	N03	109.7°	107.1°
C05	C01	C02	106.4°	108.0°
C05	C01	H1	126.8°	126.0°
C04	N03	C02	108.5°	108.8°
C04	N03	H3	125.7°	125.6°
C01	C02	N03	109.5°	109.7°
C02	C01	H1	126.8°	126.0°
C01	C02	H2	125.2°	125.1°
N03	C02	H2	125.3°	125.2°
C02	N03	H3	125.7°	125.6°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
O11	C10	C08	H7	180.0°	180.0°
O11	C10	C08	C07	57.5°	180.0°
O11	C10	C08	C09	123.7°	0.2°
C10	C08	C07	C09	178.9°	179.9°
C10	C08	C07	N06	179.1°	180.0°
C10	C08	C09	C04	179.2°	179.9°
C10	C08	C07	H4	0.9°	0.2°
C10	C08	C09	H5	0.8°	0.2°
C08	C07	N06	H4	180.0°	179.8°
C08	C07	N06	C05	0.0°	0.0°
C07	C08	C09	C04	0.3°	0.3°
C07	C08	C09	H5	179.7°	180.0°
C07	C08	C10	H7	122.5°	0.0°
N06	C07	C08	C09	0.2°	0.1°
C07	N06	C05	C04	0.1°	0.0°
C07	N06	C05	C01	179.8°	179.6°
C08	C09	C04	H5	180.0°	179.7°
C08	C09	C04	C05	0.1°	0.3°
C08	C09	C04	N03	180.0°	180.0°
C09	C08	C07	H4	179.8°	180.0°
C09	C08	C10	H7	56.4°	179.9°
N06	C05	C04	C09	0.1°	0.1°
N06	C05	C04	C01	179.7°	179.7°
N06	C05	C04	N03	179.9°	180.0°
N06	C05	C01	C02	179.9°	180.0°
N06	C05	C01	H1	0.1°	0.3°
C05	N06	C07	H4	180.0°	179.8°
C09	C04	C05	N03	179.9°	179.8°
C09	C04	C05	C01	179.8°	179.8°
C09	C04	N03	C02	180.0°	180.0°
C09	C04	N03	H3	0.0°	0.0°
C04	C05	C01	C02	0.2°	0.4°
C05	C04	N03	C02	0.0°	0.2°
C04	C05	C01	H1	179.8°	179.9°
C05	C04	N03	H3	180.0°	179.8°
C05	C04	C09	H5	179.9°	180.0°
C01	C05	C04	N03	0.1°	0.4°
C05	C01	C02	H1	180.0°	179.7°
C05	C01	C02	N03	0.3°	0.2°
C05	C01	C02	H2	179.8°	179.8°
C04	N03	C02	C01	0.2°	0.0°
C04	N03	C02	H3	180.0°	179.9°
C04	N03	C02	H2	179.8°	180.0°
N03	C04	C09	H5	0.0°	0.2°
C01	C02	N03	H2	180.0°	180.0°
C01	C02	N03	H3	179.8°	179.9°
N03	C02	C01	H1	179.7°	179.9°
H1	C01	C02	H2	0.2°	0.1°
H2	C02	N03	H3	0.2°	0.1°

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PDB entries from 2024-09-11

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