English 日本語简体中文繁體中文 한국어

✖

Menu

RCSB PDB PDBe BMRB Adv. Search Search help

Summary Geometry Related PDB entries

VZY

Bonds

First atom	Second atom	Bond order type	Distance (experimental model)	Distance (ideal model)	Properties
C3	C2	doub	1.38Å	1.39Å	Aromatic
C3	C4	sing	1.38Å	1.38Å	Aromatic
C2	C1	sing	1.38Å	1.39Å	Aromatic
C4	C5	doub	1.40Å	1.39Å	Aromatic
C1	C	sing	1.51Å	1.50Å
C1	C6	doub	1.38Å	1.38Å	Aromatic
C5	C6	sing	1.40Å	1.39Å	Aromatic
C5	C7	sing	1.48Å	1.49Å
O	C7	doub	1.22Å	1.22Å
C7	N	sing	1.35Å	1.34Å
N	C8	sing	1.46Å	1.45Å
C8	C9	sing	1.51Å	1.51Å
C9	O2	doub	1.21Å	1.30Å
C9	O1	sing	1.34Å	1.22Å
C4	H1	sing	1.08Å	1.08Å
C6	H2	sing	1.08Å	1.08Å
C8	H3	sing	1.09Å	1.10Å
C8	H4	sing	1.09Å	1.10Å
O1	H5	sing	0.97Å	0.95Å
N	H6	sing	0.97Å	1.00Å
C3	H7	sing	1.08Å	1.08Å
C2	H8	sing	1.08Å	1.08Å
C	H9	sing	1.09Å	1.10Å
C	H10	sing	1.09Å	1.10Å
C	H11	sing	1.09Å	1.10Å

Angles

First atom	Second atom	Third atom	Angle (experimental model)	Angle (ideal model)
C2	C3	C4	119.6°	120.1°
C3	C2	C1	121.2°	120.3°
C2	C3	H7	120.2°	119.9°
C3	C2	H8	119.4°	119.8°
C3	C4	C5	120.0°	119.8°
C3	C4	H1	120.0°	120.1°
C4	C3	H7	120.2°	119.9°
C2	C1	C	121.0°	119.9°
C2	C1	C6	118.3°	120.1°
C1	C2	H8	119.4°	119.9°
C4	C5	C6	119.7°	119.7°
C4	C5	C7	118.9°	120.2°
C5	C4	H1	120.0°	120.0°
C	C1	C6	120.6°	120.0°
C1	C	H9	109.5°	109.5°
C1	C	H10	109.5°	109.5°
C1	C	H11	109.4°	109.5°
C1	C6	C5	121.1°	119.9°
C1	C6	H2	119.4°	120.1°
C6	C5	C7	121.3°	120.1°
C5	C6	H2	119.5°	120.1°
C5	C7	O	119.9°	120.0°
C5	C7	N	117.0°	120.0°
O	C7	N	123.1°	120.0°
C7	N	C8	121.3°	120.0°
C7	N	H6	119.3°	120.0°
N	C8	C9	114.7°	109.5°
N	C8	H3	108.1°	109.5°
N	C8	H4	108.1°	109.5°
C8	N	H6	119.3°	120.0°
C8	C9	O2	115.0°	120.0°
C8	C9	O1	123.1°	120.0°
C9	C8	H3	108.1°	109.5°
C9	C8	H4	108.1°	109.5°
O2	C9	O1	121.8°	120.0°
C9	O1	H5	109.5°	117.0°
H3	C8	H4	109.5°	109.5°
H9	C	H10	109.5°	109.4°
H9	C	H11	109.5°	109.4°
H10	C	H11	109.5°	109.5°

Dihedrals

First atom	Second atom	Third atom	Fourth atom	Torsion (experimental model)	Torsion (ideal model)
C2	C3	C4	H7	180.0°	179.4°
C3	C2	C1	H8	180.0°	179.4°
C2	C3	C4	C5	1.4°	0.0°
C3	C2	C1	C	177.8°	180.0°
C3	C2	C1	C6	0.1°	0.9°
C2	C3	C4	H1	178.6°	179.7°
C4	C3	C2	C1	0.1°	0.6°
C3	C4	C5	H1	180.0°	179.7°
C3	C4	C5	C6	2.4°	0.3°
C3	C4	C5	C7	173.2°	179.7°
C4	C3	C2	H8	179.9°	180.0°
C2	C1	C	C6	177.6°	179.2°
C2	C1	C6	C5	0.9°	0.6°
C2	C1	C6	H2	179.0°	179.5°
C1	C2	C3	H7	179.9°	180.0°
C2	C1	C	H9	91.2°	90.0°
C2	C1	C	H10	148.8°	150.0°
C2	C1	C	H11	28.8°	30.0°
C4	C5	C6	C1	2.2°	0.0°
C4	C5	C6	C7	175.5°	180.0°
C4	C5	C7	O	15.7°	180.0°
C4	C5	C7	N	162.0°	0.0°
C4	C5	C6	H2	177.7°	180.0°
C5	C4	C3	H7	178.6°	179.4°
C	C1	C6	C5	176.7°	179.7°
C	C1	C6	H2	3.3°	0.3°
C	C1	C2	H8	2.3°	0.6°
C1	C	H9	H10	120.0°	120.0°
C1	C	H9	H11	120.0°	120.1°
C1	C	H10	H11	120.0°	120.1°
C1	C6	C5	H2	180.0°	180.0°
C1	C6	C5	C7	173.3°	180.0°
C6	C1	C2	H8	179.9°	179.7°
C6	C1	C	H9	91.2°	90.8°
C6	C1	C	H10	28.8°	29.2°
C6	C1	C	H11	148.8°	149.2°
C6	C5	C7	O	168.8°	0.0°
C6	C5	C7	N	13.5°	180.0°
C6	C5	C4	H1	177.5°	180.0°
C5	C7	O	N	177.6°	179.9°
C5	C7	N	C8	175.4°	180.0°
C7	C5	C4	H1	6.8°	0.0°
C7	C5	C6	H2	6.7°	0.0°
C5	C7	N	H6	4.6°	0.1°
O	C7	N	C8	7.0°	0.1°
O	C7	N	H6	173.0°	180.0°
C7	N	C8	H6	180.0°	179.9°
C7	N	C8	C9	145.3°	179.9°
C7	N	C8	H3	24.6°	60.0°
C7	N	C8	H4	93.9°	59.9°
N	C8	C9	H3	120.8°	120.0°
N	C8	C9	H4	120.8°	120.0°
N	C8	C9	O2	0.3°	0.0°
N	C8	C9	O1	176.9°	180.0°
N	C8	H3	H4	117.6°	120.0°
C8	C9	O2	O1	177.2°	179.9°
C9	C8	H3	H4	117.6°	120.0°
C8	C9	O1	H5	177.0°	179.9°
C9	C8	N	H6	34.7°	0.0°
O2	C9	C8	H3	120.5°	120.0°
O2	C9	C8	H4	121.0°	120.0°
O2	C9	O1	H5	0.0°	0.0°
O1	C9	C8	H3	62.3°	60.0°
O1	C9	C8	H4	56.2°	60.0°
H1	C4	C3	H7	1.4°	0.3°
H3	C8	N	H6	155.5°	120.0°
H4	C8	N	H6	86.1°	120.0°
H7	C3	C2	H8	0.1°	0.6°
H9	C	H10	H11	120.0°	119.9°

219869

PDB entries from 2024-05-15

PDB statistics

PDBj update info

Contact PDBj

numon