Atom Nomenclature for VG6

The atom nomenclature in PDB data files was revised with the release of data in the PDB Format Version 3.0. These changes make the PDB atom names used by PDB compliant with existing IUPAC nomenclature for standard amino acid and nucleotides (Pure & Appl. Chem., 70, 117-142, 1998) with the exception of the well established convention for C-terminal atoms OXT and HXT. A small number of additional changes were introduced in Version 3 to make atom labeling more conventional. The following chemical diagrams and tables provide the correspondences between atom names used in Version 3 and Version 2 PDB formats.

Labeled Chemical Diagrams

Chemical diagram with format V3 atom labels (heavy atoms)
Chemical diagram with format V3 atom labels (all atoms)
Chemical diagram with format V2 atom labels (heavy atoms)
Chemical diagram with format V2 atom labels (all atoms)

Atom Name Correspondences for VG6

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
N8 N8
O9 O9
C10 C10
C11 C11
C12 C12
O13 O13
C14 C14
C15 C15
N16 N16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
N38 N38
C39 C39
C41 C41
N47 N47
C48 C48
C49 C49
C50 C50
C51 C51
O58 O58
C59 C59
C61 C61
C64 C64
C65 C65
C66 C66
C67 C67
C68 C68
C73 C73
F74 F74
F75 F75
F76 F76
H2 H2
H6 H6
H38 H38
H4 H4
H8 H8
H10 H10
H111 1H11
H112 2H11
H12 H12
H13 H13
H151 1H15
H152 2H15
H17 H17
H21 H21
H16 H16
H591 1H59
H592 2H59
H18 H18
H19 H19
H20 H20
H391 1H39
H392 2H39
H411 1H41
H412 2H41
H413 3H41
H511 1H51
H512 2H51
H491 1H49
H492 2H49
H501 1H50
H502 2H50
H64 H64
H68 H68
H65 H65
H66 H66