Atom Nomenclature for VGH

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 VGH

Atom Name (V3) Atom Name (V2)
CL CL
C13 C13
C3 C3
C2 C2
C12 C12
F F
C17 C17
C18 C18
CL2 CL2
C21 C21
C1 C1
O27 O27
C15 C15
C4 C4
C19 C19
N22 N22
N23 N23
C5 C5
C14 C14
C16 C16
C6 C6
C7 C7
N26 N26
N24 N24
C20 C20
C8 C8
C10 C10
N25 N25
C11 C11
C9 C9
H3 H3
H2 H2
H21 H21
H11C H11C
H12C H12C
H13C H13C
H4 H4
H221 H221
H222 H222
H5 H5
H6 H6
H7 H7
H20 H20
H81C H81C
H82C H82C
H91C H91C
H92C H92C
H101 H101
H102 H102
H25 H25
H111 H111
H112 H112