Atom Nomenclature for FTL

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 FTL

Atom Name (V3) Atom Name (V2)
C8 C8
N2 N2
C40 C40
C43 C43
C44 C44
C45 C45
C46 C46
C47 C47
C51 C51
C52 C52
C53 C53
C54 C54
C55 C55
C56 C56
C65 C65
C7 C7
N1 N1
C2 C2
C3 C3
C4 C4
N3 N3
C10 C10
C12 C12
N4 N4
C5 C5
C15 C15
C16 C16
C11 C11
C13 C13
C14 C14
C17 C17
C6 C6
C9 C9
N5 N5
C18 C18
HC81 1HC8
HC82 2HC8
HC43 HC43
HC44 HC44
HC47 HC47
HC54 HC54
HC55 HC55
HC56 HC56
HC7 HC7
HC2 HC2
HC3 HC3
HC4 HC4
HC10 HC10
HC5 HC5
H151 1H15
H152 2H15
H153 3H15
HC16 HC16
HC13 HC13
HC17 HC17
HC6 HC6
H181 1H18
H182 2H18