Atom Nomenclature for SBB

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 SBB

Atom Name (V3) Atom Name (V2)
C01 C01
C02 C02
C03 C03
C04 C04
C05 C05
C06 C06
C07 C07
O08 O08
N09 N09
C10 C10
C11 C11
C12 C12
C13 C13
S14 S14
N15 N15
O16 O16
O17 O17
C18 C18
C19 C19
C20 C20
N21 N21
C22 C22
C23 C23
C24 C24
C25 C25
C26 C26
HC1 HC1
HC2 HC2
HC4 HC4
HC5 HC5
HN9 HN9
H101 1H10
H102 2H10
H11 H11
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H133 3H13
H151 1H15
H152 2H15
H18 H18
H19 H19
H21 H21
H23 H23
H24 H24
H26 H26