Atom Nomenclature for B3H

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 B3H

Atom Name (V3) Atom Name (V2)
O11 O11
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
O21 O21
C21 C21
C22 C22
C23 C23
C24 C24
C41 C41
O41 O41
C42 C42
O42 O42
C43 C43
O43 O43
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H141 1H14
H142 2H14
H151 1H15
H152 2H15
H161 1H16
H162 2H16
H171 1H17
H172 2H17
H181 1H18
H182 2H18
H191 1H19
H192 2H19
H193 3H19
H221 1H22
H222 2H22
H231 1H23
H232 2H23
H241 1H24
H242 2H24
H243 3H24
H411 1H41
H412 2H41
H42 H42
H431 1H43
H432 2H43
HO43 HO43