Atom Nomenclature for 01L

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 01L

Atom Name (V3) Atom Name (V2)
C1 C1
O2 O2
C2 C2
C3 C3
C4 C4
C5 C5
B B
O1A O1A
O1B O1B
N6 N6
H11A H11A
H12A H12A
H13 H13
H21 H21
H22A H22A
H31 H31
H32A H32A
H41 H41
H42 H42
H5 H5
HOA HOA
HOB HOB
HN6 HN6
H2 H2