Atom Nomenclature for HH2

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 HH2

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C3 C3
N4 N4
N5 N5
C6 C6
N6 N6
N7 N7
C8 C8
O8 O8
C9 C9
C10 C10
C11 C11
O4 O4
P1 P1
O1P O1P
O2P O2P
O3P O3P
P2 P2
O4P O4P
O5P O5P
O6P O6P
H31 1H3
HN61 1HN6
HN62 2HN6
HN7 HN7
H111 1H11
H112 2H11
HOP2 2HOP
HOP5 5HOP
HOP6 6HOP