Atom Nomenclature for 55V

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 55V

Atom Name (V3) Atom Name (V2)
C1P C1P
O1O O1O
C1N C1N
C1M C1M
C1Q C1Q
O1V O1V
C1W C1W
C1R C1R
O1T O1T
C1U C1U
C1S C1S
C1L C1L
C1J C1J
C1K C1K
C1X C1X
C1I C1I
C1H C1H
C5 C5
C4 C4
C1Y C1Y
N3 N3
C2 C2
N1Z N1Z
N1 N1
C6 C6
N1G N1G
H1P H1P
H1PA H1PA
H1PB H1PB
H1M H1M
H1W H1W
H1WA H1WA
H1WB H1WB
H1U H1U
H1UA H1UA
H1UB H1UB
H1S H1S
H1K H1K
H1KA H1KA
H1KB H1KB
H1X H1X
H1XA H1XA
H1XB H1XB
H1Y H1Y
H1YA H1YA
H1YB H1YB
HN1Z HN1Z
HN1A HN1A
HN1G HN1G
HN1B HN1B