Atom Nomenclature for C1B

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 C1B

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
N1 N1
N2 N2
N3 N3
N4 N4
C8 C8
C1' C1'
C2' C2'
C3' C3'
CVX C31'
CWX C32'
OXX O33'
OYX O34'
C6X C42'
C7X C43'
O8X O44'
O9X O45'
C4' C4'
C5' C5'
C6' C6'
O6' O6'
C1B C1''
C2B C2''
C3B C3''
C4B C4''
C5B C5''
C51 C51
N52 N52
C53 C53
O54 O54
N55 N55
C6B C6''
O2B O2''
H2 H2
H3 H3
H6 H6
HN1 HN1
HN21 1HN2
HN22 2HN2
HN4 HN4
H2' H2'
H31' H31'
H34' H34'
H421 1H42
H422 2H42
H44' H44'
H4' H4'
H6' H6'
H3B H3''
H4B H4''
H511 1H51
H512 2H51
H52 H52
H551 1H55
H552 2H55
H6B H6''
H2B H2''