Atom Nomenclature for MCN

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 MCN

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N3 N3
C4 C4
C5 C5
C6 C6
O2 O2
N4 N4
C1' C1*
C2D C2*
O2' O2*
C3' C3*
C4D C4*
O4D O4*
O3' O3*
C5' C5*
O5' O5*
PA PA
O1A O1A
O2A O2A
O3A O3A
PB PB
O1B O1B
O2B O2B
O3B O3B
C10 C10
C9' C9'
C8' C8'
S8' S8'
C7' C7'
S7' S7'
C6' C6'
C7 C7
O9' O9'
N5' N5'
C4A C4A
N8' N8'
C4B C4B
N1' N1'
C2' C2'
N2' N2'
N3' N3'
C4' C4'
O4' O4'
H5 H5
H6 H6
HN41 1HN4
HN42 2HN4
H1' H1*
H2' H2*
HO2' *HO2
H3' H3*
H4' H4*
HO3' *HO3
H5'1 1H5*
H5'2 2H5*
HOA2 2HOA
HOB2 2HOB
H101 1H10
H102 2H10
H9' H9'
HS8 HS8
HS7 HS7
HN21 1HN2
HN22 2HN2
HO4 HO4