Atom Nomenclature for HN1

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 HN1

Atom Name (V3) Atom Name (V2)
C C
P P
C1 C1
N1 N1
C2 C2
N2 N2
C3 C3
N3 N3
C4 C4
C5 C5
C6 C6
O6 O6
C7 C7
N7 N7
C8 C8
C9 C9
N9 N9
C1' C1'
C10 C10
O10 O10
C11 C11
O11 O11
C12 C12
C13 C13
OP1 O1P
C2' C2'
OP3 OP3
C3' C3'
O3' O3'
C4' C4'
O4' O4'
C5' C5'
O5' O5'
OP2 O2P
H H
HA HA
H31 H31
H3 H3
HN3 HN3
H7 H7
H8 H8
H9 H9
H9A H9A
H1' H1'
H10 H10
H10A H10A
HO10 HO10
H11 H11
H11A H11A
H16 H16
H12 H12
H12A H12A
H13 H13
H13A H13A
H13B H13B
HOP3 HOP3
H2' H2'
H2'A H2'A
H3' H3'
HO3' HO3'
H4' H4'
H5' H5'
H5'A H5'A
HOP2 HO2P