Atom Nomenclature for 0HH

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 0HH

Atom Name (V3) Atom Name (V2)
N N1
CA C1
C C2
O O1
CB C3
CG C4
CD C5
OE1 O2
OXT O4
N1 N2
CA1 C6
CB1 C7
SG S1
C1 C8
O1 O5
C11 C9
C2 C10
C3 C11
C4 C12
C5 C13
C6 C14
C7 C15
C8 C16
C9 C17
N2 N3
CA2 C18
CC C19
O2 O7
OXT1 O8
H H1
H2 H2
HA H3
HB2 H4
HB3 H5
HG2 H6
HG3 H7
HXT H9
H1 H10
HA1 H12
HB21 H13
HB31 H14
H11 H16
H12 H17
H21 H18
H22 H19
H31 H20
H32 H21
H41 H22
H42 H23
H51 H24
H52 H25
H61 H26
H62 H27
H71 H28
H72 H29
H81 H30
H82 H31
H91 H32
H92 H33
H93 H34
H3 H35
HA2 H37
HA3 H38
HXT1 H39