Atom Nomenclature for 0Z3

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 0Z3

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
O O1
F1 F1
F2 F2
F3 F3
N N1
CA C3
C C4
O1 O3
CB C5
CG C6
CD C7
CE C8
NZ N2
N1 N3
CA1 C9
C3 C10
O2 O5
CB1 C11
CG1 C12
CD1 C13
CD2 C14
CE1 C15
CE2 C16
CZ C17
C11 C18
N11 N4
C21 C19
C31 C20
C4 C21
C5 C22
C6 C23
C1' C24
C2' C25
C3' C26
H H2
HA H4
HB2 H5
HB3 H6
HG2 H7
HG3 H8
HD2 H9
HD3 H10
HE2 H11
HE3 H12
HZ1 H13
HZ2 H14
HZ3 H15
H1 H17
HA1 H19
HB21 H20
HB31 H21
HD1 H22
HD21 H23
HE1 H24
HE21 H25
HZ H26
HN11 H28
H2 H30
H3 H31
H5 H32
H6 H33
H1' H34
H2'1 H35
H2'2 H36
H2'3 H37
H3'1 H38
H3'2 H39
H3'3 H40