Atom Nomenclature for H5Z

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 H5Z

Atom Name (V3) Atom Name (V2)
C20 C1
C21 C2
C01 C3
C02 C4
C03 C5
C04 C6
C05 C7
C06 C8
C07 C9
C09 C10
C11 C11
C12 C12
C14 C13
C16 C14
C18 C15
C19 C16
C23 C17
C25 C18
C27 C19
C29 C20
C33 C21
F22 F1
F24 F2
F26 F3
F28 F4
F30 F5
N17 N1
N31 N2
N32 N3
O10 O1
O13 O2
O15 O3
O34 O4
S08 S1
H012 H1
H011 H2
H013 H3
H031 H4
H041 H5
H051 H6
H061 H7
H091 H8
H111 H9
H122 H10
H121 H11
H141 H12
H161 H13
H181 H14
H331 H15
H131 H16
H151 H17
H341 H18