Atom Nomenclature for CS9

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 CS9

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
N1 N1
O1 O1
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C30 C30
C14 C14
N2 N2
O2 O2
C15 C15
C16 C16
C17 C17
O3 O3
C19 C19
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
F2 F2
F1 F1
C26 C26
C18 C18
N3 N3
C20 C20
C27 C27
O4 O4
C31 C31
C32 C32
C33 C33
C34 C34
C35 C35
C36 C36
H1 H1
H3 H3
H5 H5
H81 1H8
H82 2H8
H91 1H9
H92 2H9
H101 1H10
H102 2H10
H103 3H10
H111 1H11
H112 2H11
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H133 3H13
H301 1H30
H302 2H30
H303 3H30
HN2 HN2
H15 H15
H16 H16
H171 1H17
H172 2H17
HO3 HO3
H21 H21
H23 H23
H25 H25
H26 H26
H181 1H18
H182 2H18
HN3 HN3
H201 1H20
H202 2H20
H27 H27
H32 H32
H33 H33
H34 H34
H35 H35
H36 H36