Atom Nomenclature for LS1

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 LS1

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
O11 O11
C12 C12
N17 N17
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
S30 S30
O31 O31
O32 O32
N33 N33
C35 C35
H1N NH1
H41 1H4
H51 1H5
H61 1H6
H71 1H7
H121 1H12
H17N NH17
H211 1H21
H221 1H22
H241 1H24
H251 1H25
H33N NH33
H351 1H35
H352 2H35
H353 3H35