Atom Nomenclature for LIV

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 LIV

Atom Name (V3) Atom Name (V2)
C11 C11
O11 O11
C21 C21
N21 N21
C31 C31
C41 C41
O41 O41
C51 C51
O51 O51
C61 C61
O61 O61
C12 C12
N12 N12
C62 C62
O62 O62
C52 C52
O52 O52
C42 C42
C32 C32
N32 N32
C22 C22
C13 C13
C23 C23
O23 O23
C33 C33
C43 C43
O43 O43
C53 C53
O53 O53
C44 C44
O44 O44
C34 C34
O34 O34
C24 C24
N24 N24
C14 C14
O33 O33
C54 C54
O54 O54
C64 C64
N64 N64
C15 C15
C25 C25
C35 C35
C45 C45
C55 C55
C65 C65
O25 O25
O35 O35
O45 O45
O55 O55
O65 O65
H11 H11
H21 H21
H211 1H21
H212 2H21
H311 1H31
H312 2H31
H41 H41
H3 H3
H51 H51
H611 1H61
H612 2H61
H61 H61
H12 H12
H121 1H12
H122 2H12
H62 H62
H2 H2
H52 H52
H42 H42
H32 H32
H321 1H32
H322 2H32
H221 1H22
H222 2H22
H13 H13
H23 H23
H1 H1
H33 H33
H43 H43
H531 1H53
H532 2H53
H53 H53
H44 H44
H34 H34
H4 H4
H24 H24
H241 1H24
H242 2H24
H14 H14
H54 H54
H11A 1H1
H12A 2H1
H641 1H64
H642 2H64
H15 H15
H25 H25
H35 H35
H45 H45
H55 H55
H651 1H65
H652 2H65
H7 H7
H6 H6
H5 H5
H65 H65