Atom Nomenclature for M2W

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 M2W

Atom Name (V3) Atom Name (V2)
C8 C8
O27 O27
O22 O22
C9 C9
C20 C20
C16 C16
C13 C13
C10 C10
N19 N19
O21 O21
N7 N7
C3 C3
C1 C1
O6 O6
C35 C35
S37 S37
N2 N2
C4 C4
C23 C23
O25 O25
C5 C5
O41 O41
C46 C46
C42 C42
O26 O26
H91C H91C
H92C H92C
H16 H16
H131 H131
H132 H132
H101 H101
H102 H102
H191 H191
H192 H192
H21 H21
H7 H7
H3 H3
H351 H351
H352 H352
H37 H37
H2 H2
H4 H4
H5 H5
H461 H461
H462 H462
H463 H463
H421 H421
H422 H422
H423 H423
H25 H25