Atom Nomenclature for 746

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 746

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C7 C7
C9 C9
C11 C11
N12 N12
C13 C13
C14 C14
O15 O15
N16 N16
C17 C17
N19 N19
C21 C21
O22 O22
C23 C23
C24 C24
C26 C26
C28 C28
C29 C29
C31 C31
C33 C33
C34 C34
C38 C38
C42 C42
C46 C46
N47 N47
C48 C48
C49 C49
C50 C50
C51 C51
C52 C52
C60 C60
C71 C71
O72 O72
C81 C81
C82 C82
N83 N83
C84 C84
C85 C85
O86 O86
H3 H3
H3A H3A
H3B H3B
H5 H5
H7 H7
H9 H9
H17 H17
HN19 HN19
H24 H24
H26 H26
H29 H29
H31 H31
H34 H34
H34A H34A
H34B H34B
H38 H38
H38A H38A
H38B H38B
H42 H42
H42A H42A
H42B H42B
HN47 HN47
H48 H48
H49 H49
H51 H51
H52 H52
H60 H60
H60A H60A
H60B H60B
H81 H81
H81A H81A
H82 H82
H82A H82A
H84 H84
H84A H84A
H85 H85
H85A H85A