Atom Nomenclature for AG7

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 AG7

Atom Name (V3) Atom Name (V2)
C01 C01
C02 C02
O03 O03
C04 C04
C05 C05
C06 C06
C07 C07
C08 C08
C09 C09
C10 C10
C11 C11
N12 N12
C13 C13
C14 C14
C15 C15
C16 C16
N17 N17
O18 O18
C19 C19
C20 C20
C21 C21
O22 O22
O23 O23
C47 C47
O48 O48
C50 C50
C53 C53
C57 C57
N58 N58
C59 C59
O60 O60
C78 C78
C81 C81
F1 F1
C82 C82
C83 C83
C84 C84
C1 C1
C2 C2
C3 C3
O4 O4
N5 N5
C4 C4
H2 H2
H3 H3
H27 H27
H28 H28
H29 H29
H30 H30
H31 H31
H33 H33
H34 H34
H49 H49
H91 H91
H35 H35
H36 H36
H94 H94
H39 H39
H191 H191
H192 H192
H41 H41
H42 H42
H51 H51
H52 H52
H53 H53
H54 H54
H56 H56
H77 H77
H61 H61
H79 H79
H82 H82
H84 H84
H85 H85
H86 H86
H87 H87
H88 H88
H89 H89
H90 H90
H92 H92
H93 H93
H8 H8
H5 H5
H6 H6
H7 H7