Atom Nomenclature for GGW

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 GGW

Atom Name (V3) Atom Name (V2)
C1 C1
O2 O2
C3 C3
O4 O4
N5 N5
C6 C6
C7 C7
O8 O8
N9 N9
C10 C10
C11 C11
C12 C12
O13 O13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
N22 N22
C23 C23
O24 O24
C25 C25
N26 N26
C27 C27
O28 O28
O29 O29
C30 C30
C31 C31
C32 C32
C33 C33
C34 C34
C35 C35
C36 C36
C37 C37
C38 C38
C39 C39
C40 C40
C41 C41
C42 C42
C43 C43
C44 C44
C45 C45
C46 C46
N47 N47
C48 C48
C49 C49
C50 C50
C51 C51
H1 H1
H1A H1A
H1B H1B
HN5 HN5
H6 H6
HN9 HN9
H10 H10
H11 H11
H11A H11A
H12 H12
HO13 HO13
H14 H14
H15 H15
H15A H15A
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
HN22 HN22
H25 H25
HN26 HN26
H30 H30
H30A H30A
H30B H30B
H32 H32
H32A H32A
H32B H32B
H33 H33
H33A H33A
H33B H33B
H34 H34
H34A H34A
H34B H34B
H35 H35
H35A H35A
H37 H37
H38 H38
H40 H40
H41 H41
H43 H43
H44 H44
H45 H45
H46 H46
H49 H49
H49A H49A
H49B H49B
H50 H50
H50A H50A
H50B H50B
H51 H51
H51A H51A
H51B H51B