Atom Nomenclature for G3A

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 G3A

Atom Name (V3) Atom Name (V2)
O36 O36
C36 C36
N31 N31
C32 C32
N32 N32
N33 N33
C35 C35
C34 C34
N37 N37
C38 C38
N39 N39
C41 C41
O44 O44
C42 C42
O42 O42
C43 C43
O43 O43
C44 C44
C45 C45
O45 O45
PA PA
O1A O1A
O2A O2A
O1 O1
PB PB
O2B O2B
O3B O3B
O3A O3A
PG PG
O1G O1G
O2G O2G
O25 O25
C25 C25
C24 C24
C23 C23
O23 O23
C22 C22
O22 O22
O24 O24
C21 C21
N19 N19
C14 C14
N13 N13
C12 C12
N11 N11
C18 C18
N17 N17
C15 C15
C16 C16
N16 N16
HN31 HN31
H321 1H32
H322 2H32
H38 H38
H41 H41
H42 H42
HO42 HO42
H43 H43
HO43 HO43
H44 H44
H451 1H45
H452 2H45
HO1A HO1A
HO2B HO2B
HO2G HO2G
H251 1H25
H252 2H25
H24 H24
H23 H23
HO23 HO23
H22 H22
HO22 HO22
H21 H21
H12 H12
H18 H18
H161 1H16
H162 2H16