Atom Nomenclature for 9RA

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 9RA

Atom Name (V3) Atom Name (V2)
O53 O53
C51 C51
O52 O52
C11 C11
C10 C10
C12 C12
C13 C13
C14 C14
C9 C9
C47 C47
C48 C48
C4 C4
C3 C3
C43 C43
C2 C2
C5 C5
C6 C6
C19 C19
C27 C27
C31 C31
C20 C20
C21 C21
C22 C22
C1 C1
C39 C39
C35 C35
HO52 HO52
H10 H10
H12 H12
H13 H13
H9 H9
H48 H48
H48A H48A
H43 H43
H43A H43A
H43B H43B
H2 H2
H5 H5
H27 H27
H27A H27A
H27B H27B
H31 H31
H31A H31A
H31B H31B
H20 H20
H20A H20A
H21 H21
H21A H21A
H39 H39
H39A H39A
H39B H39B
H35 H35
H35A H35A
H35B H35B