Atom Nomenclature for A7T

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 A7T

Atom Name (V3) Atom Name (V2)
O26 O26
C23 C23
N27 N27
C32 C32
C36 C36
C38 C38
C41 C41
C42 C42
C39 C39
C43 C43
C37 C37
C40 C40
C31 C31
C35 C35
C34 C34
C21 C21
C24 C24
N28 N28
C29 C29
N33 N33
C30 C30
C25 C25
C22 C22
C20 C20
C19 C19
C17 C17
C15 C15
C18 C18
C16 C16
C14 C14
O13 O13
C12 C12
C8 C8
O5 O5
C3 C3
C6 C6
CL9 CL9
C10 C10
C7 C7
C11 C11
C4 C4
C2 C2
CL1 CL1
H32 H32
H32A H32A
H38 H38
H41 H41
H42 H42
H43 H43
H43A H43A
H43B H43B
H40 H40
H40A H40A
H40B H40B
H31 H31
H35 H35
H35A H35A
H34 H34
H34A H34A
H24 H24
HN28 HN28
H29 H29
H29A H29A
HN33 HN33
H30 H30
H30A H30A
H25 H25
H22 H22
H22A H22A
H17 H17
H15 H15
H18 H18
H16 H16
H12 H12
H12A H12A
H8 H8
H8A H8A
H10 H10
H11 H11
H11A H11A
H11B H11B
H4 H4