Atom Nomenclature for ESN

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 ESN

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C5 C3
C6 C4
C7 C5
C8 C6
C10 C7
C11 C8
C13 C9
C15 C10
C19 C11
C21 C12
C22 C13
C24 C14
C25 C15
C27 C16
C31 C17
C35 C18
C36 C19
C37 C20
C38 C21
C39 C22
N3 N1
C4 C23
C9 C24
O12 O1
N14 N2
N16 N3
C17 C25
C18 C26
O20 O2
N23 N4
CL1 CL1
O28 O3
N29 N5
C30 C27
O32 O4
C33 C28
C34 C29
H44 H1
H43 H2
H42 H3
H40 H4
H47 H5
H48 H6
H54 H7
H55 H8
H57 H9
H56 H10
H58 H11
H59 H12
H60 H13
H62 H14
H63 H15
H66 H16
H67 H17
H69 H18
H68 H19
H70 H20
H71 H21
H46 H22
H45 H23
H49 H24
H50 H25
H51 H26
H52 H27
H53 H28
H61 H29
H41 H30
H64 H31
H65 H32