Atom Nomenclature for 4JY

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 4JY

Atom Name (V3) Atom Name (V2)
C13 C1
C16 C2
C15 C3
C22 C4
C23 C5
C24 C6
C11 C7
C12 C8
C34 C9
C33 C10
N1 N1
C2 C11
C3 C12
C4 C13
C5 C14
C6 C15
C7 C16
C8 C17
C9 C18
C10 C19
C14 C20
O17 O1
N18 N2
N19 N3
F20 F1
O21 O2
C25 C21
C26 C22
N27 N4
C28 C23
C29 C24
N30 N5
C31 C25
C32 C26
C35 C27
C36 C28
H44 H1
H49 H2
H48 H3
H51 H4
H52 H5
H50 H6
H53 H7
H41 H8
H42 H9
H64 H10
H63 H11
H37 H12
H38 H13
H39 H14
H40 H15
H43 H16
H45 H17
H47 H18
H56 H20
H55 H21
H54 H22
H57 H23
H59 H24
H58 H25
H60 H26
H61 H27
H62 H29
H65 H30
H66 H31
H3 H32