Atom Nomenclature for 2YT

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 2YT

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C10 C10
O34 O34
C3 C3
C4 C4
C5 C5
C9 C9
C6 C6
C8 C8
C7 C7
N11 N11
C12 C12
C20 C20
O33 O33
C13 C13
C14 C14
C19 C19
C15 C15
C18 C18
C16 C16
C17 C17
N21 N21
C22 C22
C23 C23
C24 C24
C25 C25
N26 N26
C27 C27
N28 N28
N29 N29
C30 C30
O31 O31
C32 C32
CL1 CL1
H9 H9
H10 H10
H14 H14
H12 H12
H13 H13
H1 H1
H5 H5
H2 H2
H4 H4
H3 H3
H15 H15
H6 H6
H7 H7
H8 H8
H20 H20
H16 H16
H19 H19
H17 H17
H18 H18
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
H29 H29
H30 H30
H31 H31
H32 H32
H33 H33
H34 H34
H35 H35
H36 H36