Atom Nomenclature for N1V

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 N1V

Atom Name (V3) Atom Name (V2)
C25 C1
C24 C2
C26 C3
C23 C4
C22 C5
C21 C6
C20 C7
C19 C8
C18 C9
C17 C10
C16 C11
C15 C12
C11 C13
C12 C14
C13 C15
C14 C16
C10 C17
C01 C18
C02 C19
C03 C20
C04 C21
C05 C22
C06 C23
C07 C24
C08 C25
C09 C26
C32 C27
C33 C28
N30 N1
O27 O1
O29 O2
O31 O3
S28 S1
H251 H1
H241 H2
H261 H3
H231 H4
H221 H5
H211 H6
H183 H7
H181 H8
H182 H9
H172 H10
H171 H11
H162 H12
H161 H13
H151 H14
H152 H15
H111 H16
H112 H17
H131 H18
H132 H19
H142 H20
H141 H21
H101 H22
H012 H23
H011 H24
H041 H25
H051 H26
H061 H27
H071 H28
H081 H29
H322 H30
H321 H31
H331 H32
H332 H33
H301 H34
H302 H35