Atom Nomenclature for 98D

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 98D

Atom Name (V3) Atom Name (V2)
N12 N1
C13 C1
C15 C2
C17 C3
C20 C4
C21 C5
C24 C6
C28 C7
C01 C8
N02 N2
C03 C9
C04 C10
N05 N3
C06 C11
C07 C12
C08 C13
C09 C14
N10 N4
C11 C15
C14 C16
N16 N5
N18 N6
C19 C17
O22 O1
C23 C18
C25 C19
N26 N7
C27 C20
C29 C21
C30 C22
O31 O2
N32 N8
C33 C23
C34 C24
C35 C25
C36 C26
H131 H1
H201 H2
H213 H3
H212 H4
H211 H5
H241 H6
H281 H7
H012 H8
H013 H9
H011 H10
H031 H12
H032 H13
H041 H14
H042 H15
H071 H16
H081 H17
H101 H18
H221 H19
H231 H20
H251 H21
H271 H22
H272 H23
H291 H24
H292 H25
H331 H26
H341 H27
H351 H28
H352 H29
H361 H30
H362 H31