Atom Nomenclature for LI8

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 LI8

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
N3 N3
C4 C4
N5 N5
C6 C6
BR7 BR7
N8 N8
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
N16 N16
C18 C18
O19 O19
N20 N20
C21 C21
C22 C22
C23 C23
C24 C24
N25 N25
C27 C27
C28 C28
N29 N29
C31 C31
O32 O32
C33 C33
C34 C34
C35 C35
C36 C36
C37 C37
O38 O38
N39 N39
H6 H6
HN8 HN8
H11 H11
H13 H13
H14 H14
H15 H15
H16 H16
H211 1H21
H212 2H21
H221 1H22
H222 2H22
H231 1H23
H232 2H23
H241 1H24
H242 2H24
H25 H25
H271 1H27
H272 2H27
H281 1H28
H282 2H28
H29 H29
H331 1H33
H332 2H33
H351 1H35
H352 2H35
H353 3H35
H361 1H36
H362 2H36
H363 3H36
H391 1H39
H392 2H39