Atom Nomenclature for UZ9

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 UZ9

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
N N
CA CA
CB CB
CG CG
CD CD
CE CE
NZ NZ
C24 C24
O2 O2
C23 C23
C22 C22
C20 C20
C21 C21
C17 C17
C16 C16
C13 C13
C12 C12
C18 C18
C14 C14
C15 C15
C8 C8
C7 C7
C9 C9
C11 C11
C10 C10
C19 C19
O1 O1
C C
O O
OXT OXT
H1C1 1H1C
H1C2 2H1C
H2C1 1H2C
H2C2 2H2C
H4C1 1H4C
H4C2 2H4C
H5 H5
H6C1 1H6C
H6C2 2H6C
HN1 1HN
HN2 2HN
HA HA
HBC1 1HBC
HBC2 2HBC
HGC1 1HGC
HGC2 2HGC
HDC1 1HDC
HDC2 2HDC
HEC1 1HEC
HEC2 2HEC
HZ HZ
H231 1H23
H232 2H23
H221 1H22
H222 2H22
H20 H20
H211 1H21
H212 2H21
H213 3H21
H17 H17
H161 1H16
H162 2H16
H121 1H12
H122 2H12
H181 1H18
H182 2H18
H183 3H18
H14 H14
H151 1H15
H152 2H15
H8 H8
H7C1 1H7C
H7C2 2H7C
H9 H9
H111 1H11
H112 2H11
H191 1H19
H192 2H19
H193 3H19
H H