Atom Nomenclature for KE4

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 KE4

Atom Name (V3) Atom Name (V2)
P P
OP1 OP1
OP2 OP2
OP3 OP3
OP4 OP4
C5A C5A
C5 C5
C6 C6
N1 N1
C2 C2
C2A C2A
C3 C3
O3 O3
C4 C4
C4A C4A
N4A N4A
CA CA
C C
N5 N5
CB CB
CG CG
CD CD
OE1 OE1
OE2 OE2
HOP2 HOP2
HOP3 HOP3
H5A1 1H5A
H5A2 2H5A
H6 H6
H2A1 1H2A
H2A2 2H2A
H2A3 3H2A
HO3 HO3
H4A1 1H4A
H4A2 2H4A
HN4A HN4A
HA HA
H1 1H
H2 2H
HN51 1HN5
HN52 2HN5
HB1 1HB
HB2 2HB
HG1 1HG
HG2 2HG
HOE2 HOE2