Atom Nomenclature for ZY4

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 ZY4

Atom Name (V3) Atom Name (V2)
C1 C1
N2 N2
C3 C3
C4 C4
C5 C5
C6 C6
O7 O7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
N20 N20
O21 O21
C39 C39
C42 C42
C43 C43
O1 O1
C45 C45
C46 C46
C7 C7
C57 C57
N1 N1
N59 N59
S60 S60
C61 C61
C68 C68
C69 C69
O79 O79
O80 O80
C20 C20
O2 O2
C2 C2
H2 H2
H3 H3
H51C H51C
H52C H52C
H61C H61C
H62C H62C
HA HA
HB HB
H20 H20
H9 H9
H13 H13
H15 H15
H19 H19
H16 H16
H17 H17
H18 H18
H39 H39
H421 H421
H422 H422
H461 H461
H462 H462
H431 H431
H432 H432
H451 H451
H452 H452
H57 H57
H201 H201
H202 H202
H681 H681
H682 H682
H21C H21C
H22C H22C
H23C H23C
H611 H611
H612 H612
H691 H691
H692 H692
H693 H693