Atom Nomenclature for GBZ

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 GBZ

Atom Name (V3) Atom Name (V2)
OBN O1
CBA C1
OBO O2
CAZ C2
CAY C3
CAW C4
CAX C5
OBG O3
OBF O4
NAV N1
CAU C6
OBE O5
N N2
CA C7
C C8
OXT O6
O O7
CB C9
CAP C10
CAO C11
CAN C12
OBB O8
NAM N3
CBJ C13
CBH C14
CBI C15
CBK C16
CBM C17
CBL C18
CAL C19
CAJ C20
NAI N4
CAH C21
OAK O9
CAE C22
CAD C23
CAC C24
CAA C25
FAB F1
NAG N5
CAF C26
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
H29 H29
H30 H30