Atom Nomenclature for 9O9

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 9O9

Atom Name (V3) Atom Name (V2)
C4 C1
C5 C2
C6 C3
N1 N1
N3 N2
C2 C4
CAA C5
CAB C6
CAC C7
CAD C8
CAE C9
CAF C10
CAJ C11
CAO C12
CAP C13
CAS C14
CAT C15
CAU C16
CAV C17
CAW C18
NAG N3
O2 O1
O4 O2
OAX O3
OAY O4
OAZ O5
OBA O6
OBC O7
OBD O8
OBE O9
PBB P1
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