Atom Nomenclature for FUG

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 FUG

Atom Name (V3) Atom Name (V2)
C5 C5
C4 C4
C3 C3
C2 C2
C1 C1
C6 C6
O11 O11
C11 C11
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
C2A C2A
O2A O2A
C2B C2B
C2C C2C
O31 O31
C31 C31
O41 O41
C41 C41
O4A O4A
C42 C42
C43 C43
C44 C44
C45 C45
C46 C46
C47 C47
C48 C48
C49 C49
C4A C4A
O4B O4B
O4C O4C
H51 1H5
H52 2H5
H4 H4
H3 H3
H2 H2
H61 1H6
H62 2H6
HOB HOB
H111 1H11
H112 2H11
H113 3H11
H22 H22
H231 1H23
H232 2H23
H24 H24
H2A1 1H2A
H2A2 2H2A
H2A3 3H2A
H2B1 1H2B
H2B2 2H2B
H2B3 3H2B
H2C1 1H2C
H2C2 2H2C
H2C3 3H2C
H311 1H31
H312 2H31
H313 3H31
H42 H42
H43 H43
H44 H44
H45 H45
H46 H46
H47 H47
H48 H48
H49 H49
HOB4 4HOB