Atom Nomenclature for FCP

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 FCP

Atom Name (V3) Atom Name (V2)
C22 C22
C1 C1
C5 C5
C4 C4
C3 C3
C17 C17
C18 C18
C19 C19
C20 C20
N2 N2
N6 N6
N7 N7
N16 N16
C21 C21
O23 O23
C24 C24
C11 C11
C10 C10
C9 C9
C8 C8
C12 C12
C13 C13
F14 F14
F15 F15
C25 C25
C26 C26
N27 N27
C28 C28
C29 C29
O30 O30
H22 H22
HL HL
HB HB
HE HE
HF HF
HD HD
HC HC
HA HA
HA1 1HA
HB2 2HB
HH HH
HI HI
HJ HJ
HG HG
HB1 1HB
HC2 2HC
HC1 1HC
HD2 2HD
HE3 3HE
HD1 1HD
HE2 2HE
HF3 3HF
HK HK