Atom Nomenclature for FRB

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 FRB

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N3 N3
N4 N4
C5 C5
C6 C6
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
O13 O13
N14 N14
C15 C15
C16 C16
O17 O17
N18 N18
C19 C19
C20 C20
C23 C23
C22 C22
C21 C21
C24 C24
N25 N25
N26 N26
C28 C28
C27 C27
C29 C29
C34 C34
CL36 CL36
C30 C30
C31 C31
C32 C32
C33 C33
CL35 CL35
HN1 HN1
HN31 1HN3
HN32 2HN3
HN4 HN4
H5 H5
H6 H6
H71 1H7
H72 2H7
H81 1H8
H82 2H8
H91 1H9
H92 2H9
H101 1H10
H102 2H10
H111 1H11
H112 2H11
H14 H14
H151 1H15
H152 2H15
H191 1H19
H192 2H19
H201 1H20
H202 2H20
H231 1H23
H232 2H23
H221 1H22
H222 2H22
H21 H21
H25 H25
H28 H28
H30 H30
H31 H31
H32 H32