Atom Nomenclature for FAJ

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 FAJ

Atom Name (V3) Atom Name (V2)
O1 O4
O2 O2
C1 C4
N1 N3
C2 C2
N2 N1
C3 C10
C4 C4A
C5 C3B
C6 CB1
C7 CB2
C8 CB3
C9 CB4
C10 CB5
C11 CB6
C12 C2B
C13 C1B
O3 O1B
N3 N5
C14 C5A
C15 C6
C16 C7
C17 C7M
C18 C8
C19 C8M
C20 C9
C21 C9A
N4 N10
C22 C1'
C23 C2'
O4 O2'
C24 C3'
O5 O3'
C25 C4'
O6 O4'
C26 C5'
O7 O5'
P1 P
O8 O1P
O9 O2P
O10 O3P
P2 PA
O11 O1A
O12 O2A
O13 OA5
C27 CA5
C28 CA4
O14 OA4
C29 CA3
O15 OA3
C30 CA2
O16 OA2
C31 CA1
N5 N9A
C32 C8A
N6 N7A
C33 C5C
C34 C4C
N7 N3A
C35 C2A
N8 N1A
C36 C6A
N9 N6A
H1 H1
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
H31 H31
H32 H32
H33 H33
H34 H34
H35 H35
H36 H36
H37 H37
H38 H38
H39 H39
H40 H40
H41 H41
H42 H42
H43 H43
H44 H44
H45 H45