Atom Nomenclature for 1JB

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 1JB

Atom Name (V3) Atom Name (V2)
N1 N1
N3 N3
C4 C4
C5 C5
C6 C6
O1B O1B
PB PB
O2B O2B
O3B O3B
C1Q C1Q
O5Q O5Q
C5Q C5Q
C6Q C6Q
C4Q C4Q
O4Q O4Q
C3Q C3Q
O3Q O3Q
C2Q C2Q
O2Q O2Q
O3A O3A
PA PA
O1A O1A
O2A O2A
O5X O5X
C5X C5X
C4X C4X
O4X O4X
C3X C3X
O3X O3X
C2X C2X
C1X C1X
C2 C2
O2 O2
C5M C5M
O4 O4
H1 H1
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
H24 H24
H25 H25
H26 H26