Atom Nomenclature for GR5

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 GR5

Atom Name (V3) Atom Name (V2)
S51 S1
N52 N1
C53 C1
N54 N2
C55 C2
C56 C3
C57 C4
C2 C5
C3 C6
C4 C7
C5 C8
C6 C9
C7 C10
S8 S2
O9 O1
O10 O2
N11 N3
C12 C11
C13 C12
C14 C13
C15 C14
C16 C15
C17 C16
O18 O3
C19 C17
N20 N4
C21 C18
O22 O4
O23 O5
C32 C19
C33 C20
C34 C21
C35 C22
C36 C23
C37 C24
C38 C25
F61 F1
F62 F2
C24 C26
C25 C27
C26 C28
C27 C29
O28 O6
C29 C30
C30 C31
C31 C32
C41 C33
C42 C34
O43 O7
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
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