Atom Nomenclature for 2GJ

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 2GJ

Atom Name (V3) Atom Name (V2)
C25 C25
C26 C26
O27 O27
C28 C28
C29 C29
N24 N24
C23 C23
C20 C20
C21 C21
C22 C22
C19 C19
C18 C18
C7 C7
C3 C3
C2 C2
C8 C8
O9 O9
N10 N10
C11 C11
C12 C12
N1 N1
O5 O5
C4 C4
C6 C6
C13 C13
C14 C14
C30 C30
C32 C32
C31 C31
C15 C15
O34 O34
C16 C16
C17 C17
O33 O33
H251 1H25
H252 2H25
H261 1H26
H262 2H26
H281 1H28
H282 2H28
H291 1H29
H292 2H29
H231 1H23
H232 2H23
H21 H21
H19 H19
H22 H22
H18 H18
H10 H10
H111 1H11
H112 2H11
H121 1H12
H122 2H12
H123 3H12
H13 H13
H30 H30
H321 1H32
H322 2H32
H323 3H32
H311 1H31
H312 2H31
H313 3H31
H34 H34
H16 H16
H33 H33