Atom Nomenclature for 0GE

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 0GE

Atom Name (V3) Atom Name (V2)
C11 C11
C21 C21
C3 C3
C4 C4
C4A C4A
C5 C5
C6 C6
C7 C7
C8 C8
C8A C8A
N3 N3
CM1 CM1
CM2 CM2
S S
O1S O1S
O2S O2S
N N
CA CA
C C
O O
CB CB
CG CG
CD CD
OE1 OE1
OE2 OE2
N1 N1
CA1 CA1
C1 C1
O1 O1
N2 N2
CA2 CA2
C2 C2
O2 O2
CB1 CB1
CG1 CG1
CD1 CD1
NE NE
CZ CZ
NH1 NH1
NH2 NH2
CM CM
CL CL
H21 H21
H3 H3
H4 H4
H6 H6
H7 H7
H8 H8
HM11 HM11
HM12 HM12
HM13 HM13
HM21 HM21
HM22 HM22
HM23 HM23
H H
HA HA
HB2 HB2
HB3 HB3
HG2 HG2
HG3 HG3
HE2 HE2
H1 H1
HA2 HA2
HA3 HA3
H2 H2
HA1 HA1
H37 H37
H38 H38
HB21 HB21
HB31 HB31
HG21 HG21
HG31 HG31
HD2 HD2
HD3 HD3
HE HE
HH1 HH1
HH21 HH21
HH22 HH22
HM1 HM1
HM2 HM2