Atom Nomenclature for 48T

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 48T

Atom Name (V3) Atom Name (V2)
N1 N1
CA1 CA1
C1 C1
O11 O11
CB1 CB1
CG1 CG1
CD1 CD1
OE1 OE1
O12 O12
N2 N2
CA2 CA2
C2 C2
O2 O2
CB2 CB2
SG2 SG2
CZ4 CZ4
CE4 CE4
CD4 CD4
CG4 CG4
CB4 CB4
CH4 CH4
CH5 CH5
CB5 CB5
CG5 CG5
CD5 CD5
CE5 CE5
CZ5 CZ5
O5 O5
N3 N3
CA3 CA3
C3 C3
C13 C13
O31 O31
C14 C14
O32 O32
H11N H11N
H12N H12N
HA1 HA1
HB11 HB11
HB12 HB12
H11 H11
HG11 HG11
HG12 HG12
H2 H2
HA2 HA2
HB21 HB21
HB22 HB22
H3 H3
H131 H131
H132 H132
HB4 HB4
HG4 HG4
HD4 HD4
HE4 HE4
HZ4 HZ4
HZ5 HZ5
HB5 HB5
HE5 HE5
HG5 HG5
HA31 HA31
HA32 HA32
H32 H32