Atom Nomenclature for 0E8

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 0E8

Atom Name (V3) Atom Name (V2)
O1 O1
C C1
O2 O2
CT C2
C1 C3
C2 C4
C3 C5
C4 C6
O O4
CA C7
N N1
CB C8
CG C9
CD1 C10
CD2 C11
CE1 C12
CE2 C13
CZ C14
N1 N2
C21 C15
C31 C16
C5 C17
O3 O6
CA1 C18
N2 N3
CB1 C19
CG1 C20
CD11 C21
CD21 C22
CE11 C23
CE21 C24
CZ1 C25
O11 O8
C6 C26
O21 O9
CT1 C27
C11 C28
C22 C29
C32 C30
H11 H1
H12 H2
H13 H3
H21 H4
H22 H5
H23 H6
H31 H7
H32 H8
H33 H9
HC H11
HO H12
HA H14
H H15
HB2 H17
HB3 H18
HD1 H19
HD2 H20
HE1 H21
HE2 H22
HZ H23
HN1 H24
H221 H26
H231 H27
H321 H29
H331 H30
HC1 H31
HO1 H32
HA1 H34
H1 H35
HB21 H37
HB31 H38
HD11 H39
HD21 H40
HE11 H41
HE21 H42
HZ1 H43
H111 H44
H121 H45
H131 H46
H211 H47
H222 H48
H232 H49
H311 H50
H322 H51
H332 H52