Atom Nomenclature for 0EO

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 0EO

Atom Name (V3) Atom Name (V2)
O1 O1
C C1
O2 O2
CT C2
C1 C3
C2 C4
C3 C5
C4 C6
O11 O4
CA1 C7
CM C8
CH C9
OH O5
CA C10
N N1
CB C11
CG C12
CD1 C13
CD2 C14
CE1 C15
CE2 C16
CZ C17
N1 N2
CA2 C18
CB1 C19
CG1 C20
CD11 C21
CD21 C22
CE11 C23
CE21 C24
CZ1 C25
CH1 C26
OH1 O7
CM1 C27
C5 C28
O O8
N2 N3
CA3 C29
C6 C30
O3 O10
CB2 C31
CG2 C32
CD12 C33
CD22 C34
OXT O11
H11 H1
H12 H2
H13 H3
H21 H4
H22 H5
H23 H6
H31 H7
H32 H8
H33 H9
HA1 H11
HM H12
HA H13
H H14
HB2 H16
HB3 H17
HD1 H18
HD2 H19
HE1 H20
HE2 H21
HZ H22
HCH H23
HO1 H24
HM1 H25
HA2 H26
H1 H28
HA3 H30
HB21 H31
HB31 H32
HG H33
HD12 H34
HD13 H35
HD23 H36
HD22 H37
HE12 H38
HE13 H39
HE23 H40
HE22 H41
HZ2 H42
HZ3 H43
HH H44
HO H45
HM11 H46
HM2 H47
H2 H49
HA4 H51
HB22 H52
HB32 H53
HG1 H54
HD11 H55
HD14 H56
HD15 H57
HD21 H58
HD24 H59
HD25 H60
HXT H61