Atom Nomenclature for 9U8

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 9U8

Atom Name (V3) Atom Name (V2)
C3 C1
C31 C2
C4 C3
C5 C4
O1 O1
N2 N1
C C5
C1 C6
O O2
C2 C7
C7 C8
C6 C9
N N2
C8 C10
O2 O3
N1 N3
C9 C11
C10 C12
C11 C13
C12 C14
C13 C15
C14 C16
O3 O4
C15 C17
C16 C18
C17 C19
O4 O5
C18 C20
C19 C21
C20 C22
C21 C23
C22 C24
C23 C25
C24 C26
C25 C27
C26 C28
C27 C29
C28 C30
S S1
O5 O6
O6 O7
C29 C31
N3 N4
C33 C32
C32 C33
C30 C34
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
H29 H29
H30 H30
H31 H31
H32 H32
H33 H33
H34 H34
H35 H35
H36 H36
H37 H37
H38 H38
H39 H39
H40 H40
H41 H41
H42 H42