Atom Nomenclature for XIN

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 XIN

Atom Name (V3) Atom Name (V2)
C1 C1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
C7 C7
C11 C11
C12 C12
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C21 C21
C23 C23
C24 C24
O25 O25
O26 O26
C27 C27
C30 C30
C31 C31
C32 C32
C35 C35
C36 C36
C37 C37
C38 C38
C40 C40
O33 O33
N34 N34
N39 N39
N29 N29
C20 C20
N8 N8
C14 C14
C22 C22
C13 C13
C28 C28
N9 N9
O10 O10
H6 H6
H11 H11
H12 H12
H17 H17
H18 H18
H19 H19
H23 H23
H24 H24
H31 H31
H31A H31A
H31B H31B
H32 H32
H32A H32A
H35 H35
H35A H35A
H36 H36
H36A H36A
H37 H37
H37A H37A
H38 H38
H38A H38A
H40 H40
H40A H40A
H40B H40B
H20 H20
HN8 HN8
H14 H14
H22 H22
H13 H13
H28 H28
H28A H28A
H28B H28B
HN9 HN9