Atom Nomenclature for AYH

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 AYH

Atom Name (V3) Atom Name (V2)
N1 N1
C3 C3
C5 C5
O7 O7
C9 C9
C12 C12
C14 C14
C18 C18
O19 O19
N20 N20
C22 C22
C25 C25
C28 C28
C31 C31
C35 C35
C38 C38
C39 C39
C41 C41
C43 C43
C45 C45
C47 C47
C49 C49
O50 O50
C51 C51
C53 C53
C56 C56
C58 C58
C61 C61
C64 C64
C67 C67
N68 N68
C70 C70
O71 O71
C72 C72
C76 C76
C80 C80
HN1 HN1
H3 H3
H5 H5
HO7 HO7
H9 H9
H9A H9A
H12 H12
H14 H14
H14A H14A
H14B H14B
HN20 HN20
H22 H22
H22A H22A
H25 H25
H25A H25A
H28 H28
H28A H28A
H31 H31
H31A H31A
H31B H31B
H35 H35
H35A H35A
H39 H39
H41 H41
H43 H43
H45 H45
H47 H47
H51 H51
H53 H53
H53A H53A
H56 H56
H58 H58
H58A H58A
H61 H61
H61A H61A
H64 H64
H64A H64A
HN68 HN68
H72 H72
H72A H72A
H72B H72B
H76 H76
H76A H76A
H76B H76B
H80 H80
H80A H80A
H80B H80B