Atom Nomenclature for H1B

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 H1B

Atom Name (V3) Atom Name (V2)
C01 C01
C05 C05
N08 N08
C09 C09
C11 C11
C12 C12
C13 C13
C15 C15
C17 C17
C19 C19
C20 C20
C22 C22
F23 F23
F24 F24
F25 F25
C26 C26
S27 S27
C28 C28
C29 C29
C31 C31
C32 C32
O33 O33
C34 C34
N35 N35
N37 N37
C39 C39
C41 C41
C44 C44
S47 S47
O48 O48
O49 O49
C50 C50
C53 C53
H011 H011
H012 H012
H013 H013
H051 H051
H052 H052
H09 H09
H13 H13
H20 H20
H15 H15
H17 H17
H29 H29
H351 H351
H352 H352
H39 H39
H411 H411
H412 H412
H531 H531
H532 H532
H441 H441
H442 H442
H501 H501
H502 H502