Atom Nomenclature for 5HV

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 5HV

Atom Name (V3) Atom Name (V2)
C01 C1
C05 C2
N08 N1
C09 C3
C12 C4
C16 C5
C19 C6
N22 N2
C23 C7
C26 C8
C27 C9
C29 C10
C31 C11
C32 C12
C34 C13
C36 C14
C37 C15
C39 C16
C41 C17
C42 C18
C44 C19
C46 C20
F47 F1
F48 F2
F49 F3
C50 C21
O51 O1
C52 C22
N55 N3
C56 C23
C57 C24
C60 C25
C63 C26
C66 C27
C67 C28
O68 O2
N69 N4
C70 C29
S71 S1
C72 C30
C75 C31
C76 C32
C78 C33
C80 C34
F81 F4
C82 C35
C84 C36
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
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