Atom Nomenclature for 3N6

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 3N6

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
C3 C3
C4 C4
C5 C5
C6 C6
N8 N8
C9 C9
O10 O10
C11 C11
C13 C13
C14 C14
C15 C15
C16 C16
BR17 BR17
C18 C18
O19 O19
C20 C20
BR21 BR21
C22 C22
N23 N23
C24 C24
O25 O25
N26 N26
C27 C27
C28 C28
C29 C29
C30 C30
C31 C31
N32 N32
C33 C33
C34 C34
C35 C35
C36 C36
C37 C37
C38 C38
C39 C39
N40 N40
C41 C41
O42 O42
C43 C43
O44 O44
N45 N45
C46 C46
C47 C47
N48 N48
C49 C49
C50 C50
C51 C51
C52 C52
C53 C53
N54 N54
C55 C55
C56 C56
HN1 HN1
HN1A HN1A
H2 H2
H2A H2A
H3 H3
H3A H3A
H4 H4
H4A H4A
H5 H5
H5A H5A
H6 H6
HN8 HN8
H11 H11
H13 H13
H13A H13A
H15 H15
HO19 HO19
H22 H22
HN23 HN23
H27 H27
H27A H27A
H28 H28
H28A H28A
H29 H29
H30 H30
H30A H30A
H31 H31
H31A H31A
H33 H33
H33A H33A
H35 H35
H36 H36
H37 H37
H38 H38
HN40 HN40
H46 H46
H46A H46A
H47 H47
H47A H47A
H49 H49
H49A H49A
H50 H50
H50A H50A
H52 H52
H53 H53
H55 H55
H56 H56