Atom Nomenclature for CHL

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 CHL

Atom Name (V3) Atom Name (V2)
MG MG1
CHA C1
CHB C2
CHC C3
CHD C4
NA N1
C1A C5
C2A C6
C3A C7
C4A C8
CMA C9
CAA C10
CBA C11
CGA C12
O1A O1
O2A O2
NB N2
C1B C13
C2B C14
C3B C15
C4B C16
CMB C17
CAB C18
CBB C19
NC N3
C1C C20
C2C C21
C3C C22
C4C C23
CMC C24
OMC O3
CAC C25
CBC C26
ND N4
C1D C27
C2D C28
C3D C29
C4D C30
CMD C31
CAD C32
OBD O4
CBD C33
CGD C34
O1D O5
O2D O6
CED C35
C1 C36
C2 C37
C3 C38
C4 C39
C5 C40
C6 C41
C7 C42
C8 C43
C9 C44
C10 C45
C11 C46
C12 C47
C13 C48
C14 C49
C15 C50
C16 C51
C17 C52
C18 C53
C19 C54
C20 C55
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
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
H40 H40
H41 H41
H42 H42
H43 H43
H44 H44
H45 H45
H46 H46
H47 H47
H48 H48
H49 H49
H50 H50
H51 H51
H52 H52
H53 H53
H54 H54
H55 H55
H56 H56
H57 H57
H58 H58
H59 H59
H60 H60
H61 H61
H62 H62
H63 H63
H64 H64
H65 H65
H66 H66
H67 H67
H68 H68
H69 H69
H70 H70