Atom Nomenclature for M1V

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 M1V

Atom Name (V3) Atom Name (V2)
OA OA
C1A C1A
NA NA
C2A C2A
CMA CMA
C3A C3A
CAA CAA
CBA CBA
C4A C4A
CHA CHA
C1B C1B
C2B C2B
CMB CMB
C3B C3B
CAB CAB
CBB CBB
CGB CGB
O2B O2B
O1B O1B
NB NB
C4B C4B
CHB CHB
C1C C1C
C2C C2C
CAC CAC
CBC CBC
CGC CGC
O2C O2C
O1C O1C
C3C C3C
CMC CMC
NC NC
C4C C4C
CHC CHC
C1D C1D
C2D C2D
CMD CMD
ND ND
C4D C4D
OD OD
C3D C3D
CAD CAD
CBD CBD
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
H7 H7
H8 H8
H9 H9
H11 H11
H12 H12
H13 H13
H14 H14
H15 H15
H16 H16
H17 H17
H18 H18
H19 H19
H20 H20
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
H29 H29
H31 H31
H33 H33
H34 H34
H35 H35
H36 H36
H37 H37
H38 H38
H39 H39
H40 H40
H41 H41
H10 H10