Atom Nomenclature for 4CA

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 4CA

Atom Name (V3) Atom Name (V2)
N1A AN1
C2A AC2
N3A AN3
C4A AC4
C5A AC5
C6A AC6
N6A AN6
N7A AN7
C8A AC8
N9A AN9
C1D AC1*
C2D AC2*
O2D AO2*
C3D AC3*
O3D AO3*
P3D AP3*
O7A AO7
O8A AO8
O9A AO9
C4D AC4*
O4D AO4*
C5D AC5*
O5D AO5*
P1A AP1
O1A AO1
O2A AO2
O3A AO3
P2A AP2
O4A AO4
O5A AO5
O6A AO6
CBP PC11
CCP PC12
CDP PC13
CEP PC14
CAP PC10
OAP PO10
C9P PC9
O9P PO9
N8P PN8
C7P PC7
C6P PC6
C5P PC5
O5P PO5
N4P PN4
C3P PC3
C2P PC2
S1P PS1
C1B BC1
C2B BC2
C3B BC3
C4B BC4
C5B BC5
O2B BO2
C6B BC6
C7B BC7
H2A AH2
H61A AH61
H62A AH62
H8A AH8
H1D AH1*
H2D AH2*
HO2A AHO2
H3D AH3*
HOA8 8HOA
HOA9 9HOA
H4D AH4*
H51A AH51
H52A AH52
HOA2 2HOA
HOA5 5HOA
H121 1H12
H122 2H12
H131 1H13
H132 2H13
H133 3H13
H141 1H14
H142 2H14
H143 3H14
H10 H10
HO1 HO1
HN8 HN8
H71 1H7
H72 2H7
H61 1H6
H62 2H6
HN4 HN4
H31 1H3
H32 2H3
H21 1H2
H22 2H2
H11 1H1
H12 2H1
H3B BH3
H4B BH4
HO2B BHO2
H6B BH6
H7B BH7