Atom Nomenclature for 0KV

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 0KV

Atom Name (V3) Atom Name (V2)
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
C12 C12
C13 C13
S S
O1S O1S
O2S O2S
N1 N1
C1 C1
O1 O1
CA1 CA1
CB1 CB1
CD1 CD1
CG1 CG1
C2 C2
N2 N2
O2 O2
CA2 CA2
C3 C3
N3 N3
O3 O3
C4 C4
C5 C5
C6 C6
CA3 CA3
CB3 CB3
CD3 CD3
NE3 NE3
CG3 CG3
CZ3 CZ3
NH1 NH1
NH2 NH2
H7 H7
H7A H7A
H9 H9
H10 H10
H11 H11
H12 H12
H13 H13
HA1 HA1
HN1 HN1
HB1 HB1
HB1A HB1A
HG1 HG1
HG1A HG1A
HD1 HD1
HD1A HD1A
HA2 HA2
HA2A HA2A
HN3 HN3
H4A H4A
H5A H5A
H6A H6A
HA3 HA3
HB3 HB3
HB3A HB3A
HD3 HD3
HD3A HD3A
HG3 HG3
HNH1 HNH1
HNHA HNHA
HNH2 HNH2
H3 H3
H4 H4
H5 H5
H6 H6