Atom Nomenclature for 2E2

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 2E2

Atom Name (V3) Atom Name (V2)
O2 O2
C2 C2
N3 N3
C4 C4
O4 O4
C5 C5
CAR CAR
C6 C6
N1 N1
CAJ CAJ
OAF OAF
CAI CAI
CAG CAG
OAH OAH
CAE CAE
CAC CAC
OAD OAD
CAB CAB
PAA PAA
OBB OBB
OBA OBA
OBC OBC
CAU CAU
CAV CAV
CAW CAW
CAX CAX
CCA CCA
OCB OCB
OCA OCA
CAY CAY
CAZ CAZ
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