Atom Nomenclature for 4GW

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 4GW

Atom Name (V3) Atom Name (V2)
CBD CBD
OAD OAD
CBE CBE
SBB SBB
CAP CAP
CAQ CAQ
CBF CBF
CBG CBG
CAR CAR
CBH CBH
OAE OAE
NAV NAV
CBI CBI
OAF OAF
NBS NBS
C1' C1'
O4' O4'
C2' C2'
O2' O2'
C3' C3'
O3' O3'
C4' C4'
C5' C5'
O5' O5'
PBT PBT
OAN OAN
OAG OAG
OBA OBA
PBU PBU
OAO OAO
OAH OAH
O1 O1
H1 H1
H4 H4
H5 H5
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