Atom Nomenclature for 5TN

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 5TN

Atom Name (V3) Atom Name (V2)
CAA CAA
CAP CAP
CAQ CAQ
OAT OAT
CAX CAX
CAN CAN
CBA CBA
CBC CBC
CAB CAB
CAC CAC
CAR CAR
CAS CAS
CBD CBD
CAD CAD
CAE CAE
CBB CBB
CAO CAO
CAZ CAZ
CAY CAY
CAM CAM
CAW CAW
OAH OAH
CAL CAL
CAK CAK
CAV CAV
CAJ CAJ
CAI CAI
CAU CAU
OAG OAG
OAF OAF
HAG HAG
HAI HAI
HAJ HAJ
HAM HAM
HAH HAH
HAL HAL
HAK HAK
HAO HAO
HAN HAN
HAQ1 1HAQ
HAQ2 2HAQ
HAP1 1HAP
HAP2 2HAP
HAA1 1HAA
HAA2 2HAA
HAA3 3HAA
HAB1 1HAB
HAB2 2HAB
HAB3 3HAB
HAC1 1HAC
HAC2 2HAC
HAC3 3HAC
HAR1 1HAR
HAR2 2HAR
HAS1 1HAS
HAS2 2HAS
HAD1 1HAD
HAD2 2HAD
HAD3 3HAD
HAE1 1HAE
HAE2 2HAE
HAE3 3HAE