Atom Nomenclature for 3EF

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 3EF

Atom Name (V3) Atom Name (V2)
OAB OAB
CAH CAH
CAK CAK
CAL CAL
CAQ CAQ
CAR CAR
CBB CBB
OBJ OBJ
CBM CBM
CBP CBP
OAD OAD
PBY PBY
OAG OAG
CBX CBX
NBI NBI
CBE CBE
CBQ CBQ
CAS CAS
CAM CAM
CAI CAI
CAN CAN
CAT CAT
OAC OAC
CAJ CAJ
CAO CAO
CAP CAP
CAU CAU
CAV CAV
CBA CBA
CBC CBC
CBF CBF
NBG NBG
OBK OBK
CBN CBN
CBS CBS
CBT CBT
CBU CBU
CBV CBV
N N
CA CA
C C
O O
CB CB
CG CG
CD1 CD1
CD2 CD2
CE1 CE1
CE2 CE2
CZ CZ
OH OH
OXT OXT
HAH HAH
HAK HAK
HAL HAL
HAQ HAQ
HAR HAR
HBB HBB
HBBA HBBA
HOAG HOAG
HBX HBX
HNBI HNBI
HBE HBE
HBEA HBEA
HAS HAS
HAM HAM
HAI HAI
HAN HAN
HAT HAT
HAJ HAJ
HAO HAO
HAP HAP
HAU HAU
HAV HAV
HBAA HBAA
HBC HBC
HBCA HBCA
HBF HBF
HBFA HBFA
HBV HBV
HN HN
HA HA
HB HB
HBA HBA
HD1 HD1
HD2 HD2
HE1 HE1
HE2 HE2
HOH HOH
HOXT HOXT