Atom Nomenclature for D1S

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 D1S

Atom Name (V3) Atom Name (V2)
CAA CAA
CAB CAB
CAC CAC
CAD CAD
CAE CAE
CAF CAF
CAG CAG
CAH CAH
NAI NAI
OAJ OAJ
OAK OAK
OAL OAL
OAM OAM
OAN OAN
CAO CAO
CAP CAP
CAQ CAQ
CAR CAR
CAS CAS
CAT CAT
CAU CAU
CAV CAV
CAW CAW
CAX CAX
NAY NAY
NAZ NAZ
OBA OBA
OBB OBB
OBC OBC
CBD CBD
CBE CBE
CBF CBF
CBG CBG
CBH CBH
CBI CBI
CBJ CBJ
CBK CBK
CBL CBL
CBM CBM
CBN CBN
CBO CBO
CBP CBP
CBQ CBQ
CBR CBR
NBS NBS
H1AA H1AA
H2AA H2AA
H3AA H3AA
H1AB H1AB
H2AB H2AB
H3AB H3AB
H1AC H1AC
H2AC H2AC
H3AC H3AC
H1AD H1AD
H2AD H2AD
H3AD H3AD
H1AE H1AE
H2AE H2AE
H3AE H3AE
H1AF H1AF
H2AF H2AF
H3AF H3AF
H1AG H1AG
H2AG H2AG
H3AG H3AG
H1AH H1AH
H2AH H2AH
H3AH H3AH
H1AI H1AI
H2AI H2AI
HOAN HOAN
HAO HAO
HAP HAP
HAQ HAQ
HAR HAR
HAS HAS
H1AT H1AT
H2AT H2AT
H1AU H1AU
H2AU H2AU
H1AV H1AV
H2AV H2AV
H1AW H1AW
H2AW H2AW
H1AX H1AX
H2AX H2AX
HNAY HNAY
HNAZ HNAZ
HBM HBM
HBN HBN
HBO HBO
HBP HBP
HBQ HBQ
HBR HBR