Atom Nomenclature for CA3

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 CA3

Atom Name (V3) Atom Name (V2)
N1 N1
C2 C2
N3 N3
C4 C4
C5 C5
C6 C6
N6 N6
N7 N7
C8 C8
N9 N9
C1' C1'
C2' C2'
O2' O2'
C3' C3'
O3' O3'
P3 P3
O31 O31
O32 O32
O33 O33
C4' C4'
O4' O4'
C5' C5'
O5' O5'
P1 P1
O11 O11
O12 O12
O6 O6
P2 P2
O21 O21
O22 O22
O7 O7
CP8 CP8
CP9 CP9
CPA CPA
CPB CPB
CP7 CP7
OP3 OP3
CP6 CP6
OP2 OP2
NP2 NP2
CP5 CP5
CP4 CP4
CP3 CP3
OP1 OP1
NP1 NP1
CP2 CP2
CP1 CP1
S S
CT2 CT2
CT3 CT3
CT4 CT4
CT5 CT5
C11 0CT1
CT6 CT6
NT6 NT6
CT7 CT7
CT9 CT9
CT8 CT8
CA1 CA1
CA2 CA2
OA2 OA2
NT1 NT1
CT1 CT1
CA3 CA3
CA4 CA4
CA5 CA5
H2 H2
H61 1H6
H62 2H6
H8 H8
H1' H1'
H2' H2'
HO'2 2HO'
H3' H3'
H32 H32
H33 H33
H4' H4'
H5'1 1H5'
H5'2 2H5'
H12 H12
H22 H22
HP91 1HP9
HP92 2HP9
HPA1 1HPA
HPA2 2HPA
HPA3 3HPA
HPB1 1HPB
HPB2 2HPB
HPB3 3HPB
HP7 HP7
HP3 HP3
HP2 HP2
HP51 1HP5
HP52 2HP5
HP41 1HP4
HP42 2HP4
HP1 HP1
HP21 1HP2
HP22 2HP2
HP11 1HP1
HP12 2HP1
HT21 1HT2
HT22 2HT2
HT10 0HT1
HT6 HT6
HNT6 6HNT
HT7 HT7
HT9 HT9
HT8 HT8
HA11 1HA1
HA12 2HA1
HT1 HT1
HT11 1HT1
HT12 2HT1
HA31 1HA3
HA32 2HA3
HA41 1HA4
HA42 2HA4
HA51 1HA5
HA52 2HA5