Atom Nomenclature for RR2

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 RR2

Atom Name (V3) Atom Name (V2)
CA1 CA1
CA2 CA2
CA3 CA3
NA1 NA1
CA4 CA4
CA5 CA5
CA6 CA6
CA7 CA7
CA8 CA8
NA2 NA2
CA9 CA9
CA0 CA0
CAA CAA
CAB CAB
CB1 CB1
CB2 CB2
CB3 CB3
NB1 NB1
CB4 CB4
CB5 CB5
CB6 CB6
CB7 CB7
CB8 CB8
NB2 NB2
CB9 CB9
CB0 CB0
CBA CBA
CBB CBB
CC1 CC1
CC2 CC2
CC3 CC3
NC1 NC1
CC4 CC4
CC5 CC5
CC6 CC6
CC7 CC7
CC8 CC8
NC2 NC2
CC9 CC9
CC0 CC0
CCA CCA
CCB CCB
CD1 CD1
CD2 CD2
CD3 CD3
ND1 ND1
CD4 CD4
CD5 CD5
CD6 CD6
CD7 CD7
CD8 CD8
ND2 ND2
CD9 CD9
CD0 CD0
CDA CDA
CDB CDB
RU1 RU1
RU2 RU2
C11 C11
C10 C10
C12 C12
C13 C13
C9B C9B
C9A C9A
N9 N9
N14 N14
C8C C8C
C8D C8D
C4A C4A
N4 N4
C3 C3
C2 C2
C1 C1
C8B C8B
C8A C8A
C4B C4B
C8 C8
C7 C7
C6 C6
N5 N5
C31 C31
C30 C30
C32 C32
C33 C33
C9D C9D
C9C C9C
N29 N29
N N
C8G C8G
C8H C8H
C4C C4C
N24 N24
C23 C23
C22 C22
C21 C21
C8F C8F
C8E C8E
C4D C4D
C28 C28
C27 C27
C26 C26
N25 N25
H1 H1
H2 H2
H3 H3
H4 H4
H5 H5
H6 H6
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
H20 H20
H21 H21
H22 H22
H23 H23
H24 H24
H25 H25
H26 H26
H27 H27
H28 H28
H29 H29
H30 H30
H31 H31
H32 H32
H33 H33
H34 H34
H35 H35
H36 H36
H37 H37
H38 H38
H39 H39
H40 H40
H41 H41
H42 H42
H43 H43
H44 H44
H45 H45
H46 H46
H47 H47
H48 H48
H49 H49
H50 H50