Atom Nomenclature for J5H

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 J5H

Atom Name (V3) Atom Name (V2)
CBT C1
CBW C2
CAV C3
CAR C4
CAQ C5
CAU C6
CBV C7
CAW C8
CAT C9
CBU C10
CBR C11
OAF O1
SBO S1
CBA C12
CAY C13
NBH N1
CBP C14
OAD O2
CBB C15
CAZ C16
NBI N2
CBQ C17
OAE O3
CBZ C18
OAK O4
CCF C19
CAA C20
CAB C21
CBD C22
OBK O5
PCI P1
OAP O6
OAI O7
OBN O8
PCH P2
OAO O9
OAH O10
O5' O11
C5' C23
C4' C24
O4' O12
C3' C25
O3' O13
PCG P3
OAM O14
OAN O15
OAG O16
C2' C26
O2' O17
C1' C27
N9 N3
C8 C28
N7 N4
C5 C29
C4 C30
N3 N5
C2 C31
N1 N6
C6 C32
N6 N7
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