Atom Nomenclature for 2Y5

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 2Y5

Atom Name (V3) Atom Name (V2)
C1 C1
O1 O1
P1 P1
C2 C2
O2 O2
C3 C3
O3 O3
C4 C4
O4 O4
P4 P2
C5 C5
O5 O5
C6 C6
O6 O6
C7 C7
C8 C8
C9 C9
C10 C10
C11 C11
O11 O7
C12 C12
O12 O8
C13 C13
O13 O9
C14 C14
C15 C15
C16 C16
O16 O10
C17 C17
O17 O11
C18 C18
O18 O12
C19 C19
O19 O13
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
C26 C26
C27 C27
C28 C28
C29 C29
C30 C30
C31 C31
C32 C32
C33 C33
C34 C34
C35 C35
C36 C36
C37 C37
C38 C38
C39 C39
C40 C40
C41 C41
O41 O14
C42 C42
O42 O15
C43 C43
O43 O16
C44 C44
C45 C45
C46 C46
C47 C47
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
H25 H25
H27 H27
H28 H28
H29 H29
H31 H31
H33 H33
H34 H34
H35 H35
H37 H37
H39 H39
H40 H40
H41 H41
H43 H43
H45 H45
H46 H46
H47 H47
H48 H48
H49 H49
H50 H50
H51 H51
H52 H52
H53 H53
H54 H54
H55 H55
H56 H56
H57 H57
H58 H58
H59 H59
H60 H60
H61 H61
H62 H62
H63 H63
H64 H64
H65 H65
H66 H66
H67 H67
H68 H68
H69 H69
H70 H70
H71 H71
H72 H72
H73 H73
H74 H74
H75 H75
H76 H76
H77 H77
H78 H78
H79 H79
H80 H80
H81 H81
H82 H82
H83 H83
H84 H84
H85 H85
H86 H86
H87 H87
H88 H88
H89 H89
H90 H90
H91 H91
H92 H92