Atom Nomenclature for L1P

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 L1P

Atom Name (V3) Atom Name (V2)
C1 C1
O1 O1
C2 C2
O2 O2
C3 C3
O3 O3
P P
O1P O1P
O2P O2P
O3P O3P
C11 C11
C12 C12
C13 C13
C14 C14
C15 C15
C16 C16
C17 C17
C18 C18
C19 C19
C20 C20
C21 C21
C22 C22
C23 C23
C24 C24
C25 C25
C26 C26
C27 C27
C28 C28
C29 C29
C30 C30
C41 C41
C42 C42
C43 C43
C44 C44
C45 C45
C46 C46
C47 C47
C48 C48
C49 C49
C50 C50
C51 C51
C52 C52
C53 C53
C54 C54
C55 C55
C56 C56
C57 C57
C58 C58
C59 C59
C60 C60
H12 2H1
H11 1H1
H2 H2
H32 2H3
H31 1H3
HOP2 2HOP
HOP3 3HOP
H112 2H11
H111 1H11
H122 2H12
H121 1H12
H13 H13
H143 3H14
H142 2H14
H141 1H14
H152 2H15
H151 1H15
H162 2H16
H161 1H16
H172 2H17
H171 1H17
H18 H18
H193 3H19
H192 2H19
H191 1H19
H202 2H20
H201 1H20
H212 2H21
H211 1H21
H222 2H22
H221 1H22
H23 H23
H243 3H24
H242 2H24
H241 1H24
H252 2H25
H251 1H25
H262 2H26
H261 1H26
H272 2H27
H271 1H27
H28 H28
H293 3H29
H292 2H29
H291 1H29
H303 3H30
H302 2H30
H301 1H30
H412 2H41
H411 1H41
H422 2H42
H421 1H42
H43 H43
H443 3H44
H442 2H44
H441 1H44
H452 2H45
H451 1H45
H462 2H46
H461 1H46
H472 2H47
H471 1H47
H48 H48
H493 3H49
H492 2H49
H491 1H49
H502 2H50
H501 1H50
H512 2H51
H511 1H51
H522 2H52
H521 1H52
H53 H53
H543 3H54
H542 2H54
H541 1H54
H552 2H55
H551 1H55
H562 2H56
H561 1H56
H572 2H57
H571 1H57
H58 H58
H593 3H59
H592 2H59
H591 1H59
H603 3H60
H602 2H60
H601 1H60