APPENDIX 2 XED/COSMIC ATOM TYPES

XED/Cosmic Atom Types - their definitions with hints on their allocation

(nat= atomic number. 'itype' = XED atom type)

'nat''ityp'typeSpecial Description ValenceHints on Allocation
6 1C sp3 tetrahedral 4
6 2 C sp2trigonal 3 Non-aromatic or heterocycle
63 C aromatictrigonal3
6 4 C sp linear2
75N sp3+tetrahedral 4 N cation
76 N sp3tetrahedral3 N-pyramidal only
7 7N azidetrigonal2Azide only
78N sp2 digonal 2Always 2 valent =bond
7 9 N trig trigonal planar 3Flat- peptide, amide
810 Osp3digonal 2
811O sp2trigonal1 Carbonyl only
16 12 S sp3 tetrahedral 6
16 13 S sp2 trigonal 11 valent only (cf. carbonyl)
5 14 Ptetrahedral 6
115H single 1
916 Fsingle 1
17 17CL single 1
35 18 BR single 1
53 19 I single 1
xx 20 Metal User defined x
0 21 Dummy single 1
8 22 O (NO2,NO3-,etc) 1.5 1Uncharged O see special
7 23 N sp(CN) triple 1Nitrile only
8 24 O (PO &SO) double2 & > Uncharged O see special
7 25 Nsp2+ trigonal 3Cation guanidinium, pyridinium etc
8 26 Osp3single 1Anion only- carboxylate
827 Notional Anion
828 Notional Cation
-5 29 -ve Field points
-6 29 +ve Field points
-7 29 Surface Field points
-2 30 lp ("rabbits ear" & tetrahedra) Not used
-1 31 pz pi (PI points) XED
-2 32 py lp (90degs to pi - single valence) XED
-3 33 px1 lp (linear to sigma/pi bond- inner) XED
-3 34 px2 lp (linear to sigma/pi bond- outer) XED
-4 35 px3 lp (bond point) XED
-4 36 hpt (Hydrogen bond point) Not used

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