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. Author manuscript; available in PMC: 2013 May 25.
Published in final edited form as: J Chem Inf Model. 2012 Apr 24;52(5):1199–1212. doi: 10.1021/ci300064d

Table 1.

List of the atom type definitions, radius parameters for SAS calculations and the weights of the WSAS entropy model when k in Eq. 4 is set to 0.461.

Atom Type Radius (Å) Weight (cal/(molKÅ2)) Definition
h1 1.2 0.1676 Hydrogen on aliphatic carbon with one electron-withdrawal group
h2 1.2 0.1539 Hydrogen on aliphatic carbon with two electron-withdrawal groups
h3 1.2 0.1656 Hydrogen on aliphatic carbon with three electron-withdrawal groups
h4 1.2 0.1708 Hydrogen on aromatic carbon with one electron-withdrawal group
h5 1.2 0.1551 Hydrogen on aromatic carbon with two electron-withdrawal groups
ha 1.2 0.1525 Hydrogen bonded to sp1 and sp2 carbon
hc 1.2 0.1670 Hydrogen bonded to sp3 carbon
hn 1.2 0.1605 Hydrogen bonded to nitrogen
ho 1.2 0.0984 Hydrogen bonded to oxygen
hs 1.2 0.1225 Hydrogen bonded to sulfur
hp 1.2 0.1274 Hydrogen bonded to phosphorus
hw same as ho Hydrogen of water
hx same as h3 Hydrogen on aliphatic carbon next to a positively charged group
c 1.74 0.0881 sp2 carbon in C=O and C=S
c1 1.74 0.0974 sp1 carbon
c2 1.74 0.0374 sp2 carbon, aliphatic
c3 1.74 −0.0419 sp3 carbon, aliphatic
ca 1.74 0.0352 sp2 carbon, aromatic
cc/cd 1.74 0.0308 Inner sp2 carbon in conjugated ring systems
ce/cf 1.74 0.0321 Inner sp2 carbon in conjugated chain systems
cg/ch 1.74 0.1080 Inner sp1 carbon in conjugated ring systems
cp/cq 1.74 0.0260 bridge sp2 carbon in biphenyl
cu same as c2 sp2 carbon in three-membered rings
cv same as c2 sp2 carbon in four-membered rings
cx same as c3 sp3 carbon in three-membered rings
cy same as c3 sp3 carbon in four-membered rings
cz same as c2 sp2 carbon in guanidine
n 1.54 0.0194 sp2 nitrogen in amides
n1 1.54 0.1824 sp1 nitrogen
n2 1.54 0.1647 sp2 nitrogen with two substituents, real double bond formed
n3 1.54 0.0393 sp3 nitrogen with three substituents
n4 1.54 −0.0421 sp3 nitrogen with four substituents
na 1.54 0.0585 sp2 nitrogen with three substituents
nb 1.54 0.1271 sp2 nitrogen in aromatic systems, such as pyridine
nc/nd 1.54 0.1426 Inner sp2 nitrogen in conjugated ring systems
ne/nf 1.54 0.1398 Inner sp2 nitrogen in conjugated chain systems
nh 1.54 0.0317 Amine nitrogen bonded to aromatic rings
no 1.54 0.1343 Nitrogen in nitro groups
o 1.4 0.2022 sp2 oxygen in C=O and COO
oh 1.4 0.2105 sp3 oxygen in hydroxyl groups
os 1.4 0.1804 sp3 oxygen in ethers and esters
s 2.0 0.1592 sp1 or sp2 sulfur (P=S, C=S, etc.)
s4 2.0 0.1590 Hypervalent sulfur, three substituents
s6 2.0 0.0900 Hypervalent sulfur, four substituents
sh 2.0 0.1674 sp3 sulfur in thiol groups
ss 2.0 0.1717 sp3 sulfur other than ‘sh’, two substituents
sx same as s4 Conjugated sulfur, three substituents
sy same as s6 Conjugated sulfur, four substituents
p2 2.0 0.1821 sp2 phosphorus (C=P, etc.)
p3 2.0 0.1435 sp2 phosphorus, three substituents
p5 2.0 0.0846 hypervalent phosphorus, four substituents
pc/pd same as p2 Inner sp2 phosphorus in conjugated ring systems
pe/pf same as p2 Inner sp2 phosphorus in conjugated chain systems
p4 same as p5 hypervalent phosphorus, three substituents
px same as p5 Conjugated phosphorus, three substituents
py same as p5 Conjugated phosphorus, four substituents
f 1.6 0.1992 Any fluorine
cl 1.79 0.2101 Any chlorine
br 2.04 0.2025 Any bromine
i 2.15 0.2012 Any iodine
si 2.1 0.0594 Any silicon
fe 2.0 0.0000 Iron
consta 34.7177 Intercept of multiple linear regression
nt