define mjg  c.n4,a.n6,t.o4,g.o6,g.n7,a.n7,t.c5m,c.c5,g.c8,a.c8,t.c6,c.c6,g.c5,a.c5 
define mig  c.o2,t.o2,g.n3,g.n2,a.n3,a.c2 
define tocompl t.o4,t.n3,c.n4,c.n3,c.o2,g.o6,g.n1,g.n2,a.n6,a.n1 
define basen c.c2,c.c4,c.n1,t.c4,t.c2,t.c5,t.n1,g.c2,g.c4,g.n9,g.c6,a.c4,a.n9,a.c6
define base  mjg,mig,tocompl,basen                                       
define polarR *.O?* 
define polarP *.O?P 
define polarB (oxygen,nitrogen) and mjg
define polarM (oxygen,nitrogen) and mig
define npolarR *.C?*
define npolarP *.P 
define npolarMjg carbon and mjg
define npolarMig carbon and mig
select within(3.5,polarR) and (nitrogen,oxygen) and protein
select within(3.5,polarP) and (nitrogen,oxygen) and protein
select within(3.5,polarB) and (nitrogen,oxygen) and protein  
select within(3.5,polarM) and (nitrogen,oxygen) and protein
select within(4.5,npolarR) and carbon and protein
select within(4.5,npolarP) and carbon and protein                                             
select within(4.5,npolarB) and carbon and protein
select within(4.5,npolarM) and carbon and protein