PatternQuery:Atlas

RNA kink-turn motif (Kt-7)

Example from 1ffk protein.

PQ expression

 Near(4, 
  RegularMotifs(’GGCGAAGAAC’, Type=’Nucleotide’), 
  RegularMotifs(’GGGAGCC’, Type=’Nucleotide’))

Some description goes here

C2H2 Zinc finger

Example from 4r2a protein.

PQ expression

RegularMotifs('.{2}C.{2,4}C.{12}H.{3,5}H').
	  ConnectedAtoms(1).
	  Filter(lambda m:
	    m.Find(Atoms('Zn').
              ConnectedResidues(1).
              Filter(lambda n: 
			(n.Count(Residues('Cys')) == 2) & (n.Count(Residues('His')) == 2))).
		SeqCount() > 0)

Some description goes here

PA-IIL lectin inding site

Example from 1gzt protein.

PQ expression

	
Near(4, Atoms("Ca"), Atoms("Ca"))
  .ConnectedResidues(1)
  .Filter(lambda l:
    l.Count(Or(Rings(5 * ["C"] + ["O"]), Rings(4 * ["C"] + ["O"]))) > 0)
  .Filter(lambda l: l.Count(Atoms("P")) == 0)

Some description goes here