This Letter describes a new method for production of nanometer-sized protei
n patterns with precise control of the size and geometry. Self-assembled mo
nolayers (SAMs) are first patterned using nanografting, an atomic force mic
roscopy (AFM)-based lithographic method. Methyl-terminated n-alkanethiols s
erve as matrix layers within which nanopatterns of thiols with carboxylate
or aldehyde terminal groups are fabricated. By controlling solution conditi
ons, we selectively immobilize proteins on the patterned areas, through eit
her electrostatic interactions or covalent binding. In our approach, AFM ti
ps are used for both fabrication and characterization. AFM allows patterned
SAMs and proteins to be visualized in situ. The individual proteins within
the nanopatterns and their orientations can be clearly resolved from the A
FM images.