Molecular orientation of L-alanine and structure model of racemic alanine on Cu(001) have been studied by RAIRS, LEED, and STM. The appearance of characteristic frequencies of the NH2 wagging, the symmetric stretch of carboxylate group (COO-), the symmetric CH3 stretch, and the C*-H (C* denotes a chiral carbon) bending modes in RAIRS is consistent with an ad sorption configuration in which alanine molecule is bonded to three Cu a toms through the two oxygen a toms of carboxylate group and the nitrogen atom of amino group in its anionic form with the methyl group standing up over near bridge sites. In the adlayer, hydrogen bonds between the hydrogen atoms of the amino group and the oxygen atom of the carboxylate group contribute to assemble D(L)-alanine molecules along [(1) over bar 30] ([(3) over bar 10]) as well as [110] directions with a c(2 x 4) periodicity. In the adsorption of racemic mixtures, DL-alanine, D- and L-alanine molecules segregate to form their own c(2 x 4) domains, thus creating the boundary lines along the [110] direction. A submolecular resolution STM image of these domains exhibits distinction between some functional groups and the surrounding intermolecular hydrogen bonds along the [(1) over bar 30] or [(3) over bar 10] direction. In the submolecular resolution STM, it is most reasonably interpreted that intermolecular network between adsorption alanines is connected by N-H-1 center dot center dot center dot O-2 and N-H-2 center dot center dot center dot O-2 hydrogen bonds to form cacti homochiral domain and the bond at the domain boundary is enhanced by scanning tip which is most probably modified.