Snake venom α-neurotoxins, invaluable pharmacological tools, bind with high affinity to distinct subtypes of nicotinic acetylcholine receptor. The combinatorial high-affinity peptide (HAP), homologous to the c-loop of α1 and α7 nAChR subunits, binds biotinylated α-bungarotoxin (αBgt) with nanomolar affinity and might be a protection against snake-bites. Since there are no data on HAP interaction with other toxins, we checked its binding of α-cobratoxin (αCtx), similar to αBgt in action on nAchRs. Using radioiodinated αBgt, we confirmed a high affinity of HAP for αBgt, the complex formation is supported by mass spectrometry and gel chromatography, but only weak binding was registered with αCtx. A combination of protein intrinsic fluorescence measurements with the principal component analysis of the spectra allowed us to measure the HAp-αBgt binding constant directly (29 nM). These methods also confirmed weak HAP interaction with αCtx (>10000 nM). We attempted to enhance it by modification of HAP structure relying on the known structures of α-neurotoxins with various targets and applying molecular dynamics. A series of HAp analogues have been synthesized, HAP[L9E] analogue being considerably more potent than HAP in αCtx binding (7000 nM). The proposed combination of experimental and computational approaches appears promising for analysis of various peptide-protein interactions. α-Neurotoxins are snake venom proteins serving as accurate tools in research on nicotinic acetylcholine receptors (nAChRs) (see reviews 1-3). Their valuable feature is the capacity to distinguish certain nAChRs subtypes: short-chain α-neurotoxins bind only to the muscle-type nAChRs, while the long ones, such as α-bungarotoxin (αBgt) and α-cobratoxin (αCtx), are blocking muscle-type nAChRs and the neuronal ones containing α7, α9 and α9/α10 subunits 4-6. The spatial structure of all α-neurotoxins consists of three β-structural loops, giving them the name of "three-finger" proteins (with the abbreviations 3FP or TFPs), their arrangement being maintained by 4 disulfide bridges in the short and by 5 disulfides in the long α-neurotoxins. Interestingly, the TFP family embraces not only numerous α-neurotoxins, but also diverse snake venom proteins acting specifically on different targets (ion channels, G-protein coupled receptors, enzymes) or, in the case of cytotoxins, just disrupting cell membranes (see 7). The interest to α-neurotoxins in recent years was invigorated by the discovery that some