The design was made with a 2-step rosetta fold diffusion protocol. In the first step, a binder of 100-120 AA length was designed using RFD3 on the hot spot residues 81, 103 of RBX1, targeting the well-folded stable region of the target protein. The designs were checked with Alphafold 3 and filtered based on rmsd with the original design. The ones that meet the 3 Ã… rmsd cut off are refined for sequence using Protein MPNN. The diversified designs are checked with alphafold 3 and filtered for pae_AxB < 3. Designs of different folds that meet the cut off are then moved to step 2. In the second step, 100-120 AA was appended to the binders from step 1 using RFD3, targeting hotspot residues 33 and 74, the N-terminal flexible region of the target. The designs are checked with alphafold 3 and filtered based on rmsd, before diversified with protein MPNN and checked again with alphafold 3. The designs that have rmsd < 2 Ã… from the original design, overall pae_AxB < 4, and with pae_Apo (the binder alone without target) < 3 are chosen for submission.
id: mellow-owl-onyx
No preview available
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--
--
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219
id: silent-wolf-lotus

RBX1
0.89
86.75
--
23.3 kDa
219
id: bright-bee-marble
No preview available
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--
--
--
--
228
id: crimson-eagle-lotus
No preview available
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--
--
--
--
223
id: rapid-seal-sand

RBX1
0.61
88.42
--
24.7 kDa
228
id: deep-panther-bronze
No preview available
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--
--
--
--
228
id: rapid-toad-dust
No preview available
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--
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219
id: lunar-raven-vine

RBX1
0.21
88.02
--
22.9 kDa
223
id: lunar-bee-quartz
No preview available
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--
--
--
--
219
id: jade-falcon-stone

RBX1
0.82
84.13
--
24.4 kDa
223
id: amber-falcon-moss
No preview available
RBX1
0.83
85.33
--
24.7 kDa
228
id: silver-moth-vine

RBX1
0.07
53.54
--
23.5 kDa
219
id: quick-tiger-granite

RBX1
0.61
60.48
--
24.2 kDa
223
id: calm-eagle-bronze
No preview available
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--
--
--
--
219
id: brisk-orca-ice

RBX1
0.39
88.00
--
24.9 kDa
228
id: noble-ram-pine

RBX1
0.25
84.18
--
23.4 kDa
223
id: rough-zebra-leaf
No preview available
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--
--
--
219
id: pale-bee-lava
No preview available
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--
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219
id: rough-heron-reed

RBX1
0.16
87.78
--
23.4 kDa
219
id: ivory-boar-thorn

RBX1
0.82
66.28
--
24.3 kDa
223
id: soft-panther-marble

RBX1
0.82
87.59
--
24.8 kDa
228