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Can the NVIDIA L40S 48GB run AlphaFold 2?
Yes — here's how fast and up to what context, with real measured numbers.
AlphaFold 2 on the NVIDIA L40S 48GB
| Quant | Fits? | Max context | Speed | Beyond context |
|---|---|---|---|---|
| FP16 | yes | 648k | 3391-4041.3 t/s | ~157-187.1 (slow) |
| Q8 | yes | 650k | 6781.9-8082.6 t/s | ~314-374.2 (slow) |
| Q4 | yes | 650k | 12110.6-14433.2 t/s | ~560.7-668.2 (slow) |
Estimate (memory-bound). Beyond "max context" the KV cache spills to system RAM offload (depends on your system RAM) and speed drops to the "beyond" figure.
FAQ
Can the NVIDIA L40S 48GB run AlphaFold 2?▶
Yes. At Q4 it generates ~12110.6-14433.2 tok/s and fits up to 650k context; beyond that it spills to system RAM offload (depends on your system RAM) and slows to ~560.7-668.2 tok/s.
How much context fits?▶
At Q4, up to about 650k tokens stay in fast memory; longer context spills to system RAM offload (depends on your system RAM) and throughput collapses.