Native Seqs
Protein model evaluated by the ProteinBench authors under their harness.
Overview
Protein model evaluated by the ProteinBench authors under their harness.
Consult the linked sources for architecture or protocol details. Missing evidence is not evidence of a missing capability.
Evaluations and results
12 evaluations · 12 results. Different protocols are not a single leaderboard.
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Applied filters: All linked evaluations
| Tested configuration | Protocol and dataset | Finding | Evidence and details |
|---|---|---|---|
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-100-DIVERSITY-MAX-CLUST: length 100, Diversity Max Clust. Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.75 max-clust score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-100-DIVERSITY-MAX-CLUST: length 100, Diversity Max Clust. Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 100, Diversity Max Clust. ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-100-DIVERSITY-PAIRWISE-TM: length 100, Diversity pairwise TM Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.55 ± 0.19 pairwise-tm score · lower Uncertainty: type: standard_deviation; value: 0.19 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-100-DIVERSITY-PAIRWISE-TM: length 100, Diversity pairwise TM Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 100, Diversity pairwise TM ↓) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-100-QUALITY-PLDDT: length 100, Quality pLDDT Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 68.46 ± 16.50 plddt score · higher Uncertainty: type: standard_deviation; value: 16.50 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-100-QUALITY-PLDDT: length 100, Quality pLDDT Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 100, Quality pLDDT ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-200-DIVERSITY-MAX-CLUST: length 200, Diversity Max Clust. Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.78 max-clust score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-200-DIVERSITY-MAX-CLUST: length 200, Diversity Max Clust. Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 200, Diversity Max Clust. ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-200-DIVERSITY-PAIRWISE-TM: length 200, Diversity pairwise TM Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.49 ± 0.10 pairwise-tm score · lower Uncertainty: type: standard_deviation; value: 0.10 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-200-DIVERSITY-PAIRWISE-TM: length 200, Diversity pairwise TM Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 200, Diversity pairwise TM ↓) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-200-QUALITY-PLDDT: length 200, Quality pLDDT Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 61.91 ± 11.62 plddt score · higher Uncertainty: type: standard_deviation; value: 11.62 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-200-QUALITY-PLDDT: length 200, Quality pLDDT Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 200, Quality pLDDT↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-300-DIVERSITY-MAX-CLUST: length 300, Diversity Max Clust. Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.85 max-clust score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-300-DIVERSITY-MAX-CLUST: length 300, Diversity Max Clust. Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 300, Diversity Max Clust. ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-300-DIVERSITY-PAIRWISE-TM: length 300, Diversity pairwise TM Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.51 ± 0.13 pairwise-tm score · lower Uncertainty: type: standard_deviation; value: 0.13 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-300-DIVERSITY-PAIRWISE-TM: length 300, Diversity pairwise TM Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 300, Diversity pairwise TM ↓) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-300-QUALITY-PLDDT: length 300, Quality pLDDT Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 61.49 ± 14.47 plddt score · higher Uncertainty: type: standard_deviation; value: 14.47 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-300-QUALITY-PLDDT: length 300, Quality pLDDT Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 300, Quality pLDDT ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-500-DIVERSITY-MAX-CLUST: length 500, Diversity Max Clust. Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.78 max-clust score · higher Uncertainty: Not reported Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-500-DIVERSITY-MAX-CLUST: length 500, Diversity Max Clust. Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 500, Diversity Max Clust. ↑) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-500-DIVERSITY-PAIRWISE-TM: length 500, Diversity pairwise TM Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 0.51 ± 0.11 pairwise-tm score · lower Uncertainty: type: standard_deviation; value: 0.11 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-500-DIVERSITY-PAIRWISE-TM: length 500, Diversity pairwise TM Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 500, Diversity pairwise TM ↓) |
| Configuration: Native Seqs | Task: ProteinBench SEQ-LENGTH-500-QUALITY-PLDDT: length 500, Quality pLDDT Dataset subset: Generated sequences at fixed lengths (ProteinBench split) | 62.95 ± 12.60 plddt score · higher Uncertainty: type: standard_deviation; value: 12.60 Coverage: Not reported scored / Not reported eligible | Author-reported evaluation · Source checkedMethods, coverage and sourceNative Seqs on ProteinBench SEQ-LENGTH-500-QUALITY-PLDDT: length 500, Quality pLDDT Unconditional sequence generation at a fixed length. Values are the mean and standard deviation over repeated runs. Aggregation: Not reported proteinbench primary benchmark evidence · Table 4, row(Native Seqs), column(length 500, Quality pLDDT↑) |
Source checking is not independent reproduction. Release 2026-09-29-06401fd5b220.
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Sources and history
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Release 2026-09-29-06401fd5b220 · Record review: source checked
1 source records and release history
- proteinbench primary benchmark evidence · Original source · 2409.06744v1
Technical metadata and extraction receipts
Stable ID: proteinbench-method-native-seqs
- areas
- proteins-complexes
- source locator
- Table 4, row(Native Seqs)
- missing metadata
- checkpoint revision: unreported; parameters: unextracted
Related records
- model: Native Seqs on ProteinBench SEQ-LENGTH-100-DIVERSITY-MAX-CLUST: length 100, Diversity Max Clust.
- model: Native Seqs on ProteinBench SEQ-LENGTH-100-DIVERSITY-PAIRWISE-TM: length 100, Diversity pairwise TM
- model: Native Seqs on ProteinBench SEQ-LENGTH-100-QUALITY-PLDDT: length 100, Quality pLDDT
- model: Native Seqs on ProteinBench SEQ-LENGTH-200-DIVERSITY-MAX-CLUST: length 200, Diversity Max Clust.
- model: Native Seqs on ProteinBench SEQ-LENGTH-200-DIVERSITY-PAIRWISE-TM: length 200, Diversity pairwise TM
- model: Native Seqs on ProteinBench SEQ-LENGTH-200-QUALITY-PLDDT: length 200, Quality pLDDT
- model: Native Seqs on ProteinBench SEQ-LENGTH-300-DIVERSITY-MAX-CLUST: length 300, Diversity Max Clust.
- model: Native Seqs on ProteinBench SEQ-LENGTH-300-DIVERSITY-PAIRWISE-TM: length 300, Diversity pairwise TM
- model: Native Seqs on ProteinBench SEQ-LENGTH-300-QUALITY-PLDDT: length 300, Quality pLDDT
- model: Native Seqs on ProteinBench SEQ-LENGTH-500-DIVERSITY-MAX-CLUST: length 500, Diversity Max Clust.
- model: Native Seqs on ProteinBench SEQ-LENGTH-500-DIVERSITY-PAIRWISE-TM: length 500, Diversity pairwise TM
- model: Native Seqs on ProteinBench SEQ-LENGTH-500-QUALITY-PLDDT: length 500, Quality pLDDT