PhysisBench · Validation Data Room

The fold, measured against the native.

Constraint-guided structure prediction and refinement, scored against real experimental references across a ladder of evidence — from full oracle distograms down to 80% masked, real wet-lab restraints, multi-source fusion, and SoI self-harvest. Every number below is an aggregate; expand any condition for the per-structure detail.

Proteins (PDB)

465

Total evaluations

0.06Å

Median Cα · full evidence

465

Runs · 0 severe clashes

General Benchmark · real references

A diverse panel, condition by condition.

A diverse panel of 38 real experimental proteins (12–107 residues, 20 X-ray / 18 NMR), folded across five evidence regimes — from a full oracle distogram down to 80% masked and ±3 Å noise, plus experimental restraints, fusion and refinement.

What the numbers say

Sub-Ångström where evidence is full; graceful where it is thin.

Under full distance evidence the engine reconstructs the fold to sub-Ångström accuracy — mean 0.29 Å, median 0.06 Å, 36 of 38 targets below 1 Å (median GDT-TS and Cα-lDDT both 100).
Accuracy degrades gracefully and monotonically as evidence is withdrawn or corrupted; the engine’s self-supplied gap-filling recovers most of the loss (sparse-regime mean 4.40 → 1.49 Å).
As a refiner of independent models it adds value where most needed — AlphaFold2 starts improve 3.82 → 1.88 Å, the gain concentrated on the poorly-predicted targets.
Every output is physically valid: zero severe steric clashes and zero rotamer outliers across all folds.

Physis Fold’s value is greatest precisely where generic single-sequence predictors are weakest — rescuing poor models and turning partial evidence into a valid all-atom structure.

Proteins

Conditions

430

Evaluations

1.59

Median Cα · Å

Evidence Ladder · self-masked from native

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

0% masked — full oracle (L0)

0.06 Å

0.29 Å

95%

97%

0.972

97.9

98.3

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2KNM	28	0.02 Å	1.000	100.0	100.0	2.66 Å	1.000	PASS_WITH_WARNINGS
1ENH	52	0.02 Å	1.000	100.0	100.0	3.08 Å	1.000	PASS_WITH_WARNINGS
1GB1	54	0.02 Å	1.000	100.0	100.0	2.67 Å	1.000	PASS_WITH_WARNINGS
2CRD	34	0.02 Å	1.000	100.0	100.0	2.31 Å	1.000	PASS
1IB9	32	0.02 Å	1.000	100.0	100.0	2.67 Å	1.000	PASS_WITH_WARNINGS
1SHG	55	0.03 Å	1.000	100.0	100.0	3.20 Å	1.000	PASS_WITH_WARNINGS
1VII	34	0.03 Å	1.000	100.0	100.0	2.79 Å	1.000	PASS_WITH_WARNINGS
1OMB	33	0.03 Å	1.000	100.0	100.0	2.79 Å	1.000	PASS_WITH_WARNINGS
1L2Y	18	0.03 Å	0.996	100.0	100.0	3.09 Å	1.000	PASS_WITH_WARNINGS
5WOW	37	0.03 Å	1.000	100.0	100.0	2.65 Å	1.000	PASS_WITH_WARNINGS
2CI2	63	0.03 Å	1.000	100.0	100.0	2.57 Å	1.000	PASS_WITH_WARNINGS
1CSP	65	0.04 Å	1.000	100.0	100.0	2.85 Å	0.994	PASS_WITH_WARNINGS
4PTI	56	0.04 Å	1.000	100.0	100.0	2.70 Å	1.000	PASS_WITH_WARNINGS
1POH	83	0.04 Å	1.000	100.0	100.0	2.66 Å	1.000	PASS_WITH_WARNINGS
1KTH	56	0.04 Å	1.000	100.0	100.0	3.04 Å	0.993	PASS_WITH_WARNINGS
1B3C	62	0.05 Å	1.000	100.0	100.0	2.69 Å	1.000	PASS_WITH_WARNINGS
1R1F	35	0.05 Å	0.999	100.0	100.0	2.80 Å	1.000	PASS_WITH_WARNINGS
1CTF	66	0.05 Å	1.000	100.0	100.0	2.28 Å	0.995	PASS
1SN3	63	0.06 Å	0.999	100.0	100.0	6.75 Å	1.000	PASS_WITH_WARNINGS
1EGF	51	0.06 Å	0.999	100.0	100.0	2.87 Å	0.993	PASS_WITH_WARNINGS
2ACY	96	0.07 Å	1.000	100.0	100.0	2.88 Å	1.000	PASS_WITH_WARNINGS
1HRC	102	0.07 Å	1.000	100.0	100.0	2.88 Å	1.000	PASS_WITH_WARNINGS
1UBQ	74	0.07 Å	0.999	100.0	100.0	2.72 Å	1.000	PASS_WITH_WARNINGS
1CRN	44	0.08 Å	0.998	100.0	100.0	2.60 Å	1.000	PASS_WITH_WARNINGS
1MSI	64	0.08 Å	0.999	100.0	100.0	2.95 Å	0.994	PASS_WITH_WARNINGS
1PT4	27	0.09 Å	0.993	100.0	100.0	2.22 Å	1.000	PASS
1TEN	88	0.09 Å	0.999	100.0	100.0	2.85 Å	1.000	PASS_WITH_WARNINGS
1NB1	27	0.09 Å	0.993	100.0	100.0	2.28 Å	0.985	PASS_WITH_WARNINGS
1HVZ	16	0.09 Å	0.967	100.0	100.0	2.45 Å	1.000	PASS
1TIT	87	0.12 Å	0.999	100.0	100.0	2.57 Å	0.996	PASS_WITH_WARNINGS
1JBL	12	0.24 Å	0.836	100.0	99.6	3.03 Å	0.933	PASS_WITH_WARNINGS
1YCC	103	0.29 Å	0.994	99.5	99.6	2.78 Å	0.970	PASS_WITH_WARNINGS
2YXF	97	0.40 Å	0.988	99.2	99.9	3.37 Å	0.980	PASS_WITH_WARNINGS
1NXB	60	0.57 Å	0.967	98.3	99.9	2.84 Å	0.987	PASS_WITH_WARNINGS
1HPH	35	0.82 Å	0.900	97.9	99.1	2.81 Å	0.961	PASS_WITH_WARNINGS
2HIU	47	0.94 Å	0.861	92.0	86.5	2.89 Å	0.900	PASS_WITH_WARNINGS
1FKF	105	1.65 Å	0.903	87.4	94.3	3.09 Å	0.947	PASS_WITH_WARNINGS
4INS	94	4.64 Å	0.546	44.7	58.3	5.84 Å	0.657	PASS_WITH_WARNINGS

50% masked (L1)

0.13 Å

0.67 Å

84%

89%

0.902

94.3

96.8

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2KNM	28	0.03 Å	0.999	100.0	100.0	2.33 Å	1.000	PASS
1IB9	32	0.04 Å	0.999	100.0	100.0	2.28 Å	0.988	PASS_WITH_WARNINGS
1SHG	55	0.05 Å	1.000	100.0	100.0	3.66 Å	1.000	PASS_WITH_WARNINGS
1ENH	52	0.05 Å	0.999	100.0	100.0	2.99 Å	1.000	PASS_WITH_WARNINGS
1OMB	33	0.05 Å	0.999	100.0	100.0	2.77 Å	1.000	PASS_WITH_WARNINGS
2CRD	34	0.06 Å	0.999	100.0	100.0	2.55 Å	1.000	PASS_WITH_WARNINGS
5WOW	37	0.06 Å	0.999	100.0	100.0	3.21 Å	0.989	PASS_WITH_WARNINGS
1GB1	54	0.06 Å	0.999	100.0	100.0	2.68 Å	0.992	PASS_WITH_WARNINGS
1CTF	66	0.07 Å	0.999	100.0	100.0	2.14 Å	1.000	PASS
1B3C	62	0.07 Å	0.999	100.0	100.0	2.62 Å	0.994	PASS_WITH_WARNINGS
1POH	83	0.08 Å	0.999	100.0	100.0	2.43 Å	0.992	PASS_WITH_WARNINGS
4PTI	56	0.09 Å	0.999	100.0	100.0	3.12 Å	0.987	PASS_WITH_WARNINGS
1KTH	56	0.09 Å	0.999	100.0	100.0	3.06 Å	0.993	PASS_WITH_WARNINGS
1CSP	65	0.09 Å	0.999	100.0	100.0	2.72 Å	0.994	PASS_WITH_WARNINGS
1SN3	63	0.09 Å	0.999	100.0	100.0	6.87 Å	0.995	PASS_WITH_WARNINGS
1CRN	44	0.10 Å	0.998	100.0	100.0	2.29 Å	1.000	PASS_WITH_WARNINGS
2CI2	63	0.10 Å	0.999	100.0	100.0	2.86 Å	1.000	PASS_WITH_WARNINGS
1MSI	64	0.12 Å	0.998	100.0	100.0	2.52 Å	0.989	PASS_WITH_WARNINGS
2ACY	96	0.13 Å	0.999	100.0	100.0	2.72 Å	0.986	PASS_WITH_WARNINGS
1EGF	51	0.13 Å	0.997	100.0	100.0	2.89 Å	0.985	PASS_WITH_WARNINGS
1UBQ	74	0.14 Å	0.998	100.0	100.0	2.93 Å	0.994	PASS_WITH_WARNINGS
1NB1	27	0.15 Å	0.980	100.0	99.8	2.10 Å	1.000	PASS
1L2Y	18	0.16 Å	0.917	100.0	100.0	3.10 Å	1.000	PASS_WITH_WARNINGS
1R1F	35	0.19 Å	0.986	100.0	99.9	2.79 Å	1.000	PASS_WITH_WARNINGS
1TIT	87	0.23 Å	0.996	100.0	99.8	2.68 Å	0.980	PASS_WITH_WARNINGS
1HRC	102	0.23 Å	0.996	99.8	99.8	2.87 Å	0.978	PASS_WITH_WARNINGS
1TEN	88	0.32 Å	0.992	99.7	99.8	3.04 Å	0.987	PASS_WITH_WARNINGS
1YCC	103	0.36 Å	0.991	99.8	98.7	2.48 Å	0.955	PASS_WITH_WARNINGS
1NXB	60	0.71 Å	0.941	96.7	99.0	3.23 Å	0.980	PASS_WITH_WARNINGS
2YXF	97	0.72 Å	0.969	97.2	98.2	3.35 Å	0.955	PASS_WITH_WARNINGS
1VII	34	0.95 Å	0.892	96.3	95.2	2.62 Å	0.973	PASS_WITH_WARNINGS
1HPH	35	0.99 Å	0.851	95.7	96.8	3.20 Å	0.922	PASS_WITH_WARNINGS
1JBL	12	1.13 Å	0.265	83.3	91.5	3.52 Å	0.800	PASS_WITH_WARNINGS
2HIU	47	1.59 Å	0.782	84.6	80.9	3.06 Å	0.833	PASS_WITH_WARNINGS
1FKF	105	2.13 Å	0.853	78.1	90.0	3.42 Å	0.909	PASS_WITH_WARNINGS
1HVZ	16	3.18 Å	0.166	59.4	89.2	5.47 Å	0.885	PASS_WITH_WARNINGS
1PT4	27	5.14 Å	0.202	50.0	80.4	5.44 Å	0.766	PASS_WITH_WARNINGS
4INS	94	5.60 Å	0.524	43.4	59.4	6.61 Å	0.551	PASS_WITH_WARNINGS

80% masked (L2)

4.38 Å

4.40 Å

11%

0.378

49.8

57.5

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1CSP	65	0.34 Å	0.986	99.6	99.2	2.63 Å	0.982	PASS_WITH_WARNINGS
4PTI	56	1.28 Å	0.848	88.4	84.3	3.24 Å	0.873	PASS_WITH_WARNINGS
1R1F	35	1.71 Å	0.616	79.3	76.6	2.98 Å	0.779	PASS_WITH_WARNINGS
1NB1	27	1.96 Å	0.408	75.9	73.9	3.30 Å	0.800	PASS_WITH_WARNINGS
1JBL	12	2.45 Å	0.116	64.6	73.4	4.15 Å	0.733	PASS_WITH_WARNINGS
1VII	34	2.48 Å	0.490	71.3	72.9	4.19 Å	0.781	PASS_WITH_WARNINGS
1L2Y	18	2.52 Å	0.123	68.1	74.7	4.40 Å	0.839	PASS_WITH_WARNINGS
1TEN	88	2.63 Å	0.754	69.9	69.0	3.95 Å	0.749	PASS_WITH_WARNINGS
1POH	83	3.24 Å	0.624	57.2	58.9	4.33 Å	0.630	PASS_WITH_WARNINGS
1HPH	35	3.26 Å	0.374	59.3	67.3	4.98 Å	0.706	PASS_WITH_WARNINGS
1CRN	44	3.42 Å	0.416	55.1	58.2	4.30 Å	0.583	PASS_WITH_WARNINGS
1EGF	51	3.43 Å	0.483	55.9	66.2	5.03 Å	0.686	PASS_WITH_WARNINGS
2KNM	28	3.74 Å	0.231	55.4	55.4	4.88 Å	0.534	PASS_WITH_WARNINGS
1ENH	52	4.04 Å	0.423	49.5	52.7	5.69 Å	0.510	PASS_WITH_WARNINGS
1B3C	62	4.12 Å	0.502	51.6	57.2	5.31 Å	0.575	PASS_WITH_WARNINGS
2HIU	47	4.16 Å	0.360	47.3	55.9	5.78 Å	0.542	PASS_WITH_WARNINGS
1HVZ	16	4.22 Å	0.092	46.9	56.9	6.16 Å	0.462	PASS_WITH_WARNINGS
1KTH	56	4.38 Å	0.407	50.0	59.3	6.13 Å	0.556	PASS_WITH_WARNINGS
1UBQ	74	4.47 Å	0.505	47.0	54.1	5.10 Å	0.482	PASS_WITH_WARNINGS
1TIT	87	4.47 Å	0.489	44.5	47.0	5.31 Å	0.430	PASS_WITH_WARNINGS
2CI2	63	4.49 Å	0.409	44.4	50.8	5.68 Å	0.500	PASS_WITH_WARNINGS
1OMB	33	4.63 Å	0.261	49.2	55.7	5.95 Å	0.458	PASS_WITH_WARNINGS
1PT4	27	4.83 Å	0.106	38.9	42.5	5.60 Å	0.281	PASS_WITH_WARNINGS
5WOW	37	4.86 Å	0.189	37.8	42.6	6.65 Å	0.378	PASS_WITH_WARNINGS
1YCC	103	5.39 Å	0.491	38.8	46.9	6.28 Å	0.423	PASS_WITH_WARNINGS
2CRD	34	5.58 Å	0.144	32.4	44.7	7.00 Å	0.280	PASS_WITH_WARNINGS
1IB9	32	5.77 Å	0.116	30.5	47.7	7.68 Å	0.410	PASS_WITH_WARNINGS
1CTF	66	5.81 Å	0.341	36.0	44.1	6.58 Å	0.319	PASS_WITH_WARNINGS
1NXB	60	5.89 Å	0.263	29.6	50.1	6.72 Å	0.497	PASS_WITH_WARNINGS
1SHG	55	6.56 Å	0.217	29.1	40.7	7.57 Å	0.349	PASS_WITH_WARNINGS
1MSI	64	6.58 Å	0.245	27.3	46.5	7.42 Å	0.399	PASS_WITH_WARNINGS
1SN3	63	7.38 Å	0.281	28.6	58.6	10.65 Å	0.589	PASS_WITH_WARNINGS
4INS	94	7.53 Å	0.341	27.9	44.5	8.78 Å	0.400	PASS_WITH_WARNINGS
1GB1	54	7.62 Å	0.214	27.3	40.1	8.35 Å	0.307	PASS_WITH_WARNINGS
2ACY	96	8.85 Å	0.355	28.1	45.7	9.77 Å	0.382	PASS_WITH_WARNINGS

±1 Å noise (L3A)

0.56 Å

0.81 Å

79%

97%

0.860

95.4

93.0

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2CI2	63	0.37 Å	0.982	100.0	98.1	2.84 Å	0.971	PASS_WITH_WARNINGS
1SHG	55	0.43 Å	0.970	100.0	96.5	3.01 Å	0.960	PASS_WITH_WARNINGS
1B3C	62	0.44 Å	0.974	100.0	97.3	2.90 Å	0.952	PASS_WITH_WARNINGS
2ACY	96	0.44 Å	0.985	100.0	96.8	2.81 Å	0.965	PASS_WITH_WARNINGS
1MSI	64	0.47 Å	0.972	99.6	96.2	2.70 Å	0.949	PASS_WITH_WARNINGS
1SN3	63	0.47 Å	0.971	100.0	96.5	6.96 Å	0.973	PASS_WITH_WARNINGS
1UBQ	74	0.47 Å	0.976	99.7	96.4	2.87 Å	0.959	PASS_WITH_WARNINGS
1POH	83	0.48 Å	0.980	99.7	95.9	2.61 Å	0.954	PASS_WITH_WARNINGS
1KTH	56	0.48 Å	0.965	99.6	97.4	3.23 Å	0.947	PASS_WITH_WARNINGS
4PTI	56	0.48 Å	0.964	99.6	96.0	3.01 Å	0.953	PASS_WITH_WARNINGS
1TEN	88	0.49 Å	0.979	100.0	96.4	2.90 Å	0.965	PASS_WITH_WARNINGS
1IB9	32	0.50 Å	0.893	100.0	95.8	2.96 Å	0.940	PASS_WITH_WARNINGS
1CSP	65	0.51 Å	0.969	99.6	95.8	2.68 Å	0.965	PASS_WITH_WARNINGS
1CTF	66	0.51 Å	0.968	99.2	95.7	2.31 Å	0.956	PASS_WITH_WARNINGS
1TIT	87	0.52 Å	0.977	98.9	95.9	2.64 Å	0.956	PASS_WITH_WARNINGS
1GB1	54	0.54 Å	0.954	99.1	95.7	2.50 Å	0.953	PASS_WITH_WARNINGS
2KNM	28	0.55 Å	0.827	99.1	95.0	2.58 Å	0.959	PASS_WITH_WARNINGS
5WOW	37	0.55 Å	0.906	100.0	95.8	2.92 Å	0.933	PASS_WITH_WARNINGS
1CRN	44	0.56 Å	0.934	98.9	95.8	2.40 Å	0.951	PASS_WITH_WARNINGS
1HRC	102	0.57 Å	0.977	99.5	95.1	2.58 Å	0.945	PASS_WITH_WARNINGS
2CRD	34	0.59 Å	0.878	98.5	94.0	2.29 Å	0.914	PASS
1EGF	51	0.60 Å	0.939	98.5	96.3	3.41 Å	0.956	PASS_WITH_WARNINGS
1ENH	52	0.61 Å	0.941	98.6	95.2	3.15 Å	0.969	PASS_WITH_WARNINGS
1PT4	27	0.61 Å	0.785	97.2	92.8	2.19 Å	0.938	PASS
1R1F	35	0.65 Å	0.865	97.9	95.1	3.02 Å	0.937	PASS_WITH_WARNINGS
1NB1	27	0.68 Å	0.763	98.1	93.0	2.60 Å	0.923	PASS_WITH_WARNINGS
1OMB	33	0.73 Å	0.815	97.0	93.6	2.18 Å	0.986	PASS
1VII	34	0.75 Å	0.838	95.6	93.0	3.04 Å	0.959	PASS_WITH_WARNINGS
1YCC	103	0.75 Å	0.964	96.6	92.3	2.99 Å	0.921	PASS_WITH_WARNINGS
1HVZ	16	0.89 Å	0.400	93.8	89.5	2.91 Å	0.962	PASS_WITH_WARNINGS
1NXB	60	1.02 Å	0.898	93.3	94.3	2.56 Å	0.934	PASS_WITH_WARNINGS
2YXF	97	1.22 Å	0.919	89.2	90.5	3.28 Å	0.898	PASS_WITH_WARNINGS
1L2Y	18	1.31 Å	0.339	86.1	89.3	4.14 Å	0.935	PASS_WITH_WARNINGS
1HPH	35	1.32 Å	0.741	90.0	91.5	2.95 Å	0.902	PASS_WITH_WARNINGS
1JBL	12	1.40 Å	0.263	85.4	87.5	3.27 Å	0.867	PASS_WITH_WARNINGS
2HIU	47	1.59 Å	0.755	84.0	78.2	3.48 Å	0.825	PASS_WITH_WARNINGS
1FKF	105	1.91 Å	0.874	83.6	85.8	3.63 Å	0.871	PASS_WITH_WARNINGS
4INS	94	4.35 Å	0.579	48.4	59.4	5.44 Å	0.672	PASS_WITH_WARNINGS

±3 Å noise (L3B)

1.98 Å

2.16 Å

50%

0.611

71.2

72.2

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1IB9	32	1.15 Å	0.646	89.1	82.0	3.57 Å	0.855	PASS_WITH_WARNINGS
1SHG	55	1.22 Å	0.819	84.5	77.7	3.63 Å	0.893	PASS_WITH_WARNINGS
1JBL	12	1.37 Å	0.179	81.2	76.2	2.91 Å	0.800	PASS_WITH_WARNINGS
1CTF	66	1.39 Å	0.825	82.6	76.8	2.61 Å	0.868	PASS_WITH_WARNINGS
1POH	83	1.44 Å	0.856	81.6	75.2	2.75 Å	0.828	PASS_WITH_WARNINGS
1PT4	27	1.44 Å	0.453	79.6	72.4	2.77 Å	0.828	PASS_WITH_WARNINGS
1B3C	62	1.44 Å	0.824	83.1	77.5	3.36 Å	0.814	PASS_WITH_WARNINGS
2ACY	96	1.47 Å	0.866	78.4	75.8	3.00 Å	0.860	PASS_WITH_WARNINGS
2CI2	63	1.48 Å	0.798	80.2	76.2	3.14 Å	0.848	PASS_WITH_WARNINGS
1R1F	35	1.48 Å	0.588	77.9	76.3	3.53 Å	0.842	PASS_WITH_WARNINGS
1CSP	65	1.57 Å	0.794	80.8	75.2	3.36 Å	0.860	PASS_WITH_WARNINGS
1UBQ	74	1.59 Å	0.809	78.0	73.8	3.16 Å	0.847	PASS_WITH_WARNINGS
2KNM	28	1.60 Å	0.508	81.2	76.5	2.68 Å	0.836	PASS_WITH_WARNINGS
1TIT	87	1.64 Å	0.834	76.7	73.9	3.04 Å	0.829	PASS_WITH_WARNINGS
4PTI	56	1.65 Å	0.745	76.8	74.1	3.97 Å	0.800	PASS_WITH_WARNINGS
1GB1	54	1.71 Å	0.713	75.0	72.6	3.47 Å	0.803	PASS_WITH_WARNINGS
1YCC	103	1.87 Å	0.821	72.1	70.7	3.51 Å	0.777	PASS_WITH_WARNINGS
1SN3	63	1.88 Å	0.740	74.6	71.7	7.11 Å	0.778	PASS_WITH_WARNINGS
1MSI	64	1.95 Å	0.730	73.4	70.5	3.19 Å	0.787	PASS_WITH_WARNINGS
1TEN	88	2.01 Å	0.772	70.2	69.8	3.39 Å	0.850	PASS_WITH_WARNINGS
1VII	34	2.01 Å	0.542	75.0	75.2	3.95 Å	0.808	PASS_WITH_WARNINGS
1ENH	52	2.02 Å	0.663	71.2	71.4	3.79 Å	0.837	PASS_WITH_WARNINGS
1KTH	56	2.10 Å	0.697	73.2	71.6	4.09 Å	0.762	PASS_WITH_WARNINGS
2CRD	34	2.13 Å	0.458	68.4	70.2	4.23 Å	0.753	PASS_WITH_WARNINGS
1NB1	27	2.17 Å	0.289	65.7	73.6	3.31 Å	0.846	PASS_WITH_WARNINGS
1HRC	102	2.22 Å	0.780	67.4	69.8	3.83 Å	0.801	PASS_WITH_WARNINGS
1NXB	60	2.23 Å	0.688	69.6	75.6	3.80 Å	0.834	PASS_WITH_WARNINGS
1OMB	33	2.23 Å	0.395	65.2	71.3	3.47 Å	0.833	PASS_WITH_WARNINGS
1EGF	51	2.28 Å	0.617	68.1	75.3	4.49 Å	0.832	PASS_WITH_WARNINGS
2HIU	47	2.33 Å	0.615	72.3	66.1	3.72 Å	0.725	PASS_WITH_WARNINGS
1CRN	44	2.59 Å	0.503	62.5	69.6	4.01 Å	0.757	PASS_WITH_WARNINGS
1L2Y	18	2.67 Å	0.125	63.9	73.3	3.82 Å	0.774	PASS_WITH_WARNINGS
2YXF	97	3.20 Å	0.680	58.0	67.7	4.33 Å	0.730	PASS_WITH_WARNINGS
1HPH	35	3.28 Å	0.382	58.6	63.2	4.92 Å	0.667	PASS_WITH_WARNINGS
1HVZ	16	3.41 Å	0.064	54.7	77.2	5.12 Å	0.885	PASS_WITH_WARNINGS
1FKF	105	3.42 Å	0.654	52.4	62.9	4.60 Å	0.727	PASS_WITH_WARNINGS
4INS	94	4.93 Å	0.499	43.4	53.2	5.99 Å	0.577	PASS_WITH_WARNINGS
5WOW	37	5.40 Å	0.243	39.9	61.1	7.07 Å	0.589	PASS_WITH_WARNINGS

Model Refinement · AI / template rescue

Refinement head-to-head — AI starting model vs the model Physis ships

Starting model

AI alone

Refined (native)

As-delivered

Mean Δ gain

Improved

AlphaFold2

3.82 Å

1.88 Å

2.31 Å

+1.94 Å

28/33

PDB	Len	AI alone	Refined (native)	Δ native	As-delivered	Δ delivered
1KTH	58	32.81 Å	8.81 Å	+24.00 Å	8.81 Å	+24.00 Å
1GB1	56	12.64 Å	1.01 Å	+11.63 Å	1.01 Å	+11.63 Å
1VII	36	9.81 Å	1.42 Å	+8.39 Å	1.42 Å	+8.39 Å
1HPH	37	8.79 Å	5.19 Å	+3.60 Å	5.57 Å	+3.22 Å
2HIU	51	9.10 Å	5.53 Å	+3.57 Å	5.53 Å	+3.57 Å
4INS	102	13.53 Å	10.33 Å	+3.20 Å	10.33 Å	+3.20 Å
1IB9	34	5.10 Å	2.69 Å	+2.40 Å	6.14 Å	-1.04 Å
1EGF	53	4.89 Å	2.65 Å	+2.24 Å	2.65 Å	+2.24 Å
2YXF	99	4.32 Å	2.92 Å	+1.39 Å	2.92 Å	+1.39 Å
1PT4	29	3.24 Å	2.13 Å	+1.11 Å	2.13 Å	+1.11 Å
1UBQ	76	1.60 Å	0.94 Å	+0.66 Å	0.94 Å	+0.66 Å
1ENH	54	1.48 Å	0.88 Å	+0.61 Å	0.88 Å	+0.61 Å
1NB1	29	1.79 Å	1.27 Å	+0.52 Å	5.71 Å	-3.91 Å
2ACY	98	0.95 Å	0.46 Å	+0.49 Å	0.46 Å	+0.49 Å
1YCC	107	0.89 Å	0.58 Å	+0.32 Å	0.58 Å	+0.31 Å
2CI2	65	0.81 Å	0.49 Å	+0.32 Å	0.49 Å	+0.31 Å
4PTI	58	0.52 Å	0.34 Å	+0.17 Å	0.34 Å	+0.17 Å
1JBL	14	0.83 Å	0.71 Å	+0.12 Å	0.84 Å	-0.02 Å
1MSI	66	0.49 Å	0.41 Å	+0.08 Å	0.57 Å	-0.08 Å
1B3C	64	1.70 Å	1.61 Å	+0.08 Å	1.61 Å	+0.08 Å
1CSP	67	0.97 Å	0.89 Å	+0.08 Å	0.89 Å	+0.08 Å
1SHG	57	0.65 Å	0.57 Å	+0.08 Å	0.57 Å	+0.08 Å
1OMB	35	0.87 Å	0.80 Å	+0.08 Å	6.51 Å	-5.63 Å
1CTF	68	0.63 Å	0.58 Å	+0.06 Å	0.58 Å	+0.06 Å
2CRD	36	1.12 Å	1.07 Å	+0.06 Å	1.07 Å	+0.05 Å
1CRN	46	0.44 Å	0.40 Å	+0.04 Å	0.40 Å	+0.04 Å
2KNM	30	0.97 Å	0.94 Å	+0.03 Å	0.94 Å	+0.02 Å
1HRC	104	0.35 Å	0.34 Å	+0.01 Å	0.34 Å	+0.01 Å
1POH	85	0.42 Å	0.43 Å	-0.01 Å	0.43 Å	-0.01 Å
1TEN	89	0.56 Å	0.64 Å	-0.08 Å	0.64 Å	-0.08 Å
1NXB	62	0.82 Å	0.94 Å	-0.11 Å	0.94 Å	-0.11 Å
1R1F	37	2.32 Å	2.45 Å	-0.13 Å	2.45 Å	-0.13 Å
1FKF	107	0.52 Å	1.64 Å	-1.12 Å	1.64 Å	-1.12 Å
1HVZ	18	—	—	—	—	—
1L2Y	20	—	—	—	—	—
1SN3	65	—	—	—	—	—
1TIT	89	—	—	—	—	—
5WOW	39	—	—	—	—	—

ESMFold

2.60 Å

2.17 Å

2.37 Å

+0.43 Å

31/38

PDB	Len	AI alone	Refined (native)	Δ native	As-delivered	Δ delivered
1HPH	37	9.20 Å	5.22 Å	+3.97 Å	5.39 Å	+3.81 Å
1EGF	53	5.22 Å	3.10 Å	+2.11 Å	3.10 Å	+2.11 Å
4INS	102	16.88 Å	15.09 Å	+1.79 Å	15.09 Å	+1.79 Å
2HIU	51	10.36 Å	8.72 Å	+1.64 Å	8.72 Å	+1.64 Å
1IB9	34	3.97 Å	2.60 Å	+1.37 Å	6.30 Å	-2.34 Å
1CRN	46	7.86 Å	6.62 Å	+1.24 Å	8.26 Å	-0.40 Å
1R1F	37	5.20 Å	4.11 Å	+1.09 Å	4.12 Å	+1.08 Å
1PT4	29	2.29 Å	1.46 Å	+0.84 Å	1.46 Å	+0.83 Å
1HVZ	18	3.28 Å	2.47 Å	+0.80 Å	2.47 Å	+0.80 Å
5WOW	39	4.45 Å	3.76 Å	+0.70 Å	3.76 Å	+0.70 Å
1VII	36	2.12 Å	1.47 Å	+0.65 Å	1.47 Å	+0.65 Å
1KTH	58	1.73 Å	1.08 Å	+0.64 Å	1.09 Å	+0.64 Å
1ENH	54	1.26 Å	0.72 Å	+0.54 Å	0.72 Å	+0.54 Å
2ACY	98	1.00 Å	0.47 Å	+0.53 Å	0.47 Å	+0.53 Å
2CI2	65	0.82 Å	0.38 Å	+0.44 Å	0.38 Å	+0.44 Å
1YCC	107	1.01 Å	0.62 Å	+0.38 Å	0.68 Å	+0.33 Å
4PTI	58	0.57 Å	0.29 Å	+0.28 Å	0.29 Å	+0.28 Å
1OMB	35	1.67 Å	1.42 Å	+0.24 Å	1.42 Å	+0.24 Å
1JBL	14	0.78 Å	0.59 Å	+0.19 Å	2.03 Å	-1.25 Å
1NB1	29	0.86 Å	0.68 Å	+0.18 Å	0.68 Å	+0.18 Å
1MSI	66	0.54 Å	0.37 Å	+0.18 Å	0.38 Å	+0.17 Å
1UBQ	76	0.83 Å	0.68 Å	+0.15 Å	0.68 Å	+0.15 Å
1SHG	57	0.40 Å	0.30 Å	+0.10 Å	0.30 Å	+0.10 Å
1B3C	64	2.17 Å	2.09 Å	+0.08 Å	2.09 Å	+0.08 Å
1GB1	56	1.05 Å	0.98 Å	+0.07 Å	0.98 Å	+0.07 Å
1CSP	67	1.06 Å	0.99 Å	+0.06 Å	0.99 Å	+0.06 Å
1NXB	62	1.66 Å	1.61 Å	+0.05 Å	1.61 Å	+0.05 Å
2CRD	36	1.12 Å	1.08 Å	+0.04 Å	1.08 Å	+0.04 Å
1CTF	68	0.51 Å	0.48 Å	+0.03 Å	0.48 Å	+0.03 Å
1HRC	104	0.48 Å	0.45 Å	+0.03 Å	0.46 Å	+0.01 Å
2KNM	30	1.17 Å	1.17 Å	+0.00 Å	1.17 Å	+0.00 Å
1SN3	65	0.97 Å	0.97 Å	-0.00 Å	0.97 Å	-0.00 Å
1POH	85	0.47 Å	0.48 Å	-0.00 Å	0.48 Å	-0.00 Å
1TIT	89	1.20 Å	1.24 Å	-0.03 Å	1.24 Å	-0.03 Å
1TEN	89	0.52 Å	0.57 Å	-0.05 Å	0.58 Å	-0.06 Å
2YXF	99	3.09 Å	3.15 Å	-0.07 Å	3.15 Å	-0.07 Å
1FKF	107	0.47 Å	1.66 Å	-1.19 Å	1.80 Å	-1.33 Å
1L2Y	20	0.51 Å	3.18 Å	-2.67 Å	3.69 Å	-3.18 Å

Refined accuracy by input source

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

AlphaFold2 model

0.94 Å

1.88 Å

55%

73%

0.747

83.4

83.6

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1HRC	102	0.34 Å	0.992	100.0	99.1	2.88 Å	0.963	PASS_WITH_WARNINGS
4PTI	56	0.34 Å	0.982	99.6	99.2	3.47 Å	0.980	PASS_WITH_WARNINGS
1CRN	44	0.40 Å	0.963	100.0	98.4	2.10 Å	0.951	PASS
1MSI	64	0.41 Å	0.982	99.2	98.7	2.30 Å	0.972	PASS_WITH_WARNINGS
1POH	83	0.43 Å	0.984	99.4	97.3	2.78 Å	0.937	PASS_WITH_WARNINGS
2ACY	96	0.46 Å	0.986	99.0	98.7	2.68 Å	0.979	PASS_WITH_WARNINGS
2CI2	63	0.49 Å	0.970	98.4	98.2	2.58 Å	0.986	PASS_WITH_WARNINGS
1SHG	55	0.57 Å	0.960	97.3	96.9	2.60 Å	0.940	PASS_WITH_WARNINGS
1YCC	103	0.58 Å	0.977	97.8	95.3	2.79 Å	0.932	PASS_WITH_WARNINGS
1CTF	66	0.58 Å	0.963	98.1	94.2	2.29 Å	0.962	PASS_WITH_WARNINGS
1TEN	88	0.64 Å	0.967	97.7	96.2	2.76 Å	0.969	PASS_WITH_WARNINGS
1JBL	12	0.71 Å	0.397	97.9	90.3	2.88 Å	0.933	PASS_WITH_WARNINGS
1OMB	33	0.80 Å	0.822	95.5	92.5	2.52 Å	0.944	PASS_WITH_WARNINGS
1ENH	52	0.88 Å	0.910	95.7	91.7	3.12 Å	0.990	PASS_WITH_WARNINGS
1CSP	65	0.89 Å	0.938	95.8	96.3	3.21 Å	0.971	PASS_WITH_WARNINGS
2KNM	28	0.94 Å	0.693	92.9	90.2	3.12 Å	0.918	PASS_WITH_WARNINGS
1NXB	60	0.94 Å	0.906	92.5	91.4	3.06 Å	0.914	PASS_WITH_WARNINGS
1UBQ	74	0.94 Å	0.962	97.6	97.4	2.85 Å	0.953	PASS_WITH_WARNINGS
1GB1	54	1.01 Å	0.865	89.8	87.5	2.86 Å	0.921	PASS_WITH_WARNINGS
2CRD	34	1.07 Å	0.762	92.6	88.2	3.19 Å	0.882	PASS_WITH_WARNINGS
1NB1	27	1.27 Å	0.628	90.7	82.3	2.82 Å	0.892	PASS_WITH_WARNINGS
1VII	34	1.42 Å	0.661	83.8	79.1	3.11 Å	0.904	PASS_WITH_WARNINGS
1B3C	62	1.61 Å	0.807	81.9	83.0	3.57 Å	0.886	PASS_WITH_WARNINGS
1FKF	105	1.64 Å	0.887	83.8	92.9	3.08 Å	0.931	PASS_WITH_WARNINGS
1PT4	27	2.13 Å	0.452	78.7	74.9	3.25 Å	0.844	PASS_WITH_WARNINGS
1R1F	35	2.45 Å	0.592	78.6	74.2	3.89 Å	0.768	PASS_WITH_WARNINGS
1EGF	51	2.65 Å	0.579	65.7	70.0	4.46 Å	0.810	PASS_WITH_WARNINGS
1IB9	32	2.69 Å	0.466	69.5	74.3	3.62 Å	0.819	PASS_WITH_WARNINGS
2YXF	97	2.92 Å	0.792	74.0	86.7	4.10 Å	0.865	PASS_WITH_WARNINGS
1HPH	35	5.19 Å	0.206	38.6	50.6	7.02 Å	0.667	PASS_WITH_WARNINGS
2HIU	47	5.53 Å	0.214	32.4	35.0	6.61 Å	0.458	PASS_WITH_WARNINGS
1KTH	56	8.81 Å	0.155	20.1	31.0	9.60 Å	0.152	PASS_WITH_WARNINGS
4INS	94	10.33 Å	0.220	16.8	28.1	11.44 Å	0.215	PASS_WITH_WARNINGS

ESMFold model

1.13 Å

2.17 Å

45%

68%

0.693

79.5

83.5

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
4PTI	56	0.29 Å	0.986	100.0	99.6	2.82 Å	0.980	PASS_WITH_WARNINGS
1SHG	55	0.30 Å	0.986	99.5	99.2	2.97 Å	0.966	PASS_WITH_WARNINGS
1MSI	64	0.37 Å	0.984	99.6	98.9	2.55 Å	0.972	PASS_WITH_WARNINGS
2CI2	63	0.38 Å	0.981	99.2	99.5	2.63 Å	0.993	PASS_WITH_WARNINGS
1HRC	102	0.45 Å	0.986	99.3	97.3	2.78 Å	0.963	PASS_WITH_WARNINGS
2ACY	96	0.47 Å	0.984	98.7	98.5	2.61 Å	0.975	PASS_WITH_WARNINGS
1POH	83	0.48 Å	0.981	98.8	96.9	2.45 Å	0.945	PASS_WITH_WARNINGS
1CTF	66	0.48 Å	0.974	98.9	96.8	2.21 Å	0.978	PASS
1TEN	88	0.57 Å	0.975	98.3	96.5	2.73 Å	0.969	PASS_WITH_WARNINGS
1JBL	12	0.59 Å	0.556	97.9	94.0	2.63 Å	0.933	PASS_WITH_WARNINGS
1YCC	103	0.62 Å	0.975	98.5	94.0	3.02 Å	0.925	PASS_WITH_WARNINGS
1UBQ	74	0.68 Å	0.961	97.6	97.7	2.53 Å	0.953	PASS_WITH_WARNINGS
1NB1	27	0.68 Å	0.767	98.1	90.0	1.89 Å	0.908	PASS
1ENH	52	0.72 Å	0.938	96.6	95.3	2.90 Å	0.980	PASS_WITH_WARNINGS
1SN3	63	0.98 Å	0.935	95.6	95.1	7.14 Å	0.930	PASS_WITH_WARNINGS
1GB1	54	0.98 Å	0.866	89.4	86.4	2.82 Å	0.921	PASS_WITH_WARNINGS
1CSP	65	0.99 Å	0.928	93.5	96.1	2.78 Å	0.971	PASS_WITH_WARNINGS
2CRD	34	1.08 Å	0.756	91.9	85.7	3.09 Å	0.871	PASS_WITH_WARNINGS
1KTH	56	1.08 Å	0.881	92.0	91.1	3.20 Å	0.881	PASS_WITH_WARNINGS
2KNM	28	1.17 Å	0.635	88.4	87.4	3.00 Å	0.904	PASS_WITH_WARNINGS
1TIT	87	1.24 Å	0.895	85.6	85.7	2.94 Å	0.900	PASS_WITH_WARNINGS
1OMB	33	1.42 Å	0.637	85.6	81.5	3.28 Å	0.875	PASS_WITH_WARNINGS
1PT4	27	1.45 Å	0.490	83.3	74.9	2.82 Å	0.828	PASS_WITH_WARNINGS
1VII	34	1.47 Å	0.637	83.1	77.7	3.43 Å	0.918	PASS_WITH_WARNINGS
1NXB	60	1.61 Å	0.823	84.6	88.8	3.40 Å	0.947	PASS_WITH_WARNINGS
1FKF	105	1.65 Å	0.899	86.2	92.0	3.47 Å	0.903	PASS_WITH_WARNINGS
1B3C	62	2.09 Å	0.729	74.6	77.2	4.00 Å	0.838	PASS_WITH_WARNINGS
1HVZ	16	2.47 Å	0.164	65.6	85.3	4.74 Å	0.962	PASS_WITH_WARNINGS
1IB9	32	2.59 Å	0.474	68.8	74.9	3.61 Å	0.819	PASS_WITH_WARNINGS
1EGF	51	3.10 Å	0.521	58.3	69.5	4.41 Å	0.766	PASS_WITH_WARNINGS
2YXF	97	3.15 Å	0.775	71.4	87.6	4.21 Å	0.873	PASS_WITH_WARNINGS
1L2Y	18	3.18 Å	0.063	52.8	89.7	5.52 Å	0.935	PASS_WITH_WARNINGS
5WOW	37	3.76 Å	0.355	53.4	66.7	4.94 Å	0.733	PASS_WITH_WARNINGS
1R1F	35	4.11 Å	0.227	44.3	47.7	5.25 Å	0.558	PASS_WITH_WARNINGS
1HPH	35	5.22 Å	0.187	35.7	48.9	6.87 Å	0.686	PASS_WITH_WARNINGS
1CRN	44	6.62 Å	0.173	29.5	47.0	7.88 Å	0.515	PASS_WITH_WARNINGS
2HIU	47	8.72 Å	0.152	20.7	43.9	9.31 Å	0.450	PASS_WITH_WARNINGS
4INS	94	15.09 Å	0.102	5.1	37.1	15.98 Å	0.347	PASS_WITH_WARNINGS

Homolog template

2.30 Å

3.60 Å

29%

47%

0.576

66.1

70.9

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1POH	83	0.27 Å	0.993	99.7	99.5	2.63 Å	0.966	PASS_WITH_WARNINGS
1MSI	64	0.27 Å	0.991	99.6	99.5	2.68 Å	0.989	PASS_WITH_WARNINGS
1CRN	44	0.29 Å	0.981	100.0	99.8	2.87 Å	0.990	PASS_WITH_WARNINGS
1KTH	56	0.57 Å	0.975	98.7	98.0	2.74 Å	0.960	PASS_WITH_WARNINGS
1SHG	55	0.61 Å	0.950	97.7	94.4	3.47 Å	0.953	PASS_WITH_WARNINGS
1L2Y	18	0.64 Å	0.520	97.2	94.3	3.06 Å	0.903	PASS_WITH_WARNINGS
1NB1	27	0.79 Å	0.707	95.4	91.2	2.33 Å	0.923	PASS_WITH_WARNINGS
1JBL	12	0.87 Å	0.423	91.7	89.5	3.13 Å	0.867	PASS_WITH_WARNINGS
1PT4	27	0.88 Å	0.716	92.6	86.8	2.60 Å	0.906	PASS_WITH_WARNINGS
1ENH	52	0.88 Å	0.927	96.6	94.4	3.27 Å	0.949	PASS_WITH_WARNINGS
1GB1	54	1.56 Å	0.774	81.5	78.4	3.27 Å	0.858	PASS_WITH_WARNINGS
2KNM	28	1.67 Å	0.491	79.5	78.1	3.66 Å	0.836	PASS_WITH_WARNINGS
1UBQ	74	1.68 Å	0.884	87.8	90.4	3.12 Å	0.929	PASS_WITH_WARNINGS
2ACY	96	1.69 Å	0.858	79.7	76.0	3.73 Å	0.891	PASS_WITH_WARNINGS
1FKF	105	1.70 Å	0.889	85.0	91.2	3.28 Å	0.918	PASS_WITH_WARNINGS
1VII	34	1.99 Å	0.547	76.5	69.6	3.72 Å	0.808	PASS_WITH_WARNINGS
2CRD	34	2.19 Å	0.561	74.3	73.9	3.93 Å	0.774	PASS_WITH_WARNINGS
5WOW	37	2.41 Å	0.488	66.9	68.7	3.60 Å	0.667	PASS_WITH_WARNINGS
1IB9	32	2.47 Å	0.370	64.8	73.5	4.01 Å	0.807	PASS_WITH_WARNINGS
1CSP	65	2.73 Å	0.762	77.7	76.0	3.66 Å	0.819	PASS_WITH_WARNINGS
2HIU	47	2.87 Å	0.486	59.6	62.2	4.45 Å	0.725	PASS_WITH_WARNINGS
2CI2	63	2.93 Å	0.689	68.7	71.7	4.19 Å	0.775	PASS_WITH_WARNINGS
2YXF	97	3.63 Å	0.748	67.3	83.1	4.85 Å	0.844	PASS_WITH_WARNINGS
1TEN	88	3.89 Å	0.677	60.8	65.7	4.96 Å	0.648	PASS_WITH_WARNINGS
1EGF	51	5.03 Å	0.389	45.1	62.6	6.52 Å	0.730	PASS_WITH_WARNINGS
1B3C	62	5.40 Å	0.372	40.7	42.2	6.41 Å	0.473	PASS_WITH_WARNINGS
1OMB	33	5.59 Å	0.174	37.1	56.4	6.79 Å	0.542	PASS_WITH_WARNINGS
1HPH	35	5.70 Å	0.148	32.1	54.0	7.43 Å	0.627	PASS_WITH_WARNINGS
1NXB	60	7.41 Å	0.231	25.0	43.9	8.16 Å	0.358	PASS_WITH_WARNINGS
1HRC	102	8.10 Å	0.267	19.9	41.7	8.81 Å	0.417	PASS_WITH_WARNINGS
1CTF	66	10.21 Å	0.141	13.3	23.0	10.75 Å	0.308	PASS_WITH_WARNINGS
4INS	94	10.79 Å	0.218	16.0	35.4	11.99 Å	0.192	PASS_WITH_WARNINGS
4PTI	56	11.21 Å	0.110	13.4	24.8	11.76 Å	0.153	PASS_WITH_WARNINGS
1TIT	87	13.50 Å	0.121	7.2	20.3	13.81 Å	0.231	PASS_WITH_WARNINGS

Experimental Restraints · real wet-lab

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

NOE — CA·CA

5.59 Å

6.00 Å

0.134

32.8

43.4

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1L2Y	18	3.78 Å	0.054	50.0	52.5	4.97 Å	0.548	PASS_WITH_WARNINGS
1PT4	27	4.18 Å	0.154	47.2	50.2	6.10 Å	0.469	PASS_WITH_WARNINGS
1HVZ	16	4.29 Å	0.039	43.8	54.7	6.27 Å	0.538	PASS_WITH_WARNINGS
1VII	34	4.52 Å	0.208	43.4	44.9	6.11 Å	0.479	PASS_WITH_WARNINGS
1NB1	27	4.55 Å	0.126	42.6	46.2	5.48 Å	0.446	PASS_WITH_WARNINGS
5WOW	37	5.18 Å	0.214	38.5	41.8	5.59 Å	0.267	PASS_WITH_WARNINGS
1IB9	32	5.59 Å	0.104	30.5	42.5	7.20 Å	0.398	PASS_WITH_WARNINGS
1R1F	35	5.60 Å	0.153	32.9	45.0	6.21 Å	0.316	PASS_WITH_WARNINGS
2KNM	28	5.88 Å	0.067	27.7	41.9	6.91 Å	0.288	PASS_WITH_WARNINGS
2HIU	47	7.32 Å	0.159	23.9	34.7	8.49 Å	0.267	PASS_WITH_WARNINGS
1GB1	54	8.16 Å	0.157	19.9	40.4	8.83 Å	0.299	PASS_WITH_WARNINGS
1B3C	62	8.32 Å	0.146	17.3	35.1	10.04 Å	0.234	PASS_WITH_WARNINGS
1TIT	87	10.61 Å	0.162	8.9	34.0	11.72 Å	0.259	PASS_WITH_WARNINGS

Disulfides — SSBOND

6.57 Å

7.33 Å

0.124

24.8

37.4

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1JBL	12	4.26 Å	0.034	43.8	50.8	5.47 Å	0.467	PASS_WITH_WARNINGS
5WOW	37	5.27 Å	0.176	34.5	40.0	6.16 Å	0.300	PASS_WITH_WARNINGS
1PT4	27	5.41 Å	0.078	34.3	41.2	6.40 Å	0.281	PASS_WITH_WARNINGS
1HVZ	16	5.52 Å	0.034	35.9	50.7	7.43 Å	0.346	PASS_WITH_WARNINGS
1NB1	27	5.94 Å	0.090	31.5	41.1	7.39 Å	0.231	PASS_WITH_WARNINGS
1OMB	33	5.96 Å	0.099	28.0	37.6	7.85 Å	0.292	PASS_WITH_WARNINGS
2KNM	28	6.12 Å	0.067	28.6	40.3	6.95 Å	0.301	PASS_WITH_WARNINGS
1CRN	44	6.28 Å	0.183	28.4	39.7	7.66 Å	0.359	PASS_WITH_WARNINGS
1IB9	32	6.38 Å	0.102	28.1	35.7	7.63 Å	0.398	PASS_WITH_WARNINGS
2HIU	47	6.48 Å	0.204	31.9	34.7	8.06 Å	0.258	PASS_WITH_WARNINGS
2CRD	34	6.66 Å	0.099	25.7	33.2	7.85 Å	0.290	PASS_WITH_WARNINGS
1R1F	35	7.28 Å	0.114	25.7	43.1	8.58 Å	0.284	PASS_WITH_WARNINGS
1EGF	51	7.77 Å	0.150	21.6	35.1	9.13 Å	0.175	PASS_WITH_WARNINGS
1SN3	63	8.52 Å	0.173	17.9	31.9	10.01 Å	0.168	PASS_WITH_WARNINGS
1B3C	62	8.62 Å	0.160	17.3	33.3	9.23 Å	0.246	PASS_WITH_WARNINGS
4PTI	56	9.11 Å	0.148	16.5	33.8	9.97 Å	0.160	PASS_WITH_WARNINGS
1KTH	56	9.66 Å	0.098	10.7	31.6	10.71 Å	0.119	PASS_WITH_WARNINGS
1NXB	60	9.88 Å	0.123	13.8	34.2	10.44 Å	0.119	PASS_WITH_WARNINGS
4INS	94	10.27 Å	0.165	9.8	29.0	11.40 Å	0.170	PASS_WITH_WARNINGS
2YXF	97	11.19 Å	0.187	12.9	30.9	11.92 Å	0.082	PASS_WITH_WARNINGS

NMR-STAR restraints

6.00 Å

5.91 Å

0.135

32.7

41.7

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1PT4	27	3.88 Å	0.117	41.7	42.8	5.32 Å	0.391	PASS_WITH_WARNINGS
1VII	34	4.04 Å	0.228	44.9	45.2	5.72 Å	0.479	PASS_WITH_WARNINGS
1L2Y	18	4.06 Å	0.033	43.1	50.8	6.22 Å	0.419	PASS_WITH_WARNINGS
1HVZ	16	4.07 Å	0.071	48.4	54.7	5.90 Å	0.538	PASS_WITH_WARNINGS
1NB1	27	5.52 Å	0.078	32.4	39.9	6.39 Å	0.277	PASS_WITH_WARNINGS
1IB9	32	5.65 Å	0.135	32.8	39.8	7.01 Å	0.410	PASS_WITH_WARNINGS
2KNM	28	6.00 Å	0.085	28.6	43.5	7.13 Å	0.315	PASS_WITH_WARNINGS
5WOW	37	6.26 Å	0.135	29.7	40.4	7.73 Å	0.233	PASS_WITH_WARNINGS
1EGF	51	6.79 Å	0.201	27.9	39.9	8.61 Å	0.307	PASS_WITH_WARNINGS
1R1F	35	6.82 Å	0.148	30.0	37.9	7.44 Å	0.253	PASS_WITH_WARNINGS
2HIU	47	7.16 Å	0.165	23.9	36.8	8.69 Å	0.283	PASS_WITH_WARNINGS
1GB1	54	7.26 Å	0.193	24.5	36.4	8.28 Å	0.402	PASS_WITH_WARNINGS
1B3C	62	9.30 Å	0.171	17.3	33.5	10.73 Å	0.222	PASS_WITH_WARNINGS

Ambiguous NOE

10.61 Å

0.178

11.8

34.3

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1TIT	87	10.61 Å	0.178	11.8	34.3	11.74 Å	0.116	PASS_WITH_WARNINGS

Fusion · multi-source evidence

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

Disulfides + NOE

5.06 Å

5.52 Å

0.128

35.7

41.7

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2KNM	28	4.09 Å	0.197	50.9	51.3	5.82 Å	0.548	PASS_WITH_WARNINGS
1HVZ	16	4.18 Å	0.027	45.3	45.6	4.84 Å	0.462	PASS_WITH_WARNINGS
1PT4	27	4.33 Å	0.104	41.7	51.8	5.21 Å	0.469	PASS_WITH_WARNINGS
1NB1	27	4.42 Å	0.102	41.7	40.8	5.04 Å	0.462	PASS_WITH_WARNINGS
5WOW	37	5.06 Å	0.157	36.5	36.3	6.45 Å	0.322	PASS_WITH_WARNINGS
1R1F	35	6.07 Å	0.124	30.7	37.4	6.78 Å	0.263	PASS_WITH_WARNINGS
1IB9	32	6.34 Å	0.081	28.1	37.8	7.84 Å	0.337	PASS_WITH_WARNINGS
2HIU	47	7.31 Å	0.169	24.5	36.0	8.59 Å	0.242	PASS_WITH_WARNINGS
1B3C	62	7.85 Å	0.194	21.8	38.0	9.28 Å	0.275	PASS_WITH_WARNINGS

NOE + AF2

1.32 Å

1.48 Å

33%

83%

0.687

84.7

82.8

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2KNM	28	0.96 Å	0.675	93.8	89.7	2.26 Å	0.904	PASS
1GB1	54	0.96 Å	0.876	90.3	87.8	2.50 Å	0.906	PASS_WITH_WARNINGS
1NB1	27	1.25 Å	0.632	89.8	82.5	2.69 Å	0.908	PASS_WITH_WARNINGS
1VII	34	1.39 Å	0.664	83.8	79.2	3.33 Å	0.904	PASS_WITH_WARNINGS
1B3C	62	1.61 Å	0.808	81.9	83.0	3.68 Å	0.886	PASS_WITH_WARNINGS
1IB9	32	2.71 Å	0.468	68.8	74.8	3.76 Å	0.807	PASS_WITH_WARNINGS

NOE + homolog

1.78 Å

1.85 Å

17%

67%

0.601

77.6

76.1

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1NB1	27	0.80 Å	0.705	94.4	92.3	2.31 Å	0.938	PASS
1GB1	54	1.43 Å	0.806	83.3	79.6	3.00 Å	0.874	PASS_WITH_WARNINGS
1VII	34	1.76 Å	0.562	75.0	71.4	3.43 Å	0.767	PASS_WITH_WARNINGS
1B3C	62	1.81 Å	0.766	78.6	74.9	3.75 Å	0.832	PASS_WITH_WARNINGS
2KNM	28	2.59 Å	0.389	68.8	67.9	4.42 Å	0.671	PASS_WITH_WARNINGS
1IB9	32	2.72 Å	0.380	65.6	70.6	4.11 Å	0.759	PASS_WITH_WARNINGS

NOE + homolog + AF2

1.22 Å

1.47 Å

17%

83%

0.681

85.2

82.3

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
2KNM	28	0.97 Å	0.665	93.8	88.0	3.10 Å	0.890	PASS_WITH_WARNINGS
1GB1	54	1.04 Å	0.861	90.7	87.5	2.94 Å	0.906	PASS_WITH_WARNINGS
1NB1	27	1.05 Å	0.659	92.6	84.9	2.26 Å	0.923	PASS_WITH_WARNINGS
1VII	34	1.39 Å	0.666	84.6	78.6	2.82 Å	0.918	PASS_WITH_WARNINGS
1B3C	62	1.66 Å	0.799	81.5	82.3	3.58 Å	0.886	PASS_WITH_WARNINGS
1IB9	32	2.68 Å	0.438	68.0	72.4	3.70 Å	0.807	PASS_WITH_WARNINGS

Gap Filling · SoI self-harvest

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

80% masked + SoI

0.79 Å

1.49 Å

63%

76%

0.767

85.9

86.1

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1POH	83	0.35 Å	0.989	99.7	98.5	2.60 Å	0.966	PASS_WITH_WARNINGS
1SN3	63	0.36 Å	0.983	100.0	98.4	6.87 Å	0.973	PASS_WITH_WARNINGS
1CSP	65	0.38 Å	0.982	99.6	98.2	3.05 Å	0.971	PASS_WITH_WARNINGS
1B3C	62	0.39 Å	0.980	100.0	98.4	2.64 Å	0.970	PASS_WITH_WARNINGS
4PTI	56	0.41 Å	0.974	100.0	98.4	2.90 Å	0.973	PASS_WITH_WARNINGS
1MSI	64	0.42 Å	0.978	99.6	96.4	2.63 Å	0.944	PASS_WITH_WARNINGS
2ACY	96	0.44 Å	0.985	99.0	98.5	2.98 Å	0.961	PASS_WITH_WARNINGS
1GB1	54	0.46 Å	0.966	99.1	96.8	2.68 Å	0.969	PASS_WITH_WARNINGS
1EGF	51	0.46 Å	0.962	100.0	97.0	3.35 Å	0.949	PASS_WITH_WARNINGS
1ENH	52	0.47 Å	0.964	99.0	95.7	3.05 Å	0.990	PASS_WITH_WARNINGS
1CTF	66	0.50 Å	0.973	98.9	96.3	2.35 Å	0.962	PASS_WITH_WARNINGS
2CI2	63	0.50 Å	0.969	99.6	97.0	3.04 Å	0.957	PASS_WITH_WARNINGS
1KTH	56	0.52 Å	0.961	99.1	96.4	2.96 Å	0.947	PASS_WITH_WARNINGS
1SHG	55	0.55 Å	0.955	98.6	95.3	2.41 Å	0.940	PASS_WITH_WARNINGS
1CRN	44	0.64 Å	0.918	97.7	94.1	2.83 Å	0.981	PASS_WITH_WARNINGS
2CRD	34	0.69 Å	0.868	96.3	93.8	2.63 Å	0.935	PASS_WITH_WARNINGS
1IB9	32	0.77 Å	0.799	95.3	90.7	2.85 Å	0.928	PASS_WITH_WARNINGS
1R1F	35	0.78 Å	0.851	96.4	91.6	2.83 Å	0.937	PASS_WITH_WARNINGS
1OMB	33	0.78 Å	0.811	95.5	90.8	2.90 Å	0.944	PASS_WITH_WARNINGS
1NB1	27	0.80 Å	0.756	95.4	92.1	2.21 Å	0.892	PASS
1TIT	87	0.81 Å	0.959	96.0	93.8	2.94 Å	0.936	PASS_WITH_WARNINGS
1UBQ	74	0.89 Å	0.964	97.6	97.7	2.57 Å	0.959	PASS_WITH_WARNINGS
5WOW	37	0.96 Å	0.792	89.2	87.3	2.94 Å	0.911	PASS_WITH_WARNINGS
1JBL	12	0.99 Å	0.382	89.6	89.9	2.70 Å	0.933	PASS_WITH_WARNINGS
1HVZ	16	1.17 Å	0.285	85.9	89.7	3.80 Å	0.962	PASS_WITH_WARNINGS
1NXB	60	1.20 Å	0.859	88.3	90.1	3.40 Å	0.914	PASS_WITH_WARNINGS
2KNM	28	1.47 Å	0.581	83.9	81.6	2.82 Å	0.877	PASS_WITH_WARNINGS
1PT4	27	1.51 Å	0.516	82.4	76.6	3.29 Å	0.875	PASS_WITH_WARNINGS
1L2Y	18	1.76 Å	0.214	73.6	76.0	3.21 Å	0.871	PASS_WITH_WARNINGS
1VII	34	2.18 Å	0.483	71.3	77.2	4.09 Å	0.849	PASS_WITH_WARNINGS
2YXF	97	2.29 Å	0.833	78.9	83.0	4.01 Å	0.840	PASS_WITH_WARNINGS
1HPH	35	2.51 Å	0.420	64.3	75.5	4.29 Å	0.843	PASS_WITH_WARNINGS
2HIU	47	2.72 Å	0.554	65.4	64.7	4.68 Å	0.733	PASS_WITH_WARNINGS
1YCC	103	3.12 Å	0.727	62.4	66.4	4.34 Å	0.725	PASS_WITH_WARNINGS
1TEN	88	3.25 Å	0.664	60.8	65.6	4.52 Å	0.744	PASS_WITH_WARNINGS
1HRC	102	4.92 Å	0.542	46.3	55.5	6.00 Å	0.550	PASS_WITH_WARNINGS
4INS	94	5.02 Å	0.511	42.8	49.6	6.10 Å	0.498	PASS_WITH_WARNINGS
1FKF	105	9.19 Å	0.234	16.0	35.3	10.07 Å	0.279	PASS_WITH_WARNINGS

NOE — control (best-of-10)

5.18 Å

5.31 Å

0.177

40.3

46.4

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1HVZ	16	2.03 Å	0.115	71.9	72.5	4.25 Å	0.846	PASS_WITH_WARNINGS
1L2Y	18	3.17 Å	0.070	55.6	51.7	3.98 Å	0.581	PASS_WITH_WARNINGS
1NB1	27	3.71 Å	0.247	56.5	57.2	4.78 Å	0.508	PASS_WITH_WARNINGS
1VII	34	3.91 Å	0.199	44.9	48.8	4.86 Å	0.521	PASS_WITH_WARNINGS
1PT4	27	4.18 Å	0.154	47.2	49.8	6.41 Å	0.469	PASS_WITH_WARNINGS
1IB9	32	4.62 Å	0.197	42.2	43.9	5.77 Å	0.542	PASS_WITH_WARNINGS
5WOW	37	5.18 Å	0.214	39.9	40.9	5.50 Å	0.267	PASS_WITH_WARNINGS
2KNM	28	5.46 Å	0.147	38.4	43.3	6.37 Å	0.521	PASS_WITH_WARNINGS
1R1F	35	5.60 Å	0.153	32.9	44.6	6.23 Å	0.316	PASS_WITH_WARNINGS
1B3C	62	6.80 Å	0.259	31.0	38.8	7.62 Å	0.353	PASS_WITH_WARNINGS
1GB1	54	7.03 Å	0.236	27.8	43.5	7.47 Å	0.339	PASS_WITH_WARNINGS
2HIU	47	7.05 Å	0.147	25.0	35.1	8.17 Å	0.283	PASS_WITH_WARNINGS
1TIT	87	10.28 Å	0.159	10.9	33.4	11.00 Å	0.135	PASS_WITH_WARNINGS

noe+soi

3.54 Å

4.42 Å

23%

0.247

50.3

55.3

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1PT4	27	1.82 Å	0.354	75.0	72.5	3.11 Å	0.844	PASS_WITH_WARNINGS
1HVZ	16	1.86 Å	0.182	76.6	78.9	3.70 Å	0.923	PASS_WITH_WARNINGS
1NB1	27	1.89 Å	0.331	71.3	67.3	3.02 Å	0.769	PASS_WITH_WARNINGS
1L2Y	18	2.27 Å	0.174	70.8	71.5	3.65 Å	0.742	PASS_WITH_WARNINGS
2KNM	28	3.15 Å	0.300	62.5	62.0	4.17 Å	0.630	PASS_WITH_WARNINGS
5WOW	37	3.44 Å	0.321	52.0	52.1	4.80 Å	0.622	PASS_WITH_WARNINGS
1VII	34	3.54 Å	0.235	47.8	53.0	4.63 Å	0.671	PASS_WITH_WARNINGS
1R1F	35	3.60 Å	0.267	52.1	63.6	4.64 Å	0.663	PASS_WITH_WARNINGS
1IB9	32	4.60 Å	0.196	45.3	49.2	5.84 Å	0.554	PASS_WITH_WARNINGS
2HIU	47	6.03 Å	0.179	29.3	33.7	7.01 Å	0.300	PASS_WITH_WARNINGS
1GB1	54	6.99 Å	0.238	28.7	42.6	7.74 Å	0.409	PASS_WITH_WARNINGS
1B3C	62	7.08 Å	0.256	28.6	41.1	8.21 Å	0.317	PASS_WITH_WARNINGS
1TIT	87	11.22 Å	0.175	13.5	31.6	12.00 Å	0.084	PASS_WITH_WARNINGS

GLP-1 Family · therapeutic focus

The GLP-1 drug family.

Six incretin-family parents — GLP-1, exendin-4 (exenatide), glucagon, GIP and analogues — short, amphipathic α-helical peptides, disulfide-free, across the same evidence ladder plus real deposited NMR restraints and fusion.

What the numbers say

The regime where generic predictors are weakest — and impurity QC lives.

The incretin family — short, amphipathic α-helical peptides, disulfide-free, disordered in water — is exactly the regime where single-sequence predictors struggle, and where a generic-peptide manufacturer works for impurity characterization.
Under full evidence the family fold reconstructs to mean 0.54 Å (5 of 6 parents sub-Ångström); GLP-1 itself to 0.29 Å (GDT-TS 100).
It ingests real deposited NMR restraints a predictor cannot consume, and fuses them with a structural prior — recovering the family NMR fold to mean 3.0 Å (exendin-4 7.1 → 2.1 Å).
The differentiator is blind input self-consistency auditing (see the Conflict tab). All 48 folds are physically valid.

For impurity characterization and restraint auditing, Physis Fold tells you which restraint to revisit — information a single-structure predictor does not provide.

Proteins

Conditions

Evaluations

2.28

Median Cα · Å

Condition

Median Cα

Mean Cα

<1 Å

<2 Å

GDT-TS

lDDT

0% masked — full oracle (L0)

0.42 Å

0.54 Å

83%

100%

0.861

98.1

99.4

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
3IOL	24	0.29 Å	0.893	100.0	100.0	2.41 Å	1.000	PASS
1D0R	28	0.32 Å	0.937	100.0	99.5	2.31 Å	0.978	PASS
1JRJ	37	0.36 Å	0.963	99.3	100.0	2.50 Å	0.985	PASS_WITH_WARNINGS
1KX6	27	0.48 Å	0.847	100.0	99.7	3.19 Å	1.000	PASS_WITH_WARNINGS
2B4N	40	0.52 Å	0.933	99.4	99.8	2.89 Å	0.962	PASS_WITH_WARNINGS
1GCN	27	1.28 Å	0.594	89.8	97.1	3.73 Å	0.976	PASS_WITH_WARNINGS

50% masked (L1)

0.99 Å

1.19 Å

50%

100%

0.685

88.0

94.5

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1D0R	28	0.56 Å	0.828	98.2	99.1	2.52 Å	1.000	PASS_WITH_WARNINGS
3IOL	24	0.82 Å	0.737	93.8	98.4	2.92 Å	1.000	PASS_WITH_WARNINGS
1JRJ	37	0.92 Å	0.850	94.6	96.9	2.88 Å	0.985	PASS_WITH_WARNINGS
1KX6	27	1.06 Å	0.654	90.7	95.1	3.20 Å	0.923	PASS_WITH_WARNINGS
1GCN	27	1.84 Å	0.410	75.0	88.7	3.96 Å	0.952	PASS_WITH_WARNINGS
2B4N	40	1.95 Å	0.629	75.6	88.6	3.44 Å	0.925	PASS_WITH_WARNINGS

80% masked (L2)

2.62 Å

3.41 Å

0.268

56.7

75.9

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
3IOL	24	2.24 Å	0.193	65.6	80.1	4.11 Å	0.927	PASS_WITH_WARNINGS
1JRJ	37	2.40 Å	0.504	66.2	81.9	3.86 Å	0.846	PASS_WITH_WARNINGS
1KX6	27	2.58 Å	0.252	62.0	77.8	4.36 Å	0.692	PASS_WITH_WARNINGS
1GCN	27	2.66 Å	0.254	61.1	81.6	5.02 Å	0.929	PASS_WITH_WARNINGS
1D0R	28	3.18 Å	0.281	58.0	76.1	4.62 Å	0.783	PASS_WITH_WARNINGS
2B4N	40	7.42 Å	0.126	26.9	58.2	8.83 Å	0.566	PASS_WITH_WARNINGS

±1 Å noise (L3A)

1.27 Å

1.30 Å

17%

100%

0.576

85.2

90.9

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1KX6	27	0.86 Å	0.658	96.3	93.3	3.37 Å	0.962	PASS_WITH_WARNINGS
3IOL	24	1.03 Å	0.507	89.6	92.3	3.08 Å	0.976	PASS_WITH_WARNINGS
1D0R	28	1.21 Å	0.539	85.7	92.4	2.95 Å	0.978	PASS_WITH_WARNINGS
1JRJ	37	1.33 Å	0.694	85.1	90.0	2.68 Å	0.938	PASS_WITH_WARNINGS
2B4N	40	1.43 Å	0.688	82.5	88.0	3.70 Å	0.943	PASS_WITH_WARNINGS
1GCN	27	1.97 Å	0.370	72.2	89.5	3.46 Å	0.929	PASS_WITH_WARNINGS

±3 Å noise (L3B)

2.39 Å

2.60 Å

0.327

63.3

74.3

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1GCN	27	2.22 Å	0.316	65.7	79.5	4.42 Å	0.881	PASS_WITH_WARNINGS
1KX6	27	2.25 Å	0.302	67.6	72.3	4.33 Å	0.731	PASS_WITH_WARNINGS
1JRJ	37	2.32 Å	0.473	67.6	72.5	4.17 Å	0.862	PASS_WITH_WARNINGS
2B4N	40	2.47 Å	0.511	68.8	75.0	4.41 Å	0.830	PASS_WITH_WARNINGS
3IOL	24	3.10 Å	0.116	54.2	73.4	5.56 Å	0.805	PASS_WITH_WARNINGS
1D0R	28	3.27 Å	0.244	56.2	73.0	5.07 Å	0.826	PASS_WITH_WARNINGS

80% masked + SoI

2.91 Å

2.80 Å

0.334

62.7

78.5

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1JRJ	37	2.06 Å	0.548	70.9	82.5	4.07 Å	0.877	PASS_WITH_WARNINGS
1KX6	27	2.32 Å	0.442	76.9	83.7	5.12 Å	0.846	PASS_WITH_WARNINGS
2B4N	40	2.72 Å	0.467	65.0	82.1	4.37 Å	0.887	PASS_WITH_WARNINGS
1D0R	28	3.11 Å	0.259	58.0	74.3	5.08 Å	0.804	PASS_WITH_WARNINGS
3IOL	24	3.17 Å	0.126	54.2	74.4	5.45 Å	0.829	PASS_WITH_WARNINGS
1GCN	27	3.40 Å	0.160	50.9	73.8	5.47 Å	0.833	PASS_WITH_WARNINGS

NOE — CA·CA

8.17 Å

7.87 Å

0.081

22.2

50.4

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1KX6	27	5.62 Å	0.063	30.6	57.8	7.52 Å	0.385	PASS_WITH_WARNINGS
1JRJ	37	7.05 Å	0.138	26.4	50.9	7.86 Å	0.462	PASS_WITH_WARNINGS
1D0R	28	9.28 Å	0.030	15.2	42.5	10.40 Å	0.326	PASS_WITH_WARNINGS
2B4N	40	9.52 Å	0.092	16.9	50.4	10.55 Å	0.434	PASS_WITH_WARNINGS

NOE + SoI

7.64 Å

6.89 Å

0.115

27.5

59.0

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1JRJ	37	3.78 Å	0.269	45.9	66.2	5.42 Å	0.692	PASS_WITH_WARNINGS
2B4N	40	7.46 Å	0.127	25.0	50.0	8.56 Å	0.642	PASS_WITH_WARNINGS
1D0R	28	7.83 Å	0.043	24.1	53.1	8.47 Å	0.522	PASS_WITH_WARNINGS
1KX6	27	8.48 Å	0.021	14.8	66.7	9.91 Å	0.654	PASS_WITH_WARNINGS

NOE + structural fusion

2.62 Å

3.03 Å

0.339

60.2

81.2

PDB	Len	Cα-RMSD	TM	GDT-TS	lDDT	Heavy	Contact F1	Verdict
1JRJ	37	2.10 Å	0.523	68.9	88.3	2.85 Å	0.908	PASS_WITH_WARNINGS
1KX6	27	2.21 Å	0.346	69.4	81.2	3.92 Å	0.769	PASS_WITH_WARNINGS
1D0R	28	3.04 Å	0.212	56.2	79.2	4.48 Å	0.891	PASS_WITH_WARNINGS
2B4N	40	4.79 Å	0.276	46.2	76.0	5.98 Å	0.811	PASS_WITH_WARNINGS

Conflict Attribution · blind read-out

Catching contradictory evidence.

Two named family drugs — 3IOL (GLP-1) and 1JRJ (exendin-4) — folded clean, then with one and two injected contradictory distance restraints. A controlled dose-response, blind to the experimental answer.

Three things happen together — all three are the point

A categorically different output, not a better RMSD.

Clean inputs stay quiet. Both consistent inputs return NONE and fold near-native (0.29 / 0.48 Å) — the flag is specific to the contradiction, not a property of the peptide.
Contradictions fire and escalate. One injected contradiction flips the signature to STRUCTURAL_CONFLICT; a second roughly doubles the detected conflicts (0 → 36 → 71).
The blame lands on the planted residues. Root-cause analysis names the exact injected residues at 0.67–1.00 precision, while fold quality barely moves (≤ 0.05 Å).

A generic predictor returns one structure with no statement about whether its own inputs agree. Physis Fold names which restraint to revisit first.

Scaffold	Case	Contradictions	Signature	Conflicts	Explained	Root foci	Precision	Recall	Cα-RMSD
3IOL	clean	0	NONE	0	0	—			0.29 Å
3IOL	inj1	1	STRUCTURAL_CONFLICT	36	36	S4	1.0	0.5	0.34 Å
3IOL	inj2	2	STRUCTURAL_CONFLICT	71	71	F2-S4	0.667	0.5	0.34 Å
1JRJ	clean	0	NONE	0	0	—			0.48 Å
1JRJ	inj1	1	STRUCTURAL_CONFLICT	57	57	D8	1.0	0.5	0.47 Å
1JRJ	inj2	2	STRUCTURAL_CONFLICT	108	108	F5;D8	1.0	0.5	0.44 Å

Seed Selection · reference-free vs oracle

Shipping the right fold, blind.

A real user folds an unknown target — there is no experimental reference to rank candidates against. This study measures the reference-free selector that actually ships against the oracle ceiling, across every fold of the General Benchmark. Δ is the Cα-RMSD the blind choice gives up vs. the native pick.

Why the headline numbers hold

The benchmark accuracy is not a selection artifact.

The native selector picks the best candidate with knowledge of the experimental structure (the ceiling); the blind selector — input-evidence score + structural consensus — is what actually ships to a real user folding an unknown target.
Across all 332 folds the blind choice reproduces the reference-informed pick — median Δ ≈ 0, and an exact Match on the majority of targets.
Where the score alone breaks down (sparsest regime), structural consensus halves the residual Δ — on one target a globally wrong 7.16 Å fold is replaced by the consensus medoid at 0.97 Å.

Honest bound: a residual ~6% tail where the search itself converges on the same wrong topology — a limit of the search, not of blind selection.

332

Folds audited

Conditions

0.00Å

Median regret

91%

Regret ≤ 0.5 Å

Evidence condition

Targets

Match

Δ≤0.5 Å

Δ≤1 Å

Mean Δ

Median Δ

Max Δ

0% masked — full oracle (L0)

82%

100%

0.01 Å

0.00 Å

0.13 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
2HIU	2	0.94 Å	1.07 Å	0.13 Å
1FKF	2	1.65 Å	1.69 Å	0.04 Å
1HVZ	2	0.09 Å	0.10 Å	0.01 Å
1R1F	2	0.05 Å	0.05 Å	0.00 Å
1IB9	2	0.02 Å	0.03 Å	0.00 Å
1VII	2	0.03 Å	0.03 Å	0.00 Å
4PTI	2	0.04 Å	0.04 Å	0.00 Å
1L2Y	2	0.03 Å	0.03 Å	0.00 Å
1UBQ	2	0.07 Å	0.07 Å	0.00 Å
1PT4	2	0.09 Å	0.09 Å	0.00 Å
5WOW	2	0.03 Å	0.03 Å	0.00 Å
2KNM	2	0.02 Å	0.02 Å	0.00 Å
1CTF	2	0.05 Å	0.05 Å	0.00 Å
1POH	2	0.04 Å	0.04 Å	0.00 Å
1CRN	2	0.08 Å	0.08 Å	0.00 Å
2YXF	2	0.40 Å	0.40 Å	0.00 Å
1SHG	2	0.03 Å	0.03 Å	0.00 Å
2ACY	2	0.07 Å	0.07 Å	0.00 Å
1B3C	2	0.05 Å	0.05 Å	0.00 Å
1ENH	2	0.02 Å	0.02 Å	0.00 Å
2CI2	2	0.03 Å	0.03 Å	0.00 Å
1TIT	2	0.12 Å	0.12 Å	0.00 Å
1CSP	2	0.04 Å	0.04 Å	0.00 Å
1EGF	2	0.06 Å	0.06 Å	0.00 Å
1GB1	2	0.02 Å	0.02 Å	0.00 Å
1HPH	2	0.82 Å	0.82 Å	0.00 Å
1HRC	2	0.07 Å	0.07 Å	0.00 Å
1JBL	2	0.24 Å	0.24 Å	0.00 Å
1KTH	2	0.04 Å	0.04 Å	0.00 Å
1MSI	2	0.08 Å	0.08 Å	0.00 Å
1NB1	2	0.09 Å	0.09 Å	0.00 Å
1NXB	2	0.57 Å	0.57 Å	0.00 Å
1OMB	2	0.03 Å	0.03 Å	0.00 Å
1SN3	2	0.06 Å	0.06 Å	0.00 Å
1TEN	2	0.09 Å	0.09 Å	0.00 Å
1YCC	2	0.29 Å	0.29 Å	0.00 Å
2CRD	2	0.02 Å	0.02 Å	0.00 Å
4INS	2	4.64 Å	4.64 Å	0.00 Å

50% masked (L1)

87%

95%

0.16 Å

0.00 Å

3.09 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
4INS	2	5.60 Å	8.70 Å	3.09 Å
1HVZ	2	0.31 Å	3.18 Å	2.87 Å
1JBL	2	1.13 Å	1.25 Å	0.12 Å
1UBQ	2	0.14 Å	0.16 Å	0.03 Å
1NB1	2	0.15 Å	0.17 Å	0.01 Å
1YCC	2	0.36 Å	0.36 Å	0.00 Å
1B3C	2	0.07 Å	0.07 Å	0.00 Å
1CRN	2	0.10 Å	0.10 Å	0.00 Å
1CSP	2	0.09 Å	0.09 Å	0.00 Å
1CTF	2	0.07 Å	0.07 Å	0.00 Å
1EGF	2	0.13 Å	0.13 Å	0.00 Å
1ENH	2	0.05 Å	0.05 Å	0.00 Å
1FKF	2	2.13 Å	2.13 Å	0.00 Å
1GB1	2	0.06 Å	0.06 Å	0.00 Å
1HPH	2	0.99 Å	0.99 Å	0.00 Å
1HRC	2	0.23 Å	0.23 Å	0.00 Å
1IB9	2	0.04 Å	0.04 Å	0.00 Å
1KTH	2	0.09 Å	0.09 Å	0.00 Å
1L2Y	2	0.16 Å	0.16 Å	0.00 Å
1MSI	2	0.12 Å	0.12 Å	0.00 Å
1NXB	2	0.71 Å	0.71 Å	0.00 Å
1OMB	2	0.05 Å	0.05 Å	0.00 Å
1POH	2	0.08 Å	0.08 Å	0.00 Å
1PT4	2	5.14 Å	5.14 Å	0.00 Å
1R1F	2	0.19 Å	0.19 Å	0.00 Å
1SHG	2	0.05 Å	0.05 Å	0.00 Å
1SN3	2	0.09 Å	0.09 Å	0.00 Å
1TEN	2	0.32 Å	0.32 Å	0.00 Å
1TIT	2	0.23 Å	0.23 Å	0.00 Å
1VII	2	0.95 Å	0.95 Å	0.00 Å
2ACY	2	0.13 Å	0.13 Å	0.00 Å
2CI2	2	0.10 Å	0.10 Å	0.00 Å
2CRD	2	0.06 Å	0.06 Å	0.00 Å
2HIU	2	1.59 Å	1.59 Å	0.00 Å
2KNM	2	0.03 Å	0.03 Å	0.00 Å
2YXF	2	0.72 Å	0.72 Å	0.00 Å
4PTI	2	0.09 Å	0.09 Å	0.00 Å
5WOW	2	0.06 Å	0.06 Å	0.00 Å

80% masked (L2)

73%

84%

92%

0.29 Å

0.00 Å

3.05 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1CTF	2	5.81 Å	8.86 Å	3.05 Å
1KTH	2	4.38 Å	7.20 Å	2.82 Å
1TIT	2	4.47 Å	5.87 Å	1.40 Å
5WOW	2	4.86 Å	5.83 Å	0.97 Å
4INS	2	7.53 Å	8.43 Å	0.90 Å
1GB1	2	7.62 Å	8.26 Å	0.64 Å
1NXB	2	5.89 Å	6.26 Å	0.37 Å
1HVZ	2	4.22 Å	4.51 Å	0.28 Å
1JBL	2	2.45 Å	2.67 Å	0.22 Å
1YCC	2	5.39 Å	5.51 Å	0.13 Å
1B3C	2	4.12 Å	4.12 Å	0.00 Å
1CRN	2	3.42 Å	3.42 Å	0.00 Å
1CSP	2	0.34 Å	0.34 Å	0.00 Å
1EGF	2	3.43 Å	3.43 Å	0.00 Å
1ENH	2	4.04 Å	4.04 Å	0.00 Å
1FKF	1	10.86 Å	10.86 Å	0.00 Å
1HPH	2	3.26 Å	3.26 Å	0.00 Å
1IB9	2	5.77 Å	5.77 Å	0.00 Å
1L2Y	2	2.52 Å	2.52 Å	0.00 Å
1MSI	2	6.58 Å	6.58 Å	0.00 Å
1NB1	2	1.96 Å	1.96 Å	0.00 Å
1OMB	2	4.63 Å	4.63 Å	0.00 Å
1POH	2	3.24 Å	3.24 Å	0.00 Å
1PT4	2	4.83 Å	4.83 Å	0.00 Å
1R1F	2	1.71 Å	1.71 Å	0.00 Å
1SHG	2	6.56 Å	6.56 Å	0.00 Å
1SN3	2	7.38 Å	7.38 Å	0.00 Å
1TEN	2	2.63 Å	2.63 Å	0.00 Å
1UBQ	2	4.47 Å	4.47 Å	0.00 Å
1VII	2	2.48 Å	2.48 Å	0.00 Å
2ACY	2	8.85 Å	8.85 Å	0.00 Å
2CI2	2	4.49 Å	4.49 Å	0.00 Å
2CRD	2	5.58 Å	5.58 Å	0.00 Å
2HIU	2	4.16 Å	4.16 Å	0.00 Å
2KNM	2	3.74 Å	3.74 Å	0.00 Å
2YXF	1	8.87 Å	8.87 Å	0.00 Å
4PTI	2	1.28 Å	1.28 Å	0.00 Å

±1 Å noise (L3A)

55%

97%

100%

0.04 Å

0.00 Å

0.56 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1JBL	2	1.40 Å	1.96 Å	0.56 Å
2HIU	2	1.59 Å	1.85 Å	0.26 Å
1HVZ	2	0.89 Å	1.07 Å	0.18 Å
1PT4	2	0.61 Å	0.71 Å	0.10 Å
1CRN	2	0.56 Å	0.65 Å	0.09 Å
1R1F	2	0.65 Å	0.73 Å	0.08 Å
1NXB	2	1.02 Å	1.10 Å	0.08 Å
2CI2	2	0.37 Å	0.41 Å	0.04 Å
1MSI	2	0.47 Å	0.50 Å	0.03 Å
1CTF	2	0.51 Å	0.54 Å	0.03 Å
1YCC	2	0.75 Å	0.77 Å	0.01 Å
1OMB	2	0.73 Å	0.74 Å	0.01 Å
1HRC	2	0.57 Å	0.58 Å	0.01 Å
2CRD	2	0.59 Å	0.60 Å	0.00 Å
1NB1	2	0.68 Å	0.68 Å	0.00 Å
1TEN	2	0.49 Å	0.50 Å	0.00 Å
1IB9	2	0.50 Å	0.50 Å	0.00 Å
4PTI	2	0.48 Å	0.48 Å	0.00 Å
2ACY	2	0.44 Å	0.44 Å	0.00 Å
1CSP	2	0.51 Å	0.51 Å	0.00 Å
1B3C	2	0.44 Å	0.44 Å	0.00 Å
1EGF	2	0.60 Å	0.60 Å	0.00 Å
1ENH	2	0.61 Å	0.61 Å	0.00 Å
1FKF	2	1.91 Å	1.91 Å	0.00 Å
1GB1	2	0.54 Å	0.54 Å	0.00 Å
1HPH	2	1.32 Å	1.32 Å	0.00 Å
1KTH	2	0.48 Å	0.48 Å	0.00 Å
1L2Y	2	1.31 Å	1.31 Å	0.00 Å
1POH	2	0.48 Å	0.48 Å	0.00 Å
1SHG	2	0.43 Å	0.43 Å	0.00 Å
1SN3	2	0.47 Å	0.47 Å	0.00 Å
1TIT	2	0.52 Å	0.52 Å	0.00 Å
1UBQ	2	0.47 Å	0.47 Å	0.00 Å
1VII	2	0.75 Å	0.75 Å	0.00 Å
2KNM	2	0.55 Å	0.55 Å	0.00 Å
2YXF	2	1.22 Å	1.22 Å	0.00 Å
4INS	2	4.35 Å	4.35 Å	0.00 Å
5WOW	2	0.55 Å	0.55 Å	0.00 Å

±3 Å noise (L3B)

79%

95%

0.21 Å

0.00 Å

5.70 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1SN3	2	1.88 Å	7.58 Å	5.70 Å
1HPH	2	3.28 Å	4.29 Å	1.02 Å
2YXF	2	3.20 Å	3.64 Å	0.45 Å
5WOW	2	5.40 Å	5.70 Å	0.30 Å
1YCC	2	1.87 Å	2.11 Å	0.24 Å
1CTF	2	1.39 Å	1.50 Å	0.11 Å
2CRD	2	2.13 Å	2.19 Å	0.05 Å
1UBQ	2	1.59 Å	1.61 Å	0.01 Å
1B3C	2	1.44 Å	1.44 Å	0.00 Å
1CRN	2	2.59 Å	2.59 Å	0.00 Å
1CSP	2	1.57 Å	1.57 Å	0.00 Å
1EGF	2	2.28 Å	2.28 Å	0.00 Å
1ENH	2	2.02 Å	2.02 Å	0.00 Å
1FKF	2	3.42 Å	3.42 Å	0.00 Å
1GB1	2	1.71 Å	1.71 Å	0.00 Å
1HRC	2	2.22 Å	2.22 Å	0.00 Å
1HVZ	2	3.41 Å	3.41 Å	0.00 Å
1IB9	2	1.15 Å	1.15 Å	0.00 Å
1JBL	2	1.37 Å	1.37 Å	0.00 Å
1KTH	2	2.10 Å	2.10 Å	0.00 Å
1L2Y	2	2.67 Å	2.67 Å	0.00 Å
1MSI	2	1.95 Å	1.95 Å	0.00 Å
1NB1	2	2.17 Å	2.17 Å	0.00 Å
1NXB	2	2.23 Å	2.23 Å	0.00 Å
1OMB	2	2.23 Å	2.23 Å	0.00 Å
1POH	2	1.44 Å	1.44 Å	0.00 Å
1PT4	2	1.44 Å	1.44 Å	0.00 Å
1R1F	2	1.48 Å	1.48 Å	0.00 Å
1SHG	2	1.22 Å	1.22 Å	0.00 Å
1TEN	2	2.01 Å	2.01 Å	0.00 Å
1TIT	2	1.64 Å	1.64 Å	0.00 Å
1VII	2	2.01 Å	2.01 Å	0.00 Å
2ACY	2	1.47 Å	1.47 Å	0.00 Å
2CI2	2	1.48 Å	1.48 Å	0.00 Å
2HIU	2	2.33 Å	2.33 Å	0.00 Å
2KNM	2	1.60 Å	1.60 Å	0.00 Å
4INS	2	4.93 Å	4.93 Å	0.00 Å
4PTI	2	1.65 Å	1.65 Å	0.00 Å

80% masked + SoI

53%

89%

0.37 Å

0.00 Å

5.67 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1HRC	10	4.92 Å	10.59 Å	5.67 Å
1FKF	10	9.19 Å	11.83 Å	2.64 Å
5WOW	10	0.96 Å	3.40 Å	2.43 Å
1HVZ	10	1.17 Å	2.66 Å	1.49 Å
4PTI	10	0.41 Å	0.73 Å	0.31 Å
1OMB	10	0.78 Å	1.00 Å	0.22 Å
1IB9	10	0.77 Å	0.97 Å	0.21 Å
1NXB	10	1.20 Å	1.41 Å	0.20 Å
2CRD	10	0.69 Å	0.88 Å	0.19 Å
1UBQ	10	0.89 Å	1.07 Å	0.17 Å
1CSP	10	0.38 Å	0.48 Å	0.09 Å
1PT4	10	1.51 Å	1.60 Å	0.09 Å
2HIU	10	2.72 Å	2.81 Å	0.09 Å
1ENH	10	0.47 Å	0.52 Å	0.05 Å
2CI2	10	0.50 Å	0.55 Å	0.04 Å
1L2Y	10	1.76 Å	1.78 Å	0.02 Å
2KNM	10	1.47 Å	1.48 Å	0.01 Å
1POH	10	0.35 Å	0.36 Å	0.01 Å
1B3C	10	0.39 Å	0.39 Å	0.00 Å
1CRN	10	0.64 Å	0.64 Å	0.00 Å
1CTF	10	0.50 Å	0.50 Å	0.00 Å
1EGF	10	0.46 Å	0.46 Å	0.00 Å
1GB1	10	0.46 Å	0.46 Å	0.00 Å
1HPH	10	2.51 Å	2.51 Å	0.00 Å
1JBL	10	0.99 Å	0.99 Å	0.00 Å
1KTH	10	0.52 Å	0.52 Å	0.00 Å
1MSI	10	0.42 Å	0.42 Å	0.00 Å
1NB1	10	0.80 Å	0.80 Å	0.00 Å
1R1F	10	0.78 Å	0.78 Å	0.00 Å
1SHG	10	0.55 Å	0.55 Å	0.00 Å
1SN3	10	0.36 Å	0.36 Å	0.00 Å
1TEN	10	3.25 Å	3.25 Å	0.00 Å
1TIT	10	0.81 Å	0.81 Å	0.00 Å
1VII	10	2.18 Å	2.18 Å	0.00 Å
1YCC	10	3.12 Å	3.12 Å	0.00 Å
2ACY	10	0.44 Å	0.44 Å	0.00 Å
2YXF	10	2.29 Å	2.29 Å	0.00 Å
4INS	10	5.02 Å	5.02 Å	0.00 Å

AlphaFold2 model

61%

91%

0.43 Å

0.00 Å

5.71 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1OMB	2	0.80 Å	6.51 Å	5.71 Å
1NB1	2	1.27 Å	5.71 Å	4.44 Å
1IB9	2	2.69 Å	6.14 Å	3.44 Å
1HPH	2	5.19 Å	5.57 Å	0.38 Å
1MSI	2	0.41 Å	0.57 Å	0.16 Å
1JBL	2	0.71 Å	0.84 Å	0.14 Å
2KNM	2	0.94 Å	0.94 Å	0.01 Å
1YCC	2	0.58 Å	0.58 Å	0.01 Å
1GB1	2	1.01 Å	1.01 Å	0.00 Å
1POH	2	0.43 Å	0.43 Å	0.00 Å
1VII	2	1.42 Å	1.42 Å	0.00 Å
1PT4	2	2.13 Å	2.14 Å	0.00 Å
2CRD	2	1.07 Å	1.07 Å	0.00 Å
2CI2	2	0.49 Å	0.49 Å	0.00 Å
1ENH	2	0.88 Å	0.88 Å	0.00 Å
1SHG	2	0.57 Å	0.57 Å	0.00 Å
1B3C	2	1.61 Å	1.61 Å	0.00 Å
1CRN	2	0.40 Å	0.40 Å	0.00 Å
1CSP	2	0.89 Å	0.89 Å	0.00 Å
1CTF	2	0.58 Å	0.58 Å	0.00 Å
1EGF	2	2.65 Å	2.65 Å	0.00 Å
1FKF	2	1.64 Å	1.64 Å	0.00 Å
1HRC	2	0.34 Å	0.34 Å	0.00 Å
1KTH	2	8.81 Å	8.81 Å	0.00 Å
1NXB	2	0.94 Å	0.94 Å	0.00 Å
1R1F	2	2.45 Å	2.45 Å	0.00 Å
1TEN	2	0.64 Å	0.64 Å	0.00 Å
1UBQ	2	0.94 Å	0.94 Å	0.00 Å
2ACY	2	0.46 Å	0.46 Å	0.00 Å
2HIU	2	5.53 Å	5.53 Å	0.00 Å
2YXF	2	2.92 Å	2.92 Å	0.00 Å
4INS	2	10.33 Å	10.33 Å	0.00 Å
4PTI	2	0.34 Å	0.34 Å	0.00 Å

ESMFold model

68%

89%

92%

0.20 Å

0.00 Å

3.71 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1IB9	2	2.59 Å	6.31 Å	3.71 Å
1CRN	2	6.62 Å	8.26 Å	1.64 Å
1JBL	2	0.59 Å	2.03 Å	1.44 Å
1L2Y	2	3.18 Å	3.69 Å	0.51 Å
1HPH	2	5.22 Å	5.39 Å	0.17 Å
1FKF	2	1.65 Å	1.80 Å	0.15 Å
1YCC	2	0.62 Å	0.68 Å	0.05 Å
1HRC	2	0.45 Å	0.46 Å	0.02 Å
1TEN	2	0.57 Å	0.58 Å	0.02 Å
1MSI	2	0.37 Å	0.38 Å	0.01 Å
1R1F	2	4.11 Å	4.12 Å	0.01 Å
1KTH	2	1.08 Å	1.09 Å	0.01 Å
1PT4	2	1.45 Å	1.46 Å	0.00 Å
1NXB	2	1.61 Å	1.61 Å	0.00 Å
1VII	2	1.47 Å	1.47 Å	0.00 Å
1EGF	2	3.10 Å	3.10 Å	0.00 Å
1CTF	2	0.48 Å	0.48 Å	0.00 Å
1GB1	2	0.98 Å	0.98 Å	0.00 Å
1B3C	2	2.09 Å	2.09 Å	0.00 Å
1CSP	2	0.99 Å	0.99 Å	0.00 Å
1ENH	2	0.72 Å	0.72 Å	0.00 Å
1HVZ	2	2.47 Å	2.47 Å	0.00 Å
1NB1	2	0.68 Å	0.68 Å	0.00 Å
1OMB	2	1.42 Å	1.42 Å	0.00 Å
1POH	2	0.48 Å	0.48 Å	0.00 Å
1SHG	2	0.30 Å	0.30 Å	0.00 Å
1SN3	2	0.98 Å	0.98 Å	0.00 Å
1TIT	2	1.24 Å	1.24 Å	0.00 Å
1UBQ	2	0.68 Å	0.68 Å	0.00 Å
2ACY	2	0.47 Å	0.47 Å	0.00 Å
2CI2	2	0.38 Å	0.38 Å	0.00 Å
2CRD	2	1.08 Å	1.08 Å	0.00 Å
2HIU	2	8.72 Å	8.72 Å	0.00 Å
2KNM	2	1.17 Å	1.17 Å	0.00 Å
2YXF	2	3.15 Å	3.15 Å	0.00 Å
4INS	2	15.09 Å	15.09 Å	0.00 Å
4PTI	2	0.29 Å	0.29 Å	0.00 Å
5WOW	2	3.76 Å	3.76 Å	0.00 Å

Homolog template

62%

79%

88%

0.38 Å

0.00 Å

4.43 Å

Target	Seeds	Native selector	Blind selector	Δ (blind − native)
1B3C	2	5.40 Å	9.83 Å	4.43 Å
1HRC	2	8.10 Å	11.53 Å	3.43 Å
4PTI	2	11.21 Å	12.47 Å	1.26 Å
4INS	2	10.79 Å	11.97 Å	1.19 Å
1JBL	2	0.87 Å	1.59 Å	0.73 Å
1NXB	2	7.41 Å	7.98 Å	0.57 Å
1OMB	2	5.59 Å	6.10 Å	0.51 Å
1EGF	2	5.03 Å	5.35 Å	0.33 Å
1GB1	2	1.56 Å	1.75 Å	0.19 Å
1IB9	2	2.47 Å	2.64 Å	0.17 Å
1TEN	2	3.89 Å	4.01 Å	0.12 Å
1CSP	2	2.73 Å	2.80 Å	0.07 Å
1POH	2	0.27 Å	0.28 Å	0.01 Å
1CRN	2	0.29 Å	0.29 Å	0.00 Å
1CTF	2	10.21 Å	10.21 Å	0.00 Å
1ENH	2	0.88 Å	0.88 Å	0.00 Å
1FKF	2	1.70 Å	1.70 Å	0.00 Å
1HPH	2	5.70 Å	5.70 Å	0.00 Å
1KTH	2	0.57 Å	0.57 Å	0.00 Å
1L2Y	2	0.64 Å	0.64 Å	0.00 Å
1MSI	2	0.27 Å	0.27 Å	0.00 Å
1NB1	2	0.79 Å	0.79 Å	0.00 Å
1PT4	2	0.88 Å	0.88 Å	0.00 Å
1SHG	2	0.61 Å	0.61 Å	0.00 Å
1TIT	2	13.50 Å	13.50 Å	0.00 Å
1UBQ	2	1.68 Å	1.68 Å	0.00 Å
1VII	2	1.99 Å	1.99 Å	0.00 Å
2ACY	2	1.69 Å	1.69 Å	0.00 Å
2CI2	2	2.93 Å	2.93 Å	0.00 Å
2CRD	2	2.19 Å	2.19 Å	0.00 Å
2HIU	2	2.87 Å	2.87 Å	0.00 Å
2KNM	2	1.67 Å	1.67 Å	0.00 Å
2YXF	2	3.63 Å	3.63 Å	0.00 Å
5WOW	2	2.41 Å	2.41 Å	0.00 Å

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