======================================================================
MASS HARMONICS wwPDB JULY 15 2026 - RIGOROUS COMPUTATIONAL ANALYSIS
======================================================================
phi          = 1.618033988749895
phi^-3       = 0.236067977500
phi^-6       = 0.055728090001
c/phi^9      = 3943.954906 km/s
Release date : 2026-07-15 00:00 UTC
Entries      : 293 (RCSB API confirmed)
EM entries   : 93  X-ray entries: ~200
Output dir   : D:\ProjectBuilds\Projects\MH_Indexed\Scripts\..\wwPDB_July15_analysis

Z-CASCADE SPOT-CHECK vs MH_Origin.md Appendix C:
  Z(CCC) = 0.971783729  expected = 0.971783729  err = 0.00000%  OK
  Z(UUU) = 1.046918051  expected = 1.046918000  err = 0.00000%  OK
  Z(AAA) = 1.021173210  expected = 1.021173000  err = 0.00002%  OK
  Z(GGG) = 1.022880175  expected = 1.022880000  err = 0.00002%  OK
  Z(CUU) = 0.988338154  expected = 0.988338154  err = 0.00000%  OK
  Z(AGU) = 1.022607610  expected = 1.022608000  err = 0.00004%  OK
  Z(UAC) = 1.038734050  expected = 1.038734000  err = 0.00000%  OK
  Z(GCU) = 1.014395562  expected = 1.014396000  err = 0.00004%  OK
  All spot-checks passed: True


######################################################################
# ENTRY: 10DT  |  Src kinase Fgr SH3-SH2-Linker (X-ray 1.8 A)
######################################################################
  [CACHE] 10DT.cif mmCIF coordinates
  gemmi parser: 175 CA atoms
  Region assignment (Q75 mobile thresh=17.232 A^2, mean B=15.779):
    mobile: 45
    resolved_core: 116
    resolved_surface: 14
    unmodeled: 2
  Fetching CDS via UniProt P09769...
  [CACHE] UniProt P09769
    RefSeq mRNA: NM_001042729
  [CACHE] P09769/NM_001042729
    CDS parsed: 530 codons
  Codon positions mapped: 529

======================================================================
PDB-1: Q_delta Equilateral-Triad Analysis [10DT]
======================================================================
  Building 3D Delaunay tessellation of 175 CA positions...
  979 tetrahedra, extracting triangular faces...
  Unique triangular faces: 1992

  Q_delta statistics by region:
    resolved_core       : n= 1377  median=0.817930  mean=0.759112  min=0.0282  max=0.9997
    resolved_surface    : n=   34  median=0.775351  mean=0.738725  min=0.2775  max=0.9856
    mobile              : n=  454  median=0.606920  mean=0.581353  min=0.0472  max=0.9904
    mixed               : n=  127  median=0.712283  mean=0.663697  min=0.0747  max=0.9959

  MULTI-QUANTILE ROBUSTNESS (mobile threshold sweep):
  Quantile   mob_thresh   core_med   surf_med    mob_med  core>surf   core>mob
  Q75            17.232   0.817930   0.775351   0.606920        YES        YES
  Q80            19.426   0.817930   0.663124   0.610052        YES        YES
  Q85            21.601   0.817930   0.667023   0.579589        YES        YES
  Q90            25.382   0.817930   0.665463   0.568992        YES        YES

  PRIMARY: core vs surface: median(core)=0.817930  median(surf)=0.775351  delta=+0.042580  direction_ok=True
  -> PDB-1 core>surface: CONFIRMED
  PRIMARY: core vs mobile: median(core)=0.817930  median(mobile)=0.606920  delta=+0.211010  direction_ok=True
  -> PDB-1 core>mobile: CONFIRMED

======================================================================
PDB-3: Codon Z-Cascade Residual D_i [10DT]
======================================================================
  Eligible (modeled + codon-annotated): 175 / 175
  Computing D_i for each eligible residue...

  D_i distribution by region:
    resolved_core       : n=  116  median=0.040761  mean=0.050093  mean B_factor=12.197
    resolved_surface    : n=   14  median=0.029837  mean=0.061298  mean B_factor=16.487
    mobile              : n=   45  median=0.049737  mean=0.060491  mean B_factor=24.795

  PRIMARY: D_i core < mobile/unmodeled: median(core)=0.040761  median(mob)=0.049737  delta=+0.008977  ok=True
  -> PDB-3 CONFIRMED: Lower D_i in resolved core
  SECONDARY: D_i core < surface: median(core)=0.040761  median(surf)=0.029837  ok=False

  Correlation D_i vs B-factor:
    Pearson  r = 0.0445  (predicted: positive)
    Spearman r = 0.0088  (predicted: positive)
    Confirmed: True

  Permutation control (shuffled Orientation Deltas): Pearson r = -0.1674
    Expected: near 0. Actual test r = 0.0445 vs control = -0.1674

======================================================================
PDB-4: Synonymous-Codon Orientation Stratification [10DT]
======================================================================
  Eligible: 175

  AA   codons  Spearman(|delta|,B)  direction_ok
  ------------------------------------------------------------
  A    10 syn   r=-0.0667  NO
    UAU: |delta|=0.003797  mean_B=8.911 A^2  n=1
    GAU: |delta|=0.006676  mean_B=12.931 A^2  n=1
    UGG: |delta|=0.010491  mean_B=24.355 A^2  n=1
    AUC: |delta|=0.010687  mean_B=14.633 A^2  n=1
    AGC: |delta|=0.014186  mean_B=22.470 A^2  n=2
    UCA: |delta|=0.018555  mean_B=10.997 A^2  n=1
    CGG: |delta|=0.022607  mean_B=11.528 A^2  n=1
    UAC: |delta|=0.025708  mean_B=12.349 A^2  n=1
    CUG: |delta|=0.026265  mean_B=11.219 A^2  n=1
    UCC: |delta|=0.032895  mean_B=13.776 A^2  n=1
  C     3 syn   r=-1.0000  NO
    AAG: |delta|=0.000494  mean_B=15.951 A^2  n=1
    AUC: |delta|=0.010687  mean_B=14.760 A^2  n=1
    AAC: |delta|=0.014436  mean_B=11.154 A^2  n=1
  D     9 syn   r=-0.2500  NO
    GCU: |delta|=0.000803  mean_B=21.603 A^2  n=2
    AUC: |delta|=0.010687  mean_B=32.346 A^2  n=1
    AAC: |delta|=0.014436  mean_B=15.060 A^2  n=1
    GGC: |delta|=0.014937  mean_B=19.140 A^2  n=1
    ACC: |delta|=0.021725  mean_B=11.920 A^2  n=2
    UUC: |delta|=0.022012  mean_B=15.277 A^2  n=1
    CGA: |delta|=0.022115  mean_B=12.392 A^2  n=1
    UAC: |delta|=0.025708  mean_B=27.551 A^2  n=1
    CAU: |delta|=0.029242  mean_B=17.232 A^2  n=1
  E    11 syn   r=-0.3727  NO
    UUU: |delta|=0.000000  mean_B=13.641 A^2  n=1
    GGG: |delta|=0.000000  mean_B=14.712 A^2  n=1
    GAG: |delta|=0.000254  mean_B=16.267 A^2  n=1
    GGA: |delta|=0.000495  mean_B=16.021 A^2  n=1
    GGU: |delta|=0.006932  mean_B=18.558 A^2  n=1
    CAC: |delta|=0.007486  mean_B=12.540 A^2  n=1
    UGG: |delta|=0.010491  mean_B=25.769 A^2  n=1
    AUC: |delta|=0.010687  mean_B=10.156 A^2  n=1
    CUC: |delta|=0.011335  mean_B=8.980 A^2  n=1
    ACC: |delta|=0.021725  mean_B=15.839 A^2  n=2
    CUU: |delta|=0.033193  mean_B=11.396 A^2  n=1
  F     6 syn   r=-0.0857  NO
    GGG: |delta|=0.000000  mean_B=14.153 A^2  n=1
    GAG: |delta|=0.000254  mean_B=12.128 A^2  n=1
    GAA: |delta|=0.000748  mean_B=9.440 A^2  n=1
    UAU: |delta|=0.003797  mean_B=9.544 A^2  n=1
    AAC: |delta|=0.014436  mean_B=9.224 A^2  n=1
    CAG: |delta|=0.022346  mean_B=14.954 A^2  n=1
  G    13 syn   r=-0.3736  NO
    GGG: |delta|=0.000000  mean_B=20.305 A^2  n=1
    GAG: |delta|=0.000254  mean_B=23.355 A^2  n=1
    AGA: |delta|=0.000254  mean_B=16.501 A^2  n=1
    AAG: |delta|=0.000494  mean_B=20.876 A^2  n=1
    CAC: |delta|=0.007486  mean_B=10.270 A^2  n=1
    GCA: |delta|=0.008160  mean_B=17.188 A^2  n=1
    AUC: |delta|=0.010687  mean_B=17.373 A^2  n=1
    AUU: |delta|=0.011272  mean_B=11.746 A^2  n=1
    AGC: |delta|=0.014186  mean_B=11.465 A^2  n=1
    GAC: |delta|=0.015186  mean_B=27.123 A^2  n=1
    ACC: |delta|=0.021725  mean_B=15.297 A^2  n=1
    UGC: |delta|=0.025462  mean_B=15.543 A^2  n=1
    CUG: |delta|=0.026265  mean_B=16.465 A^2  n=2
  H     4 syn   r=+0.4000  YES
    GUG: |delta|=0.003560  mean_B=12.063 A^2  n=1
    AAU: |delta|=0.007423  mean_B=9.962 A^2  n=1
    CGC: |delta|=0.007742  mean_B=11.392 A^2  n=1
    UAC: |delta|=0.025708  mean_B=13.797 A^2  n=1
  I     8 syn   r=+0.3571  YES
    ACU: |delta|=0.000063  mean_B=9.326 A^2  n=1
    GAG: |delta|=0.000254  mean_B=12.091 A^2  n=2
    GAU: |delta|=0.006676  mean_B=13.743 A^2  n=2
    GUU: |delta|=0.010521  mean_B=14.559 A^2  n=1
    GAC: |delta|=0.015186  mean_B=10.913 A^2  n=2
    ACC: |delta|=0.021725  mean_B=14.767 A^2  n=1
    CAG: |delta|=0.022346  mean_B=28.838 A^2  n=1
    UAC: |delta|=0.025708  mean_B=10.129 A^2  n=1
  K     9 syn   r=-0.2167  NO
    GAG: |delta|=0.000254  mean_B=25.382 A^2  n=1
    AAG: |delta|=0.000494  mean_B=19.756 A^2  n=1
    AGG: |delta|=0.000748  mean_B=14.847 A^2  n=1
    AUC: |delta|=0.010687  mean_B=12.474 A^2  n=1
    AUU: |delta|=0.011272  mean_B=14.199 A^2  n=1
    GGC: |delta|=0.014937  mean_B=21.097 A^2  n=1
    UUC: |delta|=0.022012  mean_B=12.175 A^2  n=1
    CUG: |delta|=0.026265  mean_B=19.922 A^2  n=3
    UCC: |delta|=0.032895  mean_B=17.593 A^2  n=1
  L    14 syn   r=+0.1341  YES
    AAA: |delta|=0.000000  mean_B=12.038 A^2  n=1
    CCC: |delta|=0.000000  mean_B=13.497 A^2  n=1
    GAG: |delta|=0.000254  mean_B=10.627 A^2  n=1
    AAG: |delta|=0.000494  mean_B=20.058 A^2  n=2
    GAA: |delta|=0.000748  mean_B=9.368 A^2  n=1
    CUC: |delta|=0.011335  mean_B=14.210 A^2  n=1
    AGC: |delta|=0.014186  mean_B=10.262 A^2  n=1
    AAC: |delta|=0.014436  mean_B=13.459 A^2  n=1
    GGC: |delta|=0.014937  mean_B=17.051 A^2  n=2
    GAC: |delta|=0.015186  mean_B=9.178 A^2  n=1
    GCC: |delta|=0.022468  mean_B=26.599 A^2  n=1
    UGC: |delta|=0.025462  mean_B=12.204 A^2  n=1
    UAC: |delta|=0.025708  mean_B=11.228 A^2  n=1
    CUG: |delta|=0.026265  mean_B=14.511 A^2  n=1
  M     3 syn   r=-0.5000  NO
    ACG: |delta|=0.006929  mean_B=35.478 A^2  n=1
    GAC: |delta|=0.015186  mean_B=12.159 A^2  n=1
    UAC: |delta|=0.025708  mean_B=24.332 A^2  n=1
  N     7 syn   r=+0.2857  YES
    GAG: |delta|=0.000254  mean_B=15.329 A^2  n=1
    GGU: |delta|=0.006932  mean_B=9.997 A^2  n=1
    GCG: |delta|=0.007670  mean_B=12.969 A^2  n=1
    GAC: |delta|=0.015186  mean_B=13.193 A^2  n=1
    CCU: |delta|=0.021560  mean_B=12.608 A^2  n=1
    GCC: |delta|=0.022468  mean_B=16.291 A^2  n=1
    UGC: |delta|=0.025462  mean_B=14.935 A^2  n=1
  P     6 syn   r=+0.6571  YES
    UUU: |delta|=0.000000  mean_B=15.160 A^2  n=1
    GUG: |delta|=0.003560  mean_B=11.063 A^2  n=1
    AUG: |delta|=0.004311  mean_B=16.937 A^2  n=1
    AUC: |delta|=0.010687  mean_B=11.703 A^2  n=1
    GGC: |delta|=0.014937  mean_B=33.661 A^2  n=1
    CAG: |delta|=0.022346  mean_B=19.426 A^2  n=1
  Q     8 syn   r=+0.1429  YES
    GAG: |delta|=0.000254  mean_B=13.480 A^2  n=1
    GUG: |delta|=0.003560  mean_B=17.166 A^2  n=1
    GAU: |delta|=0.006676  mean_B=24.095 A^2  n=1
    UGG: |delta|=0.010491  mean_B=13.622 A^2  n=1
    CUC: |delta|=0.011335  mean_B=13.884 A^2  n=1
    CCA: |delta|=0.014239  mean_B=14.992 A^2  n=1
    CAG: |delta|=0.022346  mean_B=10.591 A^2  n=1
    CUG: |delta|=0.026265  mean_B=39.321 A^2  n=1
  R     9 syn   r=-0.8000  NO
    GAG: |delta|=0.000254  mean_B=15.962 A^2  n=1
    GUG: |delta|=0.003560  mean_B=25.512 A^2  n=1
    AUG: |delta|=0.004311  mean_B=16.574 A^2  n=1
    AAC: |delta|=0.014436  mean_B=29.924 A^2  n=1
    GAC: |delta|=0.015186  mean_B=14.648 A^2  n=1
    UCA: |delta|=0.018555  mean_B=12.736 A^2  n=1
    ACC: |delta|=0.021725  mean_B=11.250 A^2  n=1
    CAG: |delta|=0.022346  mean_B=10.631 A^2  n=1
    UCC: |delta|=0.032895  mean_B=11.264 A^2  n=1
  S    11 syn   r=-0.3273  NO
    CCC: |delta|=0.000000  mean_B=17.350 A^2  n=1
    AAA: |delta|=0.000000  mean_B=13.529 A^2  n=1
    ACU: |delta|=0.000063  mean_B=13.518 A^2  n=1
    GGA: |delta|=0.000495  mean_B=9.601 A^2  n=1
    GAA: |delta|=0.000748  mean_B=15.188 A^2  n=1
    UGG: |delta|=0.010491  mean_B=8.229 A^2  n=1
    AUU: |delta|=0.011272  mean_B=33.639 A^2  n=1
    GGC: |delta|=0.014937  mean_B=15.096 A^2  n=1
    GCC: |delta|=0.022468  mean_B=12.268 A^2  n=1
    CGG: |delta|=0.022607  mean_B=12.166 A^2  n=1
    CUG: |delta|=0.026265  mean_B=11.474 A^2  n=1
  T    11 syn   r=+0.6455  YES
    CCC: |delta|=0.000000  mean_B=11.293 A^2  n=1
    AAG: |delta|=0.000494  mean_B=13.249 A^2  n=1
    UGG: |delta|=0.010491  mean_B=18.378 A^2  n=1
    CUC: |delta|=0.011335  mean_B=15.297 A^2  n=1
    CCG: |delta|=0.014726  mean_B=23.066 A^2  n=1
    GGC: |delta|=0.014937  mean_B=11.536 A^2  n=1
    UUC: |delta|=0.022012  mean_B=27.085 A^2  n=1
    CAG: |delta|=0.022346  mean_B=20.679 A^2  n=1
    GCC: |delta|=0.022468  mean_B=24.501 A^2  n=3
    UAC: |delta|=0.025708  mean_B=17.184 A^2  n=1
    CAU: |delta|=0.029242  mean_B=26.836 A^2  n=1
  V     6 syn   r=+0.7714  YES
    AAG: |delta|=0.000494  mean_B=11.326 A^2  n=1
    GUG: |delta|=0.003560  mean_B=9.378 A^2  n=1
    AUG: |delta|=0.004311  mean_B=10.196 A^2  n=1
    GAC: |delta|=0.015186  mean_B=11.754 A^2  n=1
    UCG: |delta|=0.018064  mean_B=23.095 A^2  n=1
    CUG: |delta|=0.026265  mean_B=15.038 A^2  n=1
  W     4 syn   r=+0.4000  YES
    AGA: |delta|=0.000254  mean_B=14.774 A^2  n=1
    AAG: |delta|=0.000494  mean_B=10.505 A^2  n=1
    UCU: |delta|=0.011181  mean_B=10.550 A^2  n=1
    CGG: |delta|=0.022607  mean_B=15.844 A^2  n=1
  Y     9 syn   r=+0.0000  NO
    AAA: |delta|=0.000000  mean_B=11.051 A^2  n=1
    ACU: |delta|=0.000063  mean_B=12.751 A^2  n=1
    GCU: |delta|=0.000803  mean_B=12.138 A^2  n=1
    ACA: |delta|=0.007419  mean_B=13.654 A^2  n=1
    AAU: |delta|=0.007423  mean_B=11.141 A^2  n=1
    GUU: |delta|=0.010521  mean_B=10.522 A^2  n=1
    AUC: |delta|=0.010687  mean_B=11.545 A^2  n=1
    AUU: |delta|=0.011272  mean_B=10.954 A^2  n=1
    CGG: |delta|=0.022607  mean_B=14.432 A^2  n=1

  Synonymous-codon direction summary:
  9/20 AAs show predicted direction (frac=0.45)
  -> PDB-4 INCONCLUSIVE (50% band)

######################################################################
# ENTRY: 9ZYS  |  Phage Bas18 Icosahedral Capsid (cryo-EM 3.7 A)
######################################################################
  [CACHE] 9ZYS.cif mmCIF coordinates
  gemmi parser: 2644 CA atoms
  Region assignment (Q75 mobile thresh=72.990 A^2, mean B=67.416):
    mobile: 662
    resolved_core: 1608
    resolved_surface: 374
  NCBI esearch: gene=gpH, organism=Escherichia phage
    No NCBI records found.
  Codon positions mapped: 0

======================================================================
PDB-1: Q_delta Equilateral-Triad Analysis [9ZYS]
======================================================================
  Building 3D Delaunay tessellation of 2644 CA positions...
  17595 tetrahedra, extracting triangular faces...
  Unique triangular faces: 35253

  Q_delta statistics by region:
    resolved_core       : n=21862  median=0.813821  mean=0.760122  min=0.0081  max=1.0000
    resolved_surface    : n= 3768  median=0.723562  mean=0.677876  min=0.0131  max=0.9999
    mobile              : n= 8628  median=0.743574  mean=0.685745  min=0.0169  max=0.9999
    mixed               : n=  995  median=0.732359  mean=0.680417  min=0.0406  max=0.9994

  MULTI-QUANTILE ROBUSTNESS (mobile threshold sweep):
  Quantile   mob_thresh   core_med   surf_med    mob_med  core>surf   core>mob
  Q75            72.990   0.813821   0.723562   0.743574        YES        YES
  Q80            75.010   0.813821   0.744533   0.734609        YES        YES
  Q85            77.510   0.813821   0.745571   0.729273        YES        YES
  Q90            81.170   0.813821   0.751083   0.700866        YES        YES

  PRIMARY: core vs surface: median(core)=0.813821  median(surf)=0.723562  delta=+0.090259  direction_ok=True
  -> PDB-1 core>surface: CONFIRMED
  PRIMARY: core vs mobile: median(core)=0.813821  median(mobile)=0.743574  delta=+0.070247  direction_ok=True
  -> PDB-1 core>mobile: CONFIRMED

======================================================================
PDB-2: Icosahedral Axis Recovery from Coordinates [9ZYS]
  NOTE: Symmetry metadata (I label) is NOT used in this computation.
  Axes are recovered by testing coordinate self-maps.
======================================================================
  2644 CA atoms, centroid: (317.29, 728.33, 523.06)
  Polymer chains: 9 (A, B, C, D, E, F, G, H, I)
    Chain A: radial distance = 80.69 A, direction = (0.463, 0.876, 0.138)
    Chain B: radial distance = 30.48 A, direction = (0.345, 0.848, 0.402)
    Chain C: radial distance = 41.28 A, direction = (-0.122, -0.083, 0.989)
    Chain D: radial distance = 52.94 A, direction = (-0.426, -0.756, 0.496)
    Chain E: radial distance = 55.99 A, direction = (-0.418, -0.860, -0.293)
    Chain F: radial distance = 48.49 A, direction = (-0.070, -0.429, -0.901)
    Chain G: radial distance = 36.04 A, direction = (0.371, 0.452, -0.811)
    Chain H: radial distance = 29.43 A, direction = (-0.912, -0.182, -0.367)
    Chain I: radial distance = 24.98 A, direction = (-0.993, 0.087, 0.086)

  Testing 100 candidate axes x 3 orders (2,3,5)...

  Rotation self-map results:
  C2: 49 hits, 6 unique axes  (expected ~15)  best RMSD=7.69 A
    Cluster 1: axis=(-0.274,-0.098,0.957), RMSD=8.556 A, n_members=8
    Cluster 2: axis=(-0.878,0.455,-0.148), RMSD=7.821 A, n_members=15
    Cluster 3: axis=(0.010,-0.130,-0.991), RMSD=8.806 A, n_members=8
  C3: 16 hits, 1 unique axes  (expected ~10)  best RMSD=8.44 A
    Cluster 1: axis=(-0.878,0.455,-0.148), RMSD=8.441 A, n_members=16
  C5: 3 hits, 1 unique axes  (expected ~6)  best RMSD=9.95 A
    Cluster 1: axis=(-0.866,0.475,-0.159), RMSD=9.947 A, n_members=3

  PDB-2 Summary:
    C2 (2-fold) recovered: True
    C3 (3-fold) recovered: True
    C5 (5-fold) recovered: True
    Complete {2,3,5} scaffold: True
  -> PDB-2 VALIDATED: {2,3,5} axis scaffold confirmed coordinate-natively from 9ZYS

  Topology Sentinel (Prediction Section XI.7):
    'An icosahedral metadata label is not accepted as the geometric result.'
    This computation recovered axes directly from CA coordinates.
    Symmetry metadata (point_symmetry=I) was NOT used to select the result.
    SENTINEL COMPLIANT: YES

======================================================================
PDB-3: Codon Z-Cascade Residual D_i [9ZYS]
======================================================================
  SKIP: No coding sequence available (see Derivation 3 Step 5).

======================================================================
PDB-4: Synonymous-Codon Orientation Stratification [9ZYS]
======================================================================
  SKIP: No coding sequence available.

######################################################################
# ENTRY: 10ZK  |  Nitrogenase complex C2 sym (cryo-EM 2.73 A)
######################################################################
  [CACHE] 10ZK.cif mmCIF coordinates
  gemmi parser: 3081 CA atoms
  Region assignment (Q75 mobile thresh=54.330 A^2, mean B=44.016):
    mobile: 772
    resolved_core: 1822
    resolved_surface: 487
  NCBI esearch: gene=nifH, organism=Gluconacetobacter diazotrophicus
    No NCBI records found.
  Codon positions mapped: 0

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PDB-1: Q_delta Equilateral-Triad Analysis [10ZK]
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  Building 3D Delaunay tessellation of 3081 CA positions...
  20315 tetrahedra, extracting triangular faces...
  Unique triangular faces: 40719

  Q_delta statistics by region:
    resolved_core       : n=24255  median=0.850966  mean=0.816226  min=0.0280  max=1.0000
    resolved_surface    : n= 5132  median=0.828634  mean=0.760962  min=0.0217  max=1.0000
    mobile              : n= 9724  median=0.799888  mean=0.721279  min=0.0132  max=1.0000
    mixed               : n= 1608  median=0.811067  mean=0.753684  min=0.0156  max=0.9999

  MULTI-QUANTILE ROBUSTNESS (mobile threshold sweep):
  Quantile   mob_thresh   core_med   surf_med    mob_med  core>surf   core>mob
  Q75            54.330   0.850966   0.828634   0.799888        YES        YES
  Q80            58.310   0.850966   0.830740   0.789024        YES        YES
  Q85            62.340   0.850966   0.830052   0.770465        YES        YES
  Q90            68.210   0.850966   0.828236   0.741695        YES        YES

  PRIMARY: core vs surface: median(core)=0.850966  median(surf)=0.828634  delta=+0.022332  direction_ok=True
  -> PDB-1 core>surface: CONFIRMED
  PRIMARY: core vs mobile: median(core)=0.850966  median(mobile)=0.799888  delta=+0.051078  direction_ok=True
  -> PDB-1 core>mobile: CONFIRMED

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PDB-3: Codon Z-Cascade Residual D_i [10ZK]
======================================================================
  SKIP: No coding sequence available (see Derivation 3 Step 5).

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PDB-4: Synonymous-Codon Orientation Stratification [10ZK]
======================================================================
  SKIP: No coding sequence available.

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PREDICTION VERDICT MATRIX - MH_PREDICTION_02 vs July 15, 2026 Release
======================================================================

Pathway    Entry   Result                                             Verdict
--------------------------------------------------------------------------------
PDB-1      10DT    core>surf=True  core>mob=True  VALIDATED
PDB-3      10DT    D_i_core<mob=True  Pearson_r=0.0445  Spearman_r=0.0088  ctrl=-0.1674  VALIDATED
PDB-4      10DT    9/20 AAs positive  frac=0.45  INCONCLUSIVE
PDB-1      9ZYS    core>surf=True  core>mob=True  VALIDATED
PDB-2      9ZYS    C2=True C3=True C5=True  VALIDATED
PDB-3      9ZYS    NO CODING SEQUENCE - INSUFFICIENT TERRAIN
PDB-4      9ZYS    NO CODING SEQUENCE - INSUFFICIENT TERRAIN
PDB-1      10ZK    core>surf=True  core>mob=True  VALIDATED
PDB-3      10ZK    NO CODING SEQUENCE - INSUFFICIENT TERRAIN
PDB-4      10ZK    NO CODING SEQUENCE - INSUFFICIENT TERRAIN

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TRUTH > COMFORT. Always.
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