Proposed backbone-leading modality schedules and teacher-clock simulation; no training change

EDM2-weighted fully loaded bridge: frozen code, inputs, objective checks and matched Delta arm

Combined localized robust SC bridge: frozen inputs, process checks, two controlled Delta arms

Add modality and training schedule figures with numerical curves

Combined localized robust SC bridge: frozen inputs, process checks, two controlled Delta arms

Smooth ordered delayed-sidechain clocks: exact process, checks and controlled Delta experiment

Back up self-conditioning and staged side-chain prototype with frozen inputs

Back up controlled localized residue-path trials and portable public inputs

Recorded79853 EMA sampling GIF with sequence and time

Natural Cu/Zn SB pilots and common all-atom co-designability evaluation

Record corrected seven-job evaluation publication receipts

Limit alignment evaluation to seven final EMA jobs; preserve superseded plans

Record Delta64 evaluation publication receipts

Launch64-sample Delta EMA evaluation with verified native probe

Report two SB implementations and frozen checkpoint results

Record completed SB2 Git HF and checkpoint backup receipts

SB2 source-hinge motion reference, inputs, validation and 100K launch

Record completed SB motion-lift review publication receipts

Add SB motion-lift review, independent numerical checks and reference cutoff diagnostic

Record completed SB pilot publication and verified source archive receipts

Add posterior-ancestry SB pilot code, tests, launch and verified runtime receipts

Validate restricted all-atom SB reference and publish posterior audit

Add matched pairwise-distance bridge experiment and offline verification

Add frozen alignment and rigid-ligand overfit comparison inputs

Publish controlled 3Di versus TM-align comparison and prepared reproducible inputs

Add ligand lookup runtime diagnosis, equivalence checks and deployed speedup

Add mixed-pair and long multi-ligand overfit inputs and process diagnostics

Publish rigid-ligand sampled movie and reproducible trajectory

Record completed rigid-ligand experiment publication

Publish rigid-ligand bridge and completed 10K joint overfit

Record final filter review publication

Publish final motif filter review and existing aggregate evidence

Back up measured InterPro API coverage, sampled inputs and cached responses

Explain partial feature overlap, real matching examples and M-CSA scope

Clarify reference-feature OR selection; FAPM remains diagnostic

Back up BioLiP2 and InterPro binding-context comparison and portable inputs

Back up BioLiP2 and InterPro binding-context comparison and portable inputs

Back up fresh InterProScan native-sequence panel and current status

Back up fresh InterProScan native-sequence panel and current status

Publish native-sequence UniProt binding-label benchmark and reusable inputs

Mark reference-mask dependent results for recomputation

Mark reference-mask dependent results for recomputation

Publish motif plus pocket geometry benchmark, corrected mappings and portable inputs

Publish EC GO InterPro label-set filters and pocket feasibility audit

Publish reproducible four-arm sequence profile filtering experiment