{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2025:D3UU4MJTIY3C5XRZXVV5KVMJSX","merge_version":"pith-open-graph-merge-v1","event_count":2,"valid_event_count":2,"invalid_event_count":0,"equivocation_count":0,"current":{"canonical_record":{"metadata":{"abstract_canon_sha256":"4a4867b53fb36b817dac44e666a9097753e1a0323279bbcf3bfdc3f50a88325b","cross_cats_sorted":[],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2025-03-06T22:49:29Z","title_canon_sha256":"3af699035fd0080b96309034d4984e5c6a83d1e221d25bdd1ef7e854c3691696"},"schema_version":"1.0","source":{"id":"2503.05025","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2503.05025","created_at":"2026-07-05T10:26:18Z"},{"alias_kind":"arxiv_version","alias_value":"2503.05025v1","created_at":"2026-07-05T10:26:18Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2503.05025","created_at":"2026-07-05T10:26:18Z"},{"alias_kind":"pith_short_12","alias_value":"D3UU4MJTIY3C","created_at":"2026-07-05T10:26:18Z"},{"alias_kind":"pith_short_16","alias_value":"D3UU4MJTIY3C5XRZ","created_at":"2026-07-05T10:26:18Z"},{"alias_kind":"pith_short_8","alias_value":"D3UU4MJT","created_at":"2026-07-05T10:26:18Z"}],"graph_snapshots":[{"event_id":"sha256:1704b88614b2a4a398ffbd1533c96999509a66fefbc436f818b5c16b14ee940c","target":"graph","created_at":"2026-07-05T10:26:18Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"graph_snapshot":{"author_claims":{"count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","strong_count":0},"builder_version":"pith-number-builder-2026-05-17-v1","claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"integrity":{"available":true,"clean":true,"detectors_run":[],"endpoint":"/pith/2503.05025/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"We develop ProtComposer to generate protein structures conditioned on spatial protein layouts that are specified via a set of 3D ellipsoids capturing substructure shapes and semantics. At inference time, we condition on ellipsoids that are hand-constructed, extracted from existing proteins, or from a statistical model, with each option unlocking new capabilities. Hand-specifying ellipsoids enables users to control the location, size, orientation, secondary structure, and approximate shape of protein substructures. Conditioning on ellipsoids of existing proteins enables redesigning their substr","authors_text":"Arash Vahdat, Bowen Jing, Hannes Stark, Jason Yim, Karsten Kreis, Tomas Geffner, Tommi Jaakkola","cross_cats":[],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2025-03-06T22:49:29Z","title":"ProtComposer: Compositional Protein Structure Generation with 3D Ellipsoids"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2503.05025","kind":"arxiv","version":1},"verdict":{"created_at":null,"id":null,"model_set":{},"one_line_summary":"","pipeline_version":null,"pith_extraction_headline":"","strongest_claim":"","weakest_assumption":""}},"verdict_id":null}}],"author_attestations":[],"timestamp_anchors":[],"storage_attestations":[],"citation_signatures":[],"replication_records":[],"corrections":[],"mirror_hints":[],"record_created":{"event_id":"sha256:e38b21f5d239920c13d31ad2f71791d7b0c603cf70912f0ce88b0d781d2bf64e","target":"record","created_at":"2026-07-05T10:26:18Z","signer":{"key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signer_id":"pith.science","signer_type":"pith_registry"},"payload":{"attestation_state":"computed","canonical_record":{"metadata":{"abstract_canon_sha256":"4a4867b53fb36b817dac44e666a9097753e1a0323279bbcf3bfdc3f50a88325b","cross_cats_sorted":[],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"q-bio.BM","submitted_at":"2025-03-06T22:49:29Z","title_canon_sha256":"3af699035fd0080b96309034d4984e5c6a83d1e221d25bdd1ef7e854c3691696"},"schema_version":"1.0","source":{"id":"2503.05025","kind":"arxiv","version":1}},"canonical_sha256":"1ee94e313346362ede39bd6bd5558995d1978d58c7c79553111cc184be695e93","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"1ee94e313346362ede39bd6bd5558995d1978d58c7c79553111cc184be695e93","first_computed_at":"2026-07-05T10:26:18.432643Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T10:26:18.432643Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"CJR7rVEmQkH74+fDkfXIANT4CSs2111vEZQYc7d9Vm+eLvFz0njqb1HXBOscXUGCCgEklubsu6omY21nPsFRCg==","signature_status":"signed_v1","signed_at":"2026-07-05T10:26:18.433405Z","signed_message":"canonical_sha256_bytes"},"source_id":"2503.05025","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:e38b21f5d239920c13d31ad2f71791d7b0c603cf70912f0ce88b0d781d2bf64e","sha256:1704b88614b2a4a398ffbd1533c96999509a66fefbc436f818b5c16b14ee940c"],"state_sha256":"2b18befe39733d3bbc127827c262972e51bfc75445e7b5b3eb47eadd92af1261"}