{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2023:2Y7R627OF3CFMOBLNQ3QOVKMHW","short_pith_number":"pith:2Y7R627O","canonical_record":{"source":{"id":"2311.02654","kind":"arxiv","version":3},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-11-05T13:49:50Z","cross_cats_sorted":["physics.chem-ph"],"title_canon_sha256":"fffc2af265793c8f03f2e7c930b597314836877a1f636162b43d66e154a31807","abstract_canon_sha256":"307d4a5518770e21166792d7172b02e461bc8a92584d2955764169e61bd084a8"},"schema_version":"1.0"},"canonical_sha256":"d63f1f6bee2ec456382b6c3707554c3d8e49433b1bc1e07d04e969656d97815d","source":{"kind":"arxiv","id":"2311.02654","version":3},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2311.02654","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"arxiv_version","alias_value":"2311.02654v3","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2311.02654","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_12","alias_value":"2Y7R627OF3CF","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_16","alias_value":"2Y7R627OF3CFMOBL","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_8","alias_value":"2Y7R627O","created_at":"2026-07-05T07:34:52Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2023:2Y7R627OF3CFMOBLNQ3QOVKMHW","target":"record","payload":{"canonical_record":{"source":{"id":"2311.02654","kind":"arxiv","version":3},"metadata":{"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-11-05T13:49:50Z","cross_cats_sorted":["physics.chem-ph"],"title_canon_sha256":"fffc2af265793c8f03f2e7c930b597314836877a1f636162b43d66e154a31807","abstract_canon_sha256":"307d4a5518770e21166792d7172b02e461bc8a92584d2955764169e61bd084a8"},"schema_version":"1.0"},"canonical_sha256":"d63f1f6bee2ec456382b6c3707554c3d8e49433b1bc1e07d04e969656d97815d","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T07:34:52.248875Z","signature_b64":"TQtr40bsJVB4JX8d2bqyVzU52oyczE77cT1GHt9SWa7T0/7bAybaMSxIpqQbJUhMOg7Ph9DpJzHlAFv9ICWCCA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"d63f1f6bee2ec456382b6c3707554c3d8e49433b1bc1e07d04e969656d97815d","last_reissued_at":"2026-07-05T07:34:52.248443Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T07:34:52.248443Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2311.02654","source_version":3,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T07:34:52Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"r1fqThhIhHP9UUKXZc7UTGdH+fdDxKmXXXcpO3u2hoKxY0o4u2stymOOOVJ/yS5FpCtdITzjG+vgW6S/l4UCBw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-07T13:52:07.270232Z"},"content_sha256":"a1632a037ba4b89046ff50e7d21960e5772b2da8c0d0886d95a0e40846e89cdb","schema_version":"1.0","event_id":"sha256:a1632a037ba4b89046ff50e7d21960e5772b2da8c0d0886d95a0e40846e89cdb"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2023:2Y7R627OF3CFMOBLNQ3QOVKMHW","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Molecular dynamics simulation analysis of structural dynamic cross correlation induced by odorant hydrogen-bonding in mouse eugenol olfactory receptor","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","headline":"","cross_cats":["physics.chem-ph"],"primary_cat":"physics.bio-ph","authors_text":"Chisato Okamoto, Koji Ando","submitted_at":"2023-11-05T13:49:50Z","abstract_excerpt":"Structural fluctuations and dynamic cross-correlations in the mouse eugenol olfactory receptor (Olfr73) were studied by molecular dynamics (MD) simulation to characterize the dynamic response of the protein upon ligand binding. The initial structure was generated by the artificial intelligence tool AlfaFold2 due to the current lack of experimental data. We focused on the hydrogen (H) bond of the odorant eugenol to Ser113, Asn207, and Tyr260 of the receptor protein, the importance of which has been suggested by previous experimental studies. The H-bond was not observed in docking simulations, b"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2311.02654","kind":"arxiv","version":3},"verdict":{"id":null,"model_set":{},"created_at":null,"strongest_claim":"","one_line_summary":"","pipeline_version":null,"weakest_assumption":"","pith_extraction_headline":""},"integrity":{"clean":true,"summary":{"advisory":0,"critical":0,"by_detector":{},"informational":0},"endpoint":"/pith/2311.02654/integrity.json","findings":[],"available":true,"detectors_run":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938"},"references":{"count":0,"sample":[],"resolved_work":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57","internal_anchors":0},"formal_canon":{"evidence_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"author_claims":{"count":0,"strong_count":0,"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"builder_version":"pith-number-builder-2026-05-17-v1"},"verdict_id":null},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T07:34:52Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"/mxMInkzSK97hufedgGlh2H006UdYvKJMKlHkDLrIqLrWRXi1BIU6K9NJyalixekSwg+m2gGXgwnZ+afJTtyDw==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-07-07T13:52:07.270619Z"},"content_sha256":"8cf645e6ffe34480b47683f89a93de729cddd47f1d3718641fe9e1f1de355fa9","schema_version":"1.0","event_id":"sha256:8cf645e6ffe34480b47683f89a93de729cddd47f1d3718641fe9e1f1de355fa9"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/bundle.json","state_url":"https://pith.science/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/bundle.json","status":"primary"}],"public_keys":[{"key_id":"pith-v1-2026-05","algorithm":"ed25519","format":"raw","public_key_b64":"stVStoiQhXFxp4s2pdzPNoqVNBMojDU/fJ2db5S3CbM=","public_key_hex":"b2d552b68890857171a78b36a5dccf368a953413288c353f7c9d9d6f94b709b3","fingerprint_sha256_b32_first128bits":"RVFV5Z2OI2J3ZUO7ERDEBCYNKS","fingerprint_sha256_hex":"8d4b5ee74e4693bcd1df2446408b0d54","rotates_at":null,"url":"https://pith.science/pith-signing-key.json","notes":"Pith uses this Ed25519 key to sign canonical record SHA-256 digests. Verify with: ed25519_verify(public_key, message=canonical_sha256_bytes, signature=base64decode(signature_b64))."}],"merge_version":"pith-open-graph-merge-v1","built_at":"2026-07-07T13:52:07Z","links":{"resolver":"https://pith.science/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW","bundle":"https://pith.science/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/bundle.json","state":"https://pith.science/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/state.json","well_known_bundle":"https://pith.science/.well-known/pith/2Y7R627OF3CFMOBLNQ3QOVKMHW/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2023:2Y7R627OF3CFMOBLNQ3QOVKMHW","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":"307d4a5518770e21166792d7172b02e461bc8a92584d2955764169e61bd084a8","cross_cats_sorted":["physics.chem-ph"],"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-11-05T13:49:50Z","title_canon_sha256":"fffc2af265793c8f03f2e7c930b597314836877a1f636162b43d66e154a31807"},"schema_version":"1.0","source":{"id":"2311.02654","kind":"arxiv","version":3}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2311.02654","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"arxiv_version","alias_value":"2311.02654v3","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2311.02654","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_12","alias_value":"2Y7R627OF3CF","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_16","alias_value":"2Y7R627OF3CFMOBL","created_at":"2026-07-05T07:34:52Z"},{"alias_kind":"pith_short_8","alias_value":"2Y7R627O","created_at":"2026-07-05T07:34:52Z"}],"graph_snapshots":[{"event_id":"sha256:8cf645e6ffe34480b47683f89a93de729cddd47f1d3718641fe9e1f1de355fa9","target":"graph","created_at":"2026-07-05T07:34:52Z","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/2311.02654/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"Structural fluctuations and dynamic cross-correlations in the mouse eugenol olfactory receptor (Olfr73) were studied by molecular dynamics (MD) simulation to characterize the dynamic response of the protein upon ligand binding. The initial structure was generated by the artificial intelligence tool AlfaFold2 due to the current lack of experimental data. We focused on the hydrogen (H) bond of the odorant eugenol to Ser113, Asn207, and Tyr260 of the receptor protein, the importance of which has been suggested by previous experimental studies. The H-bond was not observed in docking simulations, b","authors_text":"Chisato Okamoto, Koji Ando","cross_cats":["physics.chem-ph"],"headline":"","license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-11-05T13:49:50Z","title":"Molecular dynamics simulation analysis of structural dynamic cross correlation induced by odorant hydrogen-bonding in mouse eugenol olfactory receptor"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2311.02654","kind":"arxiv","version":3},"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:a1632a037ba4b89046ff50e7d21960e5772b2da8c0d0886d95a0e40846e89cdb","target":"record","created_at":"2026-07-05T07:34:52Z","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":"307d4a5518770e21166792d7172b02e461bc8a92584d2955764169e61bd084a8","cross_cats_sorted":["physics.chem-ph"],"license":"http://creativecommons.org/licenses/by-nc-nd/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2023-11-05T13:49:50Z","title_canon_sha256":"fffc2af265793c8f03f2e7c930b597314836877a1f636162b43d66e154a31807"},"schema_version":"1.0","source":{"id":"2311.02654","kind":"arxiv","version":3}},"canonical_sha256":"d63f1f6bee2ec456382b6c3707554c3d8e49433b1bc1e07d04e969656d97815d","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"d63f1f6bee2ec456382b6c3707554c3d8e49433b1bc1e07d04e969656d97815d","first_computed_at":"2026-07-05T07:34:52.248443Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T07:34:52.248443Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"TQtr40bsJVB4JX8d2bqyVzU52oyczE77cT1GHt9SWa7T0/7bAybaMSxIpqQbJUhMOg7Ph9DpJzHlAFv9ICWCCA==","signature_status":"signed_v1","signed_at":"2026-07-05T07:34:52.248875Z","signed_message":"canonical_sha256_bytes"},"source_id":"2311.02654","source_kind":"arxiv","source_version":3}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:a1632a037ba4b89046ff50e7d21960e5772b2da8c0d0886d95a0e40846e89cdb","sha256:8cf645e6ffe34480b47683f89a93de729cddd47f1d3718641fe9e1f1de355fa9"],"state_sha256":"b9f9a648d5f8ad6f30c545986b545c0c5f450fbabc07de14018bfcf543f91077"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"RV8YAPJqCn18DpoRaS+TCjMtpLIaAh3sxRieL6sOCpQauASCMT8p5eHRHM+6eZ84BBCFiVF7FPyIw2soxXzVAA==","signed_message":"bundle_sha256_bytes","signed_at":"2026-07-07T13:52:07.272852Z","bundle_sha256":"0e056cf631486ae96c4bb7c384193c9666fe91fe1f3d8d11e2f07a26f4de67af"}}