{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2024:STLSY5FXN5E2RCIJ7HO636DWJG","short_pith_number":"pith:STLSY5FX","canonical_record":{"source":{"id":"2401.12027","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2024-01-22T15:14:21Z","cross_cats_sorted":[],"title_canon_sha256":"a1ae4684b14af2d1932308af55685060e1e67014cd69655fb15026bc8ba20d48","abstract_canon_sha256":"4144f0b5d4af439297c9dc0957bdbe441208604523b51a40694245e15609dcba"},"schema_version":"1.0"},"canonical_sha256":"94d72c74b76f49a88909f9ddedf87649a25b4a52c714b90abf4da22e98f5acbb","source":{"kind":"arxiv","id":"2401.12027","version":1},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2401.12027","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"arxiv_version","alias_value":"2401.12027v1","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2401.12027","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_12","alias_value":"STLSY5FXN5E2","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_16","alias_value":"STLSY5FXN5E2RCIJ","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_8","alias_value":"STLSY5FX","created_at":"2026-07-05T07:36:13Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2024:STLSY5FXN5E2RCIJ7HO636DWJG","target":"record","payload":{"canonical_record":{"source":{"id":"2401.12027","kind":"arxiv","version":1},"metadata":{"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2024-01-22T15:14:21Z","cross_cats_sorted":[],"title_canon_sha256":"a1ae4684b14af2d1932308af55685060e1e67014cd69655fb15026bc8ba20d48","abstract_canon_sha256":"4144f0b5d4af439297c9dc0957bdbe441208604523b51a40694245e15609dcba"},"schema_version":"1.0"},"canonical_sha256":"94d72c74b76f49a88909f9ddedf87649a25b4a52c714b90abf4da22e98f5acbb","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-07-05T07:36:13.749613Z","signature_b64":"E1DA4ZVqMhYRQLmfRUxZtqmXkIYflk79w4VQDc6Jn2Qi+NsLlkDrZ2ZhNwcL+TVTFBWOlCExmnxh/u33pDExAA==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"94d72c74b76f49a88909f9ddedf87649a25b4a52c714b90abf4da22e98f5acbb","last_reissued_at":"2026-07-05T07:36:13.749139Z","signature_status":"signed_v1","first_computed_at":"2026-07-05T07:36:13.749139Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"2401.12027","source_version":1,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-07-05T07:36:13Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"r17+Hd5tXjySTuviwLGy6LXHKaXBay7mMHtTYrFlHw9ay1JGsbX9oGXFhyWn8qHgwjj0lA6C6l9GBPs2leM0AA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-15T10:17:20.243384Z"},"content_sha256":"9c358dc57bddbdfa8823401b5a55d184db6a9037a189f367ac40996757d65dcb","schema_version":"1.0","event_id":"sha256:9c358dc57bddbdfa8823401b5a55d184db6a9037a189f367ac40996757d65dcb"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2024:STLSY5FXN5E2RCIJ7HO636DWJG","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"pH modulates friction memory effects in protein folding","license":"http://creativecommons.org/licenses/by/4.0/","headline":"","cross_cats":[],"primary_cat":"physics.bio-ph","authors_text":"Benjamin A. Dalton, Roland R. Netz","submitted_at":"2024-01-22T15:14:21Z","abstract_excerpt":"We study the non-Markovian folding dynamics of the $\\alpha$3D protein under low- and neutral-pH conditions. Recently published all-atom simulations of $\\alpha$3D by the Shaw group reveal that lowering the pH significantly reduces both native and non-native salt-bridge interactions, which dominate the folding dynamics. Here, we demonstrate that this physiochemical modulation directly perturbs the folding friction, which we evaluate using non-Markovian memory-kernel-extraction techniques. In doing so, we find that the reduction in pH not only decreases the magnitude of the time-dependent frictio"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2401.12027","kind":"arxiv","version":1},"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/2401.12027/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":"2026-07-05T07:36:13Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"YITXaqg5etkBFZiiUQFlB27JKSuNe8vw49aOcUlISMbhq1gZnPYLhkONABDp/x7tfeQmZ3YSn/x+CPA84ib3DQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-08-15T10:17:20.243925Z"},"content_sha256":"b4e6ab9e9b648f330b8de4889cba9b8e94e28c8bf374989736baf6141a0ea292","schema_version":"1.0","event_id":"sha256:b4e6ab9e9b648f330b8de4889cba9b8e94e28c8bf374989736baf6141a0ea292"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/STLSY5FXN5E2RCIJ7HO636DWJG/bundle.json","state_url":"https://pith.science/pith/STLSY5FXN5E2RCIJ7HO636DWJG/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/STLSY5FXN5E2RCIJ7HO636DWJG/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":"2026-08-15T10:17:20Z","links":{"resolver":"https://pith.science/pith/STLSY5FXN5E2RCIJ7HO636DWJG","bundle":"https://pith.science/pith/STLSY5FXN5E2RCIJ7HO636DWJG/bundle.json","state":"https://pith.science/pith/STLSY5FXN5E2RCIJ7HO636DWJG/state.json","well_known_bundle":"https://pith.science/.well-known/pith/STLSY5FXN5E2RCIJ7HO636DWJG/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2024:STLSY5FXN5E2RCIJ7HO636DWJG","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":"4144f0b5d4af439297c9dc0957bdbe441208604523b51a40694245e15609dcba","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2024-01-22T15:14:21Z","title_canon_sha256":"a1ae4684b14af2d1932308af55685060e1e67014cd69655fb15026bc8ba20d48"},"schema_version":"1.0","source":{"id":"2401.12027","kind":"arxiv","version":1}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"2401.12027","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"arxiv_version","alias_value":"2401.12027v1","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.2401.12027","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_12","alias_value":"STLSY5FXN5E2","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_16","alias_value":"STLSY5FXN5E2RCIJ","created_at":"2026-07-05T07:36:13Z"},{"alias_kind":"pith_short_8","alias_value":"STLSY5FX","created_at":"2026-07-05T07:36:13Z"}],"graph_snapshots":[{"event_id":"sha256:b4e6ab9e9b648f330b8de4889cba9b8e94e28c8bf374989736baf6141a0ea292","target":"graph","created_at":"2026-07-05T07:36:13Z","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/2401.12027/integrity.json","findings":[],"snapshot_sha256":"c28c3603d3b5d939e8dc4c7e95fa8dfce3d595e45f758748cecf8e644a296938","summary":{"advisory":0,"by_detector":{},"critical":0,"informational":0}},"paper":{"abstract_excerpt":"We study the non-Markovian folding dynamics of the $\\alpha$3D protein under low- and neutral-pH conditions. Recently published all-atom simulations of $\\alpha$3D by the Shaw group reveal that lowering the pH significantly reduces both native and non-native salt-bridge interactions, which dominate the folding dynamics. Here, we demonstrate that this physiochemical modulation directly perturbs the folding friction, which we evaluate using non-Markovian memory-kernel-extraction techniques. In doing so, we find that the reduction in pH not only decreases the magnitude of the time-dependent frictio","authors_text":"Benjamin A. Dalton, Roland R. Netz","cross_cats":[],"headline":"","license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2024-01-22T15:14:21Z","title":"pH modulates friction memory effects in protein folding"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"2401.12027","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":"sha256:9c358dc57bddbdfa8823401b5a55d184db6a9037a189f367ac40996757d65dcb","target":"record","created_at":"2026-07-05T07:36:13Z","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":"4144f0b5d4af439297c9dc0957bdbe441208604523b51a40694245e15609dcba","cross_cats_sorted":[],"license":"http://creativecommons.org/licenses/by/4.0/","primary_cat":"physics.bio-ph","submitted_at":"2024-01-22T15:14:21Z","title_canon_sha256":"a1ae4684b14af2d1932308af55685060e1e67014cd69655fb15026bc8ba20d48"},"schema_version":"1.0","source":{"id":"2401.12027","kind":"arxiv","version":1}},"canonical_sha256":"94d72c74b76f49a88909f9ddedf87649a25b4a52c714b90abf4da22e98f5acbb","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"94d72c74b76f49a88909f9ddedf87649a25b4a52c714b90abf4da22e98f5acbb","first_computed_at":"2026-07-05T07:36:13.749139Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-07-05T07:36:13.749139Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"E1DA4ZVqMhYRQLmfRUxZtqmXkIYflk79w4VQDc6Jn2Qi+NsLlkDrZ2ZhNwcL+TVTFBWOlCExmnxh/u33pDExAA==","signature_status":"signed_v1","signed_at":"2026-07-05T07:36:13.749613Z","signed_message":"canonical_sha256_bytes"},"source_id":"2401.12027","source_kind":"arxiv","source_version":1}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:9c358dc57bddbdfa8823401b5a55d184db6a9037a189f367ac40996757d65dcb","sha256:b4e6ab9e9b648f330b8de4889cba9b8e94e28c8bf374989736baf6141a0ea292"],"state_sha256":"5e120b6d748a5353b7b892d27b6938461e8accb2fed1ef68c7891d0502911f76"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"GYxobS/yE97+6P0vRByDraLnfEyfv8UH9lg1elFocEA2gzfN1/VveOZwRcmt5vKHTaZnk/96FDSLPWwYwawPAw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-08-15T10:17:20.247838Z","bundle_sha256":"aac30e315c1da0da99b58c5ecf620c873855b1ce7a4071d51b323f46ca854ea0"}}