{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2015:SBYW4FYTPJWXBSNORMD63TI2UB","short_pith_number":"pith:SBYW4FYT","canonical_record":{"source":{"id":"1506.00136","kind":"arxiv","version":3},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2015-05-30T16:05:42Z","cross_cats_sorted":["physics.comp-ph","q-bio.BM"],"title_canon_sha256":"d517503757efd5dbd8acd078e036fc3b7882bed4decfc387a1763054225b9048","abstract_canon_sha256":"1066a925ccf16b961555ade77efb011a7646256fd273f11aa263c26ce33e8a15"},"schema_version":"1.0"},"canonical_sha256":"90716e17137a6d70c9ae8b07edcd1aa0682aea08cb552462da41cfa0afd9b062","source":{"kind":"arxiv","id":"1506.00136","version":3},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1506.00136","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"arxiv_version","alias_value":"1506.00136v3","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1506.00136","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"pith_short_12","alias_value":"SBYW4FYTPJWX","created_at":"2026-05-18T12:29:39Z"},{"alias_kind":"pith_short_16","alias_value":"SBYW4FYTPJWXBSNO","created_at":"2026-05-18T12:29:39Z"},{"alias_kind":"pith_short_8","alias_value":"SBYW4FYT","created_at":"2026-05-18T12:29:39Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2015:SBYW4FYTPJWXBSNORMD63TI2UB","target":"record","payload":{"canonical_record":{"source":{"id":"1506.00136","kind":"arxiv","version":3},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2015-05-30T16:05:42Z","cross_cats_sorted":["physics.comp-ph","q-bio.BM"],"title_canon_sha256":"d517503757efd5dbd8acd078e036fc3b7882bed4decfc387a1763054225b9048","abstract_canon_sha256":"1066a925ccf16b961555ade77efb011a7646256fd273f11aa263c26ce33e8a15"},"schema_version":"1.0"},"canonical_sha256":"90716e17137a6d70c9ae8b07edcd1aa0682aea08cb552462da41cfa0afd9b062","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T01:18:52.672840Z","signature_b64":"PVp0zH0OCZpd9WjkQ96GSltBHhPyct/mk3hvyNrZEwp9MpLFBwqIrO47UjO4xSgASsnfvhHhH0w68nGh5zLKCw==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"90716e17137a6d70c9ae8b07edcd1aa0682aea08cb552462da41cfa0afd9b062","last_reissued_at":"2026-05-18T01:18:52.672180Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T01:18:52.672180Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"1506.00136","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":"2026-05-18T01:18:52Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"2m//bFCVailHtylr+15NgUAI2B6ZJk3PotncpjaIsIvdk23hfbYqGECRGk/Y6qBGgZ7+/XwWM6lLcAy0S5VRCA==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-11T00:04:00.789945Z"},"content_sha256":"f840058252823b5cdf4c6289dffed85a7bb5060be69a60ccdf86a396bf57e188","schema_version":"1.0","event_id":"sha256:f840058252823b5cdf4c6289dffed85a7bb5060be69a60ccdf86a396bf57e188"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2015:SBYW4FYTPJWXBSNORMD63TI2UB","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Protein structure prediction guided by cross-linking restraints - A systematic evaluation of the impact of the cross-linking spacer length","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["physics.comp-ph","q-bio.BM"],"primary_cat":"physics.bio-ph","authors_text":"Axel W. Fischer, Jens Meiler, Stefan Kalkhof, Tommy Hofmann","submitted_at":"2015-05-30T16:05:42Z","abstract_excerpt":"Recent development of high-resolution mass spectrometry (MS) instruments enables chemical cross-linking (XL) to become a high-throughput method for obtaining structural information about proteins. Restraints derived from XL-MS experiments have been used successfully for structure refinement and protein-protein docking. However, one formidable question is under which circumstances XL-MS data might be sufficient to determine a protein's tertiary structure de novo? Answering this question will not only include understanding the impact of XL-MS data on sampling and scoring within a de novo protein"},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1506.00136","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":""},"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":"2026-05-18T01:18:52Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"7Uj2KPU7add7xIKFTfOZEKJn9Q5VjZg+Qg6vAUqYWY5aBATb+yCJGd6BGbhpALZBu+tlmpctZ3LLbP0mbhYgBQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-11T00:04:00.790668Z"},"content_sha256":"f3a9e95c1cb4e202d21e2a8c93ef6be24c7d683d83b83f13ba5059991ddf24c6","schema_version":"1.0","event_id":"sha256:f3a9e95c1cb4e202d21e2a8c93ef6be24c7d683d83b83f13ba5059991ddf24c6"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/SBYW4FYTPJWXBSNORMD63TI2UB/bundle.json","state_url":"https://pith.science/pith/SBYW4FYTPJWXBSNORMD63TI2UB/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/SBYW4FYTPJWXBSNORMD63TI2UB/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":"2026-06-11T00:04:00Z","links":{"resolver":"https://pith.science/pith/SBYW4FYTPJWXBSNORMD63TI2UB","bundle":"https://pith.science/pith/SBYW4FYTPJWXBSNORMD63TI2UB/bundle.json","state":"https://pith.science/pith/SBYW4FYTPJWXBSNORMD63TI2UB/state.json","well_known_bundle":"https://pith.science/.well-known/pith/SBYW4FYTPJWXBSNORMD63TI2UB/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2015:SBYW4FYTPJWXBSNORMD63TI2UB","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":"1066a925ccf16b961555ade77efb011a7646256fd273f11aa263c26ce33e8a15","cross_cats_sorted":["physics.comp-ph","q-bio.BM"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2015-05-30T16:05:42Z","title_canon_sha256":"d517503757efd5dbd8acd078e036fc3b7882bed4decfc387a1763054225b9048"},"schema_version":"1.0","source":{"id":"1506.00136","kind":"arxiv","version":3}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"1506.00136","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"arxiv_version","alias_value":"1506.00136v3","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.1506.00136","created_at":"2026-05-18T01:18:52Z"},{"alias_kind":"pith_short_12","alias_value":"SBYW4FYTPJWX","created_at":"2026-05-18T12:29:39Z"},{"alias_kind":"pith_short_16","alias_value":"SBYW4FYTPJWXBSNO","created_at":"2026-05-18T12:29:39Z"},{"alias_kind":"pith_short_8","alias_value":"SBYW4FYT","created_at":"2026-05-18T12:29:39Z"}],"graph_snapshots":[{"event_id":"sha256:f3a9e95c1cb4e202d21e2a8c93ef6be24c7d683d83b83f13ba5059991ddf24c6","target":"graph","created_at":"2026-05-18T01:18:52Z","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"},"paper":{"abstract_excerpt":"Recent development of high-resolution mass spectrometry (MS) instruments enables chemical cross-linking (XL) to become a high-throughput method for obtaining structural information about proteins. Restraints derived from XL-MS experiments have been used successfully for structure refinement and protein-protein docking. However, one formidable question is under which circumstances XL-MS data might be sufficient to determine a protein's tertiary structure de novo? Answering this question will not only include understanding the impact of XL-MS data on sampling and scoring within a de novo protein","authors_text":"Axel W. Fischer, Jens Meiler, Stefan Kalkhof, Tommy Hofmann","cross_cats":["physics.comp-ph","q-bio.BM"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2015-05-30T16:05:42Z","title":"Protein structure prediction guided by cross-linking restraints - A systematic evaluation of the impact of the cross-linking spacer length"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"1506.00136","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:f840058252823b5cdf4c6289dffed85a7bb5060be69a60ccdf86a396bf57e188","target":"record","created_at":"2026-05-18T01:18:52Z","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":"1066a925ccf16b961555ade77efb011a7646256fd273f11aa263c26ce33e8a15","cross_cats_sorted":["physics.comp-ph","q-bio.BM"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"physics.bio-ph","submitted_at":"2015-05-30T16:05:42Z","title_canon_sha256":"d517503757efd5dbd8acd078e036fc3b7882bed4decfc387a1763054225b9048"},"schema_version":"1.0","source":{"id":"1506.00136","kind":"arxiv","version":3}},"canonical_sha256":"90716e17137a6d70c9ae8b07edcd1aa0682aea08cb552462da41cfa0afd9b062","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"90716e17137a6d70c9ae8b07edcd1aa0682aea08cb552462da41cfa0afd9b062","first_computed_at":"2026-05-18T01:18:52.672180Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T01:18:52.672180Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"PVp0zH0OCZpd9WjkQ96GSltBHhPyct/mk3hvyNrZEwp9MpLFBwqIrO47UjO4xSgASsnfvhHhH0w68nGh5zLKCw==","signature_status":"signed_v1","signed_at":"2026-05-18T01:18:52.672840Z","signed_message":"canonical_sha256_bytes"},"source_id":"1506.00136","source_kind":"arxiv","source_version":3}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:f840058252823b5cdf4c6289dffed85a7bb5060be69a60ccdf86a396bf57e188","sha256:f3a9e95c1cb4e202d21e2a8c93ef6be24c7d683d83b83f13ba5059991ddf24c6"],"state_sha256":"1c8bd35b56706bdbdb4a509ddc8738ad988850d37dd39e06c1a151096684650c"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"XHjE47bzTZjuH/4AqJ2u2cjzE3axUU9ba+3Wo86VZ2XpaLAQGzgOiq0Xqka22weKG2xThYc1Og+GMTwQS0/EBw==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-11T00:04:00.794408Z","bundle_sha256":"f2567d03fc3cc337c0c8d06e442bc9846c6e4fd3656a10cc42905dd423f629e7"}}