{"bundle_type":"pith_open_graph_bundle","bundle_version":"1.0","pith_number":"pith:2008:F4BTQL2G6UPL4IVK3EIYH62G36","short_pith_number":"pith:F4BTQL2G","canonical_record":{"source":{"id":"0812.1785","kind":"arxiv","version":4},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.other","submitted_at":"2008-12-09T20:04:09Z","cross_cats_sorted":["physics.bio-ph","q-bio.SC"],"title_canon_sha256":"618d10ef6f8d5076c371035e5693143ec0497992889900cfc3c7eaf422643cab","abstract_canon_sha256":"d9b6bfd6f0528517092e9deac76f5b58031b65970093d5647bef11172467f5ad"},"schema_version":"1.0"},"canonical_sha256":"2f03382f46f51ebe22aad91183fb46dfaf188c31ae614fc4a247792d56492bb6","source":{"kind":"arxiv","id":"0812.1785","version":4},"source_aliases":[{"alias_kind":"arxiv","alias_value":"0812.1785","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"arxiv_version","alias_value":"0812.1785v4","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.0812.1785","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"pith_short_12","alias_value":"F4BTQL2G6UPL","created_at":"2026-05-18T12:25:57Z"},{"alias_kind":"pith_short_16","alias_value":"F4BTQL2G6UPL4IVK","created_at":"2026-05-18T12:25:57Z"},{"alias_kind":"pith_short_8","alias_value":"F4BTQL2G","created_at":"2026-05-18T12:25:57Z"}],"events":[{"event_type":"record_created","subject_pith_number":"pith:2008:F4BTQL2G6UPL4IVK3EIYH62G36","target":"record","payload":{"canonical_record":{"source":{"id":"0812.1785","kind":"arxiv","version":4},"metadata":{"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.other","submitted_at":"2008-12-09T20:04:09Z","cross_cats_sorted":["physics.bio-ph","q-bio.SC"],"title_canon_sha256":"618d10ef6f8d5076c371035e5693143ec0497992889900cfc3c7eaf422643cab","abstract_canon_sha256":"d9b6bfd6f0528517092e9deac76f5b58031b65970093d5647bef11172467f5ad"},"schema_version":"1.0"},"canonical_sha256":"2f03382f46f51ebe22aad91183fb46dfaf188c31ae614fc4a247792d56492bb6","receipt":{"kind":"pith_receipt","key_id":"pith-v1-2026-05","algorithm":"ed25519","signed_at":"2026-05-18T02:15:11.152511Z","signature_b64":"2+oaNTPEH8p7/dko1cW28kuzmg9ecovfAXinf1aM+FQL/OcXMoWPd+W0JukINYkVVkA1xqOJgsXTwS8Oi9koBg==","signed_message":"canonical_sha256_bytes","builder_version":"pith-number-builder-2026-05-17-v1","receipt_version":"0.3","canonical_sha256":"2f03382f46f51ebe22aad91183fb46dfaf188c31ae614fc4a247792d56492bb6","last_reissued_at":"2026-05-18T02:15:11.151818Z","signature_status":"signed_v1","first_computed_at":"2026-05-18T02:15:11.151818Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"source_kind":"arxiv","source_id":"0812.1785","source_version":4,"attestation_state":"computed"},"signer":{"signer_id":"pith.science","signer_type":"pith_registry","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54"},"created_at":"2026-05-18T02:15:11Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"ANVSd7Jb4WNcblnTqDeEnfnrF3pEdha1MDrS94RHetBUyMMoeBTLhBRDL8NaZmyPDBNtHJa9FZ1yREcfr3j3Bg==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-04T22:22:11.767465Z"},"content_sha256":"e0dc87bb9999f07d61b9fbdd6cba493dab616012b1ead55d4c416fc6668263e0","schema_version":"1.0","event_id":"sha256:e0dc87bb9999f07d61b9fbdd6cba493dab616012b1ead55d4c416fc6668263e0"},{"event_type":"graph_snapshot","subject_pith_number":"pith:2008:F4BTQL2G6UPL4IVK3EIYH62G36","target":"graph","payload":{"graph_snapshot":{"paper":{"title":"Kinetics of proton pumping in cytochrome c oxidase","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","headline":"","cross_cats":["physics.bio-ph","q-bio.SC"],"primary_cat":"cond-mat.other","authors_text":"Anatoly Yu. Smirnov, Franco Nori, Lev G. Mourokh","submitted_at":"2008-12-09T20:04:09Z","abstract_excerpt":"We propose a simple model of cytochrome c oxidase, including four redox centers and four protonable sites, to study the time evolution of electrostatically coupled electron and proton transfers initiated by the injection of a single electron into the enzyme. We derive a system of master equations for electron and proton state probabilities and show that an efficient pumping of protons across the membrane can be obtained for a reasonable set of parameters. All four experimentally observed kinetic phases appear naturally from our model. We also calculate the dependence of the pumping efficiency "},"claims":{"count":0,"items":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"0812.1785","kind":"arxiv","version":4},"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":"2026-05-18T02:15:11Z","supersedes":[],"prev_event":null,"signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"X+C3Ml+UZQscaQjwjrXuQTRFpZbBozlWMkf/nn00eVtDzD2TkrbeWI4og9k+4TBKc42FsvJ0IkbdH4y5hP0yAQ==","signed_message":"open_graph_event_sha256_bytes","signed_at":"2026-06-04T22:22:11.768180Z"},"content_sha256":"7680196f0390d858ccbec8c4e28327c98a515dcff44f8f3b32114cc23f617a54","schema_version":"1.0","event_id":"sha256:7680196f0390d858ccbec8c4e28327c98a515dcff44f8f3b32114cc23f617a54"}],"timestamp_proofs":[],"mirror_hints":[{"mirror_type":"https","name":"Pith Resolver","base_url":"https://pith.science","bundle_url":"https://pith.science/pith/F4BTQL2G6UPL4IVK3EIYH62G36/bundle.json","state_url":"https://pith.science/pith/F4BTQL2G6UPL4IVK3EIYH62G36/state.json","well_known_bundle_url":"https://pith.science/.well-known/pith/F4BTQL2G6UPL4IVK3EIYH62G36/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":"2026-06-04T22:22:11Z","links":{"resolver":"https://pith.science/pith/F4BTQL2G6UPL4IVK3EIYH62G36","bundle":"https://pith.science/pith/F4BTQL2G6UPL4IVK3EIYH62G36/bundle.json","state":"https://pith.science/pith/F4BTQL2G6UPL4IVK3EIYH62G36/state.json","well_known_bundle":"https://pith.science/.well-known/pith/F4BTQL2G6UPL4IVK3EIYH62G36/bundle.json"},"state":{"state_type":"pith_open_graph_state","state_version":"1.0","pith_number":"pith:2008:F4BTQL2G6UPL4IVK3EIYH62G36","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":"d9b6bfd6f0528517092e9deac76f5b58031b65970093d5647bef11172467f5ad","cross_cats_sorted":["physics.bio-ph","q-bio.SC"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.other","submitted_at":"2008-12-09T20:04:09Z","title_canon_sha256":"618d10ef6f8d5076c371035e5693143ec0497992889900cfc3c7eaf422643cab"},"schema_version":"1.0","source":{"id":"0812.1785","kind":"arxiv","version":4}},"source_aliases":[{"alias_kind":"arxiv","alias_value":"0812.1785","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"arxiv_version","alias_value":"0812.1785v4","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"doi","alias_value":"10.48550/arxiv.0812.1785","created_at":"2026-05-18T02:15:11Z"},{"alias_kind":"pith_short_12","alias_value":"F4BTQL2G6UPL","created_at":"2026-05-18T12:25:57Z"},{"alias_kind":"pith_short_16","alias_value":"F4BTQL2G6UPL4IVK","created_at":"2026-05-18T12:25:57Z"},{"alias_kind":"pith_short_8","alias_value":"F4BTQL2G","created_at":"2026-05-18T12:25:57Z"}],"graph_snapshots":[{"event_id":"sha256:7680196f0390d858ccbec8c4e28327c98a515dcff44f8f3b32114cc23f617a54","target":"graph","created_at":"2026-05-18T02:15:11Z","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":"We propose a simple model of cytochrome c oxidase, including four redox centers and four protonable sites, to study the time evolution of electrostatically coupled electron and proton transfers initiated by the injection of a single electron into the enzyme. We derive a system of master equations for electron and proton state probabilities and show that an efficient pumping of protons across the membrane can be obtained for a reasonable set of parameters. All four experimentally observed kinetic phases appear naturally from our model. We also calculate the dependence of the pumping efficiency ","authors_text":"Anatoly Yu. Smirnov, Franco Nori, Lev G. Mourokh","cross_cats":["physics.bio-ph","q-bio.SC"],"headline":"","license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.other","submitted_at":"2008-12-09T20:04:09Z","title":"Kinetics of proton pumping in cytochrome c oxidase"},"references":{"count":0,"internal_anchors":0,"resolved_work":0,"sample":[],"snapshot_sha256":"258153158e38e3291e3d48162225fcdb2d5a3ed65a07baac614ab91432fd4f57"},"source":{"id":"0812.1785","kind":"arxiv","version":4},"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:e0dc87bb9999f07d61b9fbdd6cba493dab616012b1ead55d4c416fc6668263e0","target":"record","created_at":"2026-05-18T02:15:11Z","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":"d9b6bfd6f0528517092e9deac76f5b58031b65970093d5647bef11172467f5ad","cross_cats_sorted":["physics.bio-ph","q-bio.SC"],"license":"http://arxiv.org/licenses/nonexclusive-distrib/1.0/","primary_cat":"cond-mat.other","submitted_at":"2008-12-09T20:04:09Z","title_canon_sha256":"618d10ef6f8d5076c371035e5693143ec0497992889900cfc3c7eaf422643cab"},"schema_version":"1.0","source":{"id":"0812.1785","kind":"arxiv","version":4}},"canonical_sha256":"2f03382f46f51ebe22aad91183fb46dfaf188c31ae614fc4a247792d56492bb6","receipt":{"algorithm":"ed25519","builder_version":"pith-number-builder-2026-05-17-v1","canonical_sha256":"2f03382f46f51ebe22aad91183fb46dfaf188c31ae614fc4a247792d56492bb6","first_computed_at":"2026-05-18T02:15:11.151818Z","key_id":"pith-v1-2026-05","kind":"pith_receipt","last_reissued_at":"2026-05-18T02:15:11.151818Z","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","receipt_version":"0.3","signature_b64":"2+oaNTPEH8p7/dko1cW28kuzmg9ecovfAXinf1aM+FQL/OcXMoWPd+W0JukINYkVVkA1xqOJgsXTwS8Oi9koBg==","signature_status":"signed_v1","signed_at":"2026-05-18T02:15:11.152511Z","signed_message":"canonical_sha256_bytes"},"source_id":"0812.1785","source_kind":"arxiv","source_version":4}}},"equivocations":[],"invalid_events":[],"applied_event_ids":["sha256:e0dc87bb9999f07d61b9fbdd6cba493dab616012b1ead55d4c416fc6668263e0","sha256:7680196f0390d858ccbec8c4e28327c98a515dcff44f8f3b32114cc23f617a54"],"state_sha256":"96ad8d3f08d0e62e1550abdfe33c7b0f8bab6e57fc8e7e12fc749e88151f8ac4"},"bundle_signature":{"signature_status":"signed_v1","algorithm":"ed25519","key_id":"pith-v1-2026-05","public_key_fingerprint":"8d4b5ee74e4693bcd1df2446408b0d54","signature_b64":"q7yZ4Qs05fR10qxC6ISC2PW8aGlmQbrV0Ql7tMlbDWdhXYxvdyoPTFbIkKr+w7FMuJEo7fartMeLOpyDXvt2Bg==","signed_message":"bundle_sha256_bytes","signed_at":"2026-06-04T22:22:11.772275Z","bundle_sha256":"10e5507391eb81f1324f732282e8ddf85f69b9492647149a3a5e8c07294e2663"}}