From 8cd5bd490141aa4b9244e793578a15dc90503d03 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:46:29 +0100 Subject: [PATCH 1/6] Add submission UUID file --- .../0dbbc78e-13c1-11f1-8244-9f391af45cf2.json | 79 +++++++++++++++++++ 1 file changed, 79 insertions(+) create mode 100644 mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json diff --git a/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json b/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json new file mode 100644 index 0000000..c2a026a --- /dev/null +++ b/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json @@ -0,0 +1,79 @@ +{ + "accession": "MITE0000100", + "status": "pending", + "changelog": [ + { + "version": "1", + "date": "2024-07-30", + "contributors": [ + "0000-0003-1763-2525", + "0009-0008-3623-3734", + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "0000-0001-6534-6609", + "0000-0003-0443-9902" + ], + "comment": "Initial entry. Reviewer partially fixed general aromaticity. Reviewer 2 fixed reaction SMARTS by specifying explicit hydrogens on aromatic nitrogens, reaction passes." + }, + { + "version": "2", + "date": "2025-10-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "0000-0001-6534-6609" + ], + "comment": "Replaced retired UniProtKB ID with UniParc ID" + }, + { + "version": "3", + "date": "2026-02-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "BBBBBBBBBBBBBBBBBBBBBBBB" + ], + "comment": "" + } + ], + "enzyme": { + "name": "PumG", + "description": "Aminotransferase", + "references": [ + "doi:10.1016/j.chembiol.2018.02.008" + ], + "databaseIds": { + "uniprot": "UPI000D218CF8", + "genpept": "AVT42376.1", + "mibig": "BGC0001476" + } + }, + "reactions": [ + { + "tailoring": [ + "Amination" + ], + "reactionSMARTS": "[#8:1]\\[#6@:2]1-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-[#6@@:3]-1/[#6:16]=[#8]>>[#7]-[#6:16]/[#6@@:3]1-[#6@@:2](\\[#8:1])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-1", + "reactions": [ + { + "substrate": "O=C[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O", + "products": [ + "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O" + ], + "isIntermediate": false + } + ], + "evidence": { + "evidenceCode": [ + "Knock-out studies" + ], + "references": [ + "doi:10.1016/j.chembiol.2018.02.008" + ] + } + } + ] +} \ No newline at end of file From 92568a01760c059f7e297c721e9b2056bdf34424 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:46:30 +0100 Subject: [PATCH 2/6] Update entry MITE0000100 --- mite_data/data/MITE0000100.json | 13 ++++++++++++- 1 file changed, 12 insertions(+), 1 deletion(-) diff --git a/mite_data/data/MITE0000100.json b/mite_data/data/MITE0000100.json index 3cfda72..c2a026a 100644 --- a/mite_data/data/MITE0000100.json +++ b/mite_data/data/MITE0000100.json @@ -1,6 +1,6 @@ { "accession": "MITE0000100", - "status": "active", + "status": "pending", "changelog": [ { "version": "1", @@ -26,6 +26,17 @@ "0000-0001-6534-6609" ], "comment": "Replaced retired UniProtKB ID with UniParc ID" + }, + { + "version": "3", + "date": "2026-02-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "BBBBBBBBBBBBBBBBBBBBBBBB" + ], + "comment": "" } ], "enzyme": { From 45f55a7adfa5bd766faae83bd6196461dc7bdb95 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:49:27 +0100 Subject: [PATCH 3/6] Update submission --- .../data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json b/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json index c2a026a..d9a1c68 100644 --- a/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json +++ b/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json @@ -36,7 +36,7 @@ "reviewers": [ "BBBBBBBBBBBBBBBBBBBBBBBB" ], - "comment": "" + "comment": "Added reaction description, removed MIBiG accession BGC0001476 (does not exist in MIBiG 4.0)." } ], "enzyme": { @@ -47,8 +47,7 @@ ], "databaseIds": { "uniprot": "UPI000D218CF8", - "genpept": "AVT42376.1", - "mibig": "BGC0001476" + "genpept": "AVT42376.1" } }, "reactions": [ @@ -56,6 +55,7 @@ "tailoring": [ "Amination" ], + "description": "Performs amination of 5'-oxo-pseudouridine in the pseudouridimycin pathway.", "reactionSMARTS": "[#8:1]\\[#6@:2]1-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-[#6@@:3]-1/[#6:16]=[#8]>>[#7]-[#6:16]/[#6@@:3]1-[#6@@:2](\\[#8:1])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-1", "reactions": [ { @@ -63,12 +63,14 @@ "products": [ "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O" ], - "isIntermediate": false + "isIntermediate": true, + "description": "Converts 5'-oxo-pseudouridine to 5'-aminopseudouridine" } ], "evidence": { "evidenceCode": [ - "Knock-out studies" + "Knock-out studies", + "Site-directed mutagenesis" ], "references": [ "doi:10.1016/j.chembiol.2018.02.008" From 236435e39237bea338f436210b6feab924cf33ad Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:49:29 +0100 Subject: [PATCH 4/6] Update submission --- mite_data/data/MITE0000100.json | 12 +++++++----- 1 file changed, 7 insertions(+), 5 deletions(-) diff --git a/mite_data/data/MITE0000100.json b/mite_data/data/MITE0000100.json index c2a026a..d9a1c68 100644 --- a/mite_data/data/MITE0000100.json +++ b/mite_data/data/MITE0000100.json @@ -36,7 +36,7 @@ "reviewers": [ "BBBBBBBBBBBBBBBBBBBBBBBB" ], - "comment": "" + "comment": "Added reaction description, removed MIBiG accession BGC0001476 (does not exist in MIBiG 4.0)." } ], "enzyme": { @@ -47,8 +47,7 @@ ], "databaseIds": { "uniprot": "UPI000D218CF8", - "genpept": "AVT42376.1", - "mibig": "BGC0001476" + "genpept": "AVT42376.1" } }, "reactions": [ @@ -56,6 +55,7 @@ "tailoring": [ "Amination" ], + "description": "Performs amination of 5'-oxo-pseudouridine in the pseudouridimycin pathway.", "reactionSMARTS": "[#8:1]\\[#6@:2]1-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-[#6@@:3]-1/[#6:16]=[#8]>>[#7]-[#6:16]/[#6@@:3]1-[#6@@:2](\\[#8:1])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-1", "reactions": [ { @@ -63,12 +63,14 @@ "products": [ "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O" ], - "isIntermediate": false + "isIntermediate": true, + "description": "Converts 5'-oxo-pseudouridine to 5'-aminopseudouridine" } ], "evidence": { "evidenceCode": [ - "Knock-out studies" + "Knock-out studies", + "Site-directed mutagenesis" ], "references": [ "doi:10.1016/j.chembiol.2018.02.008" From 913e685d8bdeb9636b1433ce370a41fbcfedddd0 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:54:03 +0100 Subject: [PATCH 5/6] Delete mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json --- .../0dbbc78e-13c1-11f1-8244-9f391af45cf2.json | 81 ------------------- 1 file changed, 81 deletions(-) delete mode 100644 mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json diff --git a/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json b/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json deleted file mode 100644 index d9a1c68..0000000 --- a/mite_data/data/0dbbc78e-13c1-11f1-8244-9f391af45cf2.json +++ /dev/null @@ -1,81 +0,0 @@ -{ - "accession": "MITE0000100", - "status": "pending", - "changelog": [ - { - "version": "1", - "date": "2024-07-30", - "contributors": [ - "0000-0003-1763-2525", - "0009-0008-3623-3734", - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "0000-0001-6534-6609", - "0000-0003-0443-9902" - ], - "comment": "Initial entry. Reviewer partially fixed general aromaticity. Reviewer 2 fixed reaction SMARTS by specifying explicit hydrogens on aromatic nitrogens, reaction passes." - }, - { - "version": "2", - "date": "2025-10-27", - "contributors": [ - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "0000-0001-6534-6609" - ], - "comment": "Replaced retired UniProtKB ID with UniParc ID" - }, - { - "version": "3", - "date": "2026-02-27", - "contributors": [ - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "BBBBBBBBBBBBBBBBBBBBBBBB" - ], - "comment": "Added reaction description, removed MIBiG accession BGC0001476 (does not exist in MIBiG 4.0)." - } - ], - "enzyme": { - "name": "PumG", - "description": "Aminotransferase", - "references": [ - "doi:10.1016/j.chembiol.2018.02.008" - ], - "databaseIds": { - "uniprot": "UPI000D218CF8", - "genpept": "AVT42376.1" - } - }, - "reactions": [ - { - "tailoring": [ - "Amination" - ], - "description": "Performs amination of 5'-oxo-pseudouridine in the pseudouridimycin pathway.", - "reactionSMARTS": "[#8:1]\\[#6@:2]1-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-[#6@@:3]-1/[#6:16]=[#8]>>[#7]-[#6:16]/[#6@@:3]1-[#6@@:2](\\[#8:1])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:8]2:[#6:14](=[#8:15]):[nH:13]:[#6:11](=[#8:12]):[nH:10]:[#6:9]:2)-[#8:4]-1", - "reactions": [ - { - "substrate": "O=C[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O", - "products": [ - "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O" - ], - "isIntermediate": true, - "description": "Converts 5'-oxo-pseudouridine to 5'-aminopseudouridine" - } - ], - "evidence": { - "evidenceCode": [ - "Knock-out studies", - "Site-directed mutagenesis" - ], - "references": [ - "doi:10.1016/j.chembiol.2018.02.008" - ] - } - } - ] -} \ No newline at end of file From 5fbc9c3d43c01bf8ecd671b766adc4b4ed735299 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:54:04 +0100 Subject: [PATCH 6/6] Update submission --- mite_data/data/MITE0000100.json | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/mite_data/data/MITE0000100.json b/mite_data/data/MITE0000100.json index d9a1c68..7b6f75c 100644 --- a/mite_data/data/MITE0000100.json +++ b/mite_data/data/MITE0000100.json @@ -1,6 +1,6 @@ { "accession": "MITE0000100", - "status": "pending", + "status": "active", "changelog": [ { "version": "1", @@ -34,7 +34,7 @@ "AAAAAAAAAAAAAAAAAAAAAAAA" ], "reviewers": [ - "BBBBBBBBBBBBBBBBBBBBBBBB" + "0000-0001-6534-6609" ], "comment": "Added reaction description, removed MIBiG accession BGC0001476 (does not exist in MIBiG 4.0)." }