From fec71992e14611e1138d96ffbc73dac4b46e9767 Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 09:28:08 +0100 Subject: [PATCH 1/7] Add submission UUID file --- .../fec357fc-13b5-11f1-8244-9f391af45cf2.json | 90 +++++++++++++++++++ 1 file changed, 90 insertions(+) create mode 100644 mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json diff --git a/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json b/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json new file mode 100644 index 000000000..c323f6862 --- /dev/null +++ b/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json @@ -0,0 +1,90 @@ +{ + "accession": "MITE0000098", + "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 reworked reaction SMARTS, reaction passes." + }, + { + "version": "2", + "date": "2025-08-26", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "0000-0001-6534-6609" + ], + "comment": "Homogenized enzyme descriptions" + }, + { + "version": "3", + "date": "2025-10-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "0000-0001-6534-6609" + ], + "comment": "Replaced retired UniProtKB ID with UniParc ID" + }, + { + "version": "4", + "date": "2026-02-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "BBBBBBBBBBBBBBBBBBBBBBBB" + ], + "comment": "" + } + ], + "enzyme": { + "name": "PumK", + "description": "Carboxylate-amine ligase", + "references": [ + "doi:10.1016/j.chembiol.2018.02.008" + ], + "databaseIds": { + "uniprot": "UPI000D1FFAB8", + "genpept": "AVT42380.1", + "mibig": "BGC0001476" + } + }, + "reactions": [ + { + "tailoring": [ + "Other" + ], + "reactionSMARTS": "[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1>>[#7]\\[#6@](-[#6](-[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1)=[#8])-[#6]-[#6]-[#6](=[#8])-[#7]", + "reactions": [ + { + "substrate": "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O", + "products": [ + "NC(=O)CC[C@H](N)C(=O)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 647aeff3db5cb005d440ce6bf086ce0ed7e3967b Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 09:28:09 +0100 Subject: [PATCH 2/7] Update entry MITE0000098 --- mite_data/data/MITE0000098.json | 13 ++++++++++++- 1 file changed, 12 insertions(+), 1 deletion(-) diff --git a/mite_data/data/MITE0000098.json b/mite_data/data/MITE0000098.json index 02b8da50a..c323f6862 100644 --- a/mite_data/data/MITE0000098.json +++ b/mite_data/data/MITE0000098.json @@ -1,6 +1,6 @@ { "accession": "MITE0000098", - "status": "active", + "status": "pending", "changelog": [ { "version": "1", @@ -37,6 +37,17 @@ "0000-0001-6534-6609" ], "comment": "Replaced retired UniProtKB ID with UniParc ID" + }, + { + "version": "4", + "date": "2026-02-27", + "contributors": [ + "AAAAAAAAAAAAAAAAAAAAAAAA" + ], + "reviewers": [ + "BBBBBBBBBBBBBBBBBBBBBBBB" + ], + "comment": "" } ], "enzyme": { From 2086b8ad6f5326f5a2a6a88933dbcfb114d63e8c Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 09:31:29 +0100 Subject: [PATCH 3/7] Update submission --- mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json b/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json index c323f6862..84a38c887 100644 --- a/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json +++ b/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json @@ -47,7 +47,7 @@ "reviewers": [ "BBBBBBBBBBBBBBBBBBBBBBBB" ], - "comment": "" + "comment": "Added reaction description" } ], "enzyme": { @@ -67,6 +67,7 @@ "tailoring": [ "Other" ], + "description": "Transfers glutamine to 5'-aminopseudouridine in pseudouridimycin pathway.", "reactionSMARTS": "[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1>>[#7]\\[#6@](-[#6](-[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1)=[#8])-[#6]-[#6]-[#6](=[#8])-[#7]", "reactions": [ { @@ -74,7 +75,8 @@ "products": [ "NC(=O)CC[C@H](N)C(=O)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'-aminopseudouridine to glutamine-5'-aminopseudouridine" } ], "evidence": { From e74b0336f6d17ee800994d1b7cbacb18a365505b Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 09:31:31 +0100 Subject: [PATCH 4/7] Update submission --- mite_data/data/MITE0000098.json | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/mite_data/data/MITE0000098.json b/mite_data/data/MITE0000098.json index c323f6862..84a38c887 100644 --- a/mite_data/data/MITE0000098.json +++ b/mite_data/data/MITE0000098.json @@ -47,7 +47,7 @@ "reviewers": [ "BBBBBBBBBBBBBBBBBBBBBBBB" ], - "comment": "" + "comment": "Added reaction description" } ], "enzyme": { @@ -67,6 +67,7 @@ "tailoring": [ "Other" ], + "description": "Transfers glutamine to 5'-aminopseudouridine in pseudouridimycin pathway.", "reactionSMARTS": "[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1>>[#7]\\[#6@](-[#6](-[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1)=[#8])-[#6]-[#6]-[#6](=[#8])-[#7]", "reactions": [ { @@ -74,7 +75,8 @@ "products": [ "NC(=O)CC[C@H](N)C(=O)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'-aminopseudouridine to glutamine-5'-aminopseudouridine" } ], "evidence": { From 065fa84141341a18e87143fc79592687563b6beb Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:13:15 +0100 Subject: [PATCH 5/7] Delete mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json --- .../fec357fc-13b5-11f1-8244-9f391af45cf2.json | 92 ------------------- 1 file changed, 92 deletions(-) delete mode 100644 mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json diff --git a/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json b/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json deleted file mode 100644 index 84a38c887..000000000 --- a/mite_data/data/fec357fc-13b5-11f1-8244-9f391af45cf2.json +++ /dev/null @@ -1,92 +0,0 @@ -{ - "accession": "MITE0000098", - "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 reworked reaction SMARTS, reaction passes." - }, - { - "version": "2", - "date": "2025-08-26", - "contributors": [ - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "0000-0001-6534-6609" - ], - "comment": "Homogenized enzyme descriptions" - }, - { - "version": "3", - "date": "2025-10-27", - "contributors": [ - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "0000-0001-6534-6609" - ], - "comment": "Replaced retired UniProtKB ID with UniParc ID" - }, - { - "version": "4", - "date": "2026-02-27", - "contributors": [ - "AAAAAAAAAAAAAAAAAAAAAAAA" - ], - "reviewers": [ - "BBBBBBBBBBBBBBBBBBBBBBBB" - ], - "comment": "Added reaction description" - } - ], - "enzyme": { - "name": "PumK", - "description": "Carboxylate-amine ligase", - "references": [ - "doi:10.1016/j.chembiol.2018.02.008" - ], - "databaseIds": { - "uniprot": "UPI000D1FFAB8", - "genpept": "AVT42380.1", - "mibig": "BGC0001476" - } - }, - "reactions": [ - { - "tailoring": [ - "Other" - ], - "description": "Transfers glutamine to 5'-aminopseudouridine in pseudouridimycin pathway.", - "reactionSMARTS": "[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1>>[#7]\\[#6@](-[#6](-[#7:1]-[#6:2]/[#6@@:3]1-[#6@@:8](\\[#8:9])-[#6@@:6](\\[#8:7])-[#6@:5](/[#6:10]2:[#6:16](=[#8:17]):[#7:15]:[#6:13](=[#8:14]):[#7:12]:[#6:11]:2)-[#8:4]-1)=[#8])-[#6]-[#6]-[#6](=[#8])-[#7]", - "reactions": [ - { - "substrate": "NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O", - "products": [ - "NC(=O)CC[C@H](N)C(=O)NC[C@H]1O[C@@H](c2c[nH]c(=O)[nH]c2=O)[C@H](O)[C@@H]1O" - ], - "isIntermediate": true, - "description": "Converts 5'-aminopseudouridine to glutamine-5'-aminopseudouridine" - } - ], - "evidence": { - "evidenceCode": [ - "Knock-out studies" - ], - "references": [ - "doi:10.1016/j.chembiol.2018.02.008" - ] - } - } - ] -} \ No newline at end of file From 6af5f8f922dcc3b635de3111eaa470ddc1e734fc Mon Sep 17 00:00:00 2001 From: mite-bot Date: Fri, 27 Feb 2026 10:13:17 +0100 Subject: [PATCH 6/7] Update submission --- mite_data/data/MITE0000098.json | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/mite_data/data/MITE0000098.json b/mite_data/data/MITE0000098.json index 84a38c887..c0b74d584 100644 --- a/mite_data/data/MITE0000098.json +++ b/mite_data/data/MITE0000098.json @@ -1,6 +1,6 @@ { "accession": "MITE0000098", - "status": "pending", + "status": "active", "changelog": [ { "version": "1", @@ -45,7 +45,7 @@ "AAAAAAAAAAAAAAAAAAAAAAAA" ], "reviewers": [ - "BBBBBBBBBBBBBBBBBBBBBBBB" + "0000-0001-6534-6609" ], "comment": "Added reaction description" } From a40da260189a9d0c5a2300cc2efe4c42b7ed9d72 Mon Sep 17 00:00:00 2001 From: "Mitja M. Zdouc" <95709447+mmzdouc@users.noreply.github.com> Date: Fri, 27 Feb 2026 10:24:58 +0100 Subject: [PATCH 7/7] Update MITE0000098.json Removed MIBiG BGC ID: does not exist --- mite_data/data/MITE0000098.json | 7 +++---- 1 file changed, 3 insertions(+), 4 deletions(-) diff --git a/mite_data/data/MITE0000098.json b/mite_data/data/MITE0000098.json index c0b74d584..8badd0bcc 100644 --- a/mite_data/data/MITE0000098.json +++ b/mite_data/data/MITE0000098.json @@ -47,7 +47,7 @@ "reviewers": [ "0000-0001-6534-6609" ], - "comment": "Added reaction description" + "comment": "Added reaction description. Reviewer 1 removed MIBIG ID BGC0001476 (does not exist in MIBiG 4.0)" } ], "enzyme": { @@ -58,8 +58,7 @@ ], "databaseIds": { "uniprot": "UPI000D1FFAB8", - "genpept": "AVT42380.1", - "mibig": "BGC0001476" + "genpept": "AVT42380.1" } }, "reactions": [ @@ -89,4 +88,4 @@ } } ] -} \ No newline at end of file +}