@rcsb/rcsb-saguaro-3d
Version:
RCSB Molstar/Saguaro Web App
1,412 lines (1,411 loc) • 67.5 kB
JavaScript
"use strict";
Object.defineProperty(exports, "__esModule", { value: true });
exports.loadParamsProvider = exports.dataProvider = void 0;
const tslib_1 = require("tslib");
const GqlTypes_1 = require("@rcsb/rcsb-api-tools/lib/RcsbGraphQL/Types/Borrego/GqlTypes");
const AlignmentReference_1 = require("./AlignmentReference");
const MolstarActionManager_1 = require("../../../RcsbFvStructure/StructureViewers/MolstarViewer/MolstarActionManager");
const AlignmentTrajectoryPresetProvider_1 = require("../../../RcsbFvStructure/StructureViewers/MolstarViewer/TrajectoryPresetProvider/AlignmentTrajectoryPresetProvider");
const FlexibleAlignmentTrajectoryPresetProvider_1 = require("../../../RcsbFvStructure/StructureViewers/MolstarViewer/TrajectoryPresetProvider/FlexibleAlignmentTrajectoryPresetProvider");
const TagDelimiter_1 = require("@rcsb/rcsb-api-tools/lib/RcsbUtils/TagDelimiter");
const alignment = {
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"length": 5
},
{
"beg_index": 696,
"length": 4
}
]
}
],
"summary": {
"scores": [
{
"value": 2.48,
"type": "RMSD"
},
{
"value": 0.6,
"type": "TM-score"
},
{
"value": 2076.04,
"type": "similarity-score"
},
{
"value": 0.98,
"type": "sequence-identity"
},
{
"value": 0.98,
"type": "sequence-similarity"
}
],
"n_aln_residue_pairs": 772,
"n_modeled_residues": [
801,
780
],
"seq_aln_len": 802,
"aln_coverage": [
96,
99
]
}
}
]
};
const alignmentExample = {
"info": {
"uuid": "538d54e2-039c-44c8-bd5f-bb26af9c45bb",
"status": "COMPLETE"
},
"meta": {
"alignment_mode": "pairwise",
"alignment_method": "fatcat-rigid"
},
"results": [
{
"structures": [
{
"url": "https://alphafold.ebi.ac.uk/files/AF-P41235-F1-model_v2.cif",
"format": "mmcif",
"is_binary": false,
"name": "AF-P41235-F1",
"selection": {
"asym_id": "A"
}
},
{
"entry_id": "3CBB",
"selection": {
"asym_id": "C"
}
}
],
"structure_alignment": [
{
"regions": [
[
{
"asym_id": "A",
"beg_seq_id": 58,
"beg_index": 0,
"length": 76
}
],
[
{
"asym_id": "C",
"beg_seq_id": 1,
"beg_index": 0,
"length": 76
}
]
],
"transformations": [
[
1,
0,
0,
0,
0,
1,
0,
0,
0,
0,
1,
0,
0,
0,
0,
1
],
[
0.663932900191227,
-0.6410962059424273,
0.3849529305900804,
0,
-0.6205267418674186,
-0.18505769796524382,
0.7620368829992492,
0,
-0.4173004513190375,
-0.7448149455737514,
-0.5206832340097945,
0,
2.241812113864647,
17.198483576583477,
-52.357664887014344,
1
]
],
"summary": {
"scores": [
{
"value": 214.71,
"type": "similarity-score"
},
{
"value": 0.47,
"type": "RMSD"
}
],
"n_aln_residue_pairs": 76
}
}
],
"sequence_alignment": [
{
"sequence": "MRLSKTLVDMDMADYSAALDPAYTTLEFENVQVLTMGNDTSPSEGTNLNAPNSLGVSALCAICGDRATGKHYGASSCDGCKGFFRRSVRKNHMYSCRFSRQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQNERDRISTRRSSYEDSSLPSINALLQAEVLSRQITSPVSGINGDIRAKKIASIADVCESMKEQLLVLVEWAKYIPAFCELPLDDQVALLRAHAGEHLLLGATKRSMVFKDVLLLGNDYIVPRHCPELAEMSRVSIRILDELVLPFQELQIDDNEYAYLKAIIFFDPDAKGLSDPGKIKRLRSQVQVSLEDYINDRQYDSRGRFGELLLLLPTLQSITWQMIEQIQFIKLFGMAKIDNLLQEMLLGGSPSDAPHAHHPLHPHLMQEHMGTNVIVANTMPTHLSNGQMCEWPRPRGQAATPETPQPSPPGGSGSEPYKLLPGAVATIVKPLSAIPQPTITKQEVI",
"regions": [
{
"asym_id": "A",
"beg_seq_id": 58,
"beg_index": 0,
"length": 76
}
]
},
{
"sequence": "ALCAICGDRATGKHYGASSCDGCKGFFRRSVRKNHMYSCRFSRQCVVDKDKRNQCRYCRLKKCFRAGMKKEAVQNERD",
"regions": [
{
"asym_id": "C",
"beg_seq_id": 1,
"beg_index": 0,
"length": 76
}
]
}
],
"summary": {
"scores": [
{
"value": 1,