@rcsb/rcsb-saguaro-app 6.3.2 → 6.3.4

package/lib/RcsbAnnotationConfig/RcsbResidueConfig.ac.json

@@ -1,685 +0,0 @@
-{
-    "provenance_color_code": {
-        "external": "#DB9128",
-        "rcsb_pdb": "#325880",
-        "rcsb_link": "#5e94c3",
-        "csm": "#1abdcf"
-    },
-    "merge": [
-        {
-            "merged_types": ["UNOBSERVED_RESIDUE_XYZ", "UNOBSERVED_ATOM_XYZ"],
-            "type": "UNOBSERVED",
-            "title": "UNMODELED",
-            "display": "block"
-        },
-        {
-            "merged_types": ["TOPOLOGICAL_DOMAIN", "TRANSMEMBRANE_REGION", "INTRAMEMBRANE_REGION"],
-            "type": "MEMBRANE_TOPOLOGY",
-            "title": "MEMBRANE TOPOLOGY",
-            "display": "block"
-        }, {
-            "merged_types": ["INITIATOR_METHIONINE", "CHAIN", "SIGNAL_PEPTIDE"],
-            "type": "MOLECULE_PROCESSING",
-            "title": "MOLECULE PROCESSING",
-            "display": "block"
-        }, {
-            "merged_types": ["HELIX_P", "HELX_LH_PP_P", "HELX_RH_AL_P", "HELX_RH_3_T_P", "HELX_RH_PI_P"],
-            "type": "HELIX",
-            "title": "HELIX",
-            "display": "block"
-        }, {
-            "merged_types": ["SHEET", "STRN"],
-            "type": "SHEET",
-            "title": "SHEET",
-            "display": "block"
-        }, {
-            "merged_types": ["BEND", "TURN_TY_1_P"],
-            "type": "TURN",
-            "title": "TURN",
-            "display": "block"
-        }, {
-            "merged_types": ["SCOP_2_FAMILY", "SCOP_2_SUPERFAMILY", "SCOP_2_B_SUPERFAMILY", "SCOP"],
-            "type": "ALL_SCOP",
-            "title": "SCOP",
-            "display": "block"
-        }
-    ],
-    "external_data_order": [
-        "PFAM",
-        "CATH",
-        "ALL_SCOP",
-        "SCOP",
-        "SCOP_2_B_SUPERFAMILY",
-        "SCOP2_FAMILY",
-        "SCOP2_SUPERFAMILY",
-        "ECOD",
-        "IMGT_ANTIBODY_DESCRIPTION",
-        "IMGT_ANTIBODY_DOMAIN_NAME",
-        "IMGT_ANTIBODY_GENE_ALLELE_NAME",
-        "IMGT_ANTIBODY_ORGANISM_NAME",
-        "IMGT_ANTIBODY_PROTEIN_NAME",
-        "IMGT_ANTIBODY_RECEPTOR_DESCRIPTION",
-        "IMGT_ANTIBODY_RECEPTOR_TYPE",
-        "SABDAB_ANTIBODY_ANTIGEN_NAME",
-        "SABDAB_ANTIBODY_NAME",
-        "SABDAB_ANTIBODY_TARGET",
-        "SABDAB_ANTIBODY_HEAVY_CHAIN_SUBCLASS",
-        "SABDAB_ANTIBODY_LIGHT_CHAIN_SUBCLASS",
-        "SABDAB_ANTIBODY_LIGHT_CHAIN_TYPE",
-        "MOLECULE_PROCESSING",
-        "MEMBRANE_TOPOLOGY",
-        "MEMBRANE_SEGMENT",
-        "CHAIN",
-        "INITIATOR_METHIONINE",
-        "SEQUENCE_VARIANT",
-        "GLYCOSYLATION_SITE",
-        "LIPID_MOIETY_BINDING_REGION",
-        "CROSS_LINK",
-        "DISULFIDE_BOND",
-        "METAL_ION_BINDING_SITE",
-        "NUCLEOTIDE_PHOSPHATE_BINDING_REGION",
-        "DNA_BINDING_REGION",
-        "ACTIVE_SITE",
-        "MODIFIED_RESIDUE",
-        "MUTAGENESIS_SITE",
-        "SEQUENCE_CONFLICT",
-        "SITE",
-        "SHORT_SEQUENCE_MOTIF",
-        "ZINC_FINGER_REGION",
-        "PROPEPTIDE",
-        "TRANSMEMBRANE_REGION",
-        "INTRAMEMBRANE_REGION",
-        "TOPOLOGICAL_DOMAIN",
-        "COILED_COIL_REGION",
-        "REPEAT",
-        "DOMAIN",
-        "REGION_OF_INTEREST",
-        "COMPOSITIONALLY_BIASED_REGION",
-        "SPLICE_VARIANT",
-        "NON_TERMINAL_RESIDUE",
-        "TURN",
-        "SIGNAL_PEPTIDE",
-        "CARD_MODEL",
-        "CALCIUM_BINDING_REGION",
-        "PEPTIDE"
-    ],
-    "instance_order": [
-        "SECONDARY_STRUCTURE",
-        "HELIX_P",
-        "SHEET",
-        "UNOBSERVED",
-        "UNOBSERVED_RESIDUE_XYZ",
-        "UNOBSERVED_ATOM_XYZ",
-        "ZERO_OCCUPANCY_RESIDUE_XYZ",
-        "ZERO_OCCUPANCY_ATOM_XYZ",
-        "RAMACHANDRAN_OUTLIER",
-        "ANGLE_OUTLIER",
-        "BOND_OUTLIER",
-        "ROTAMER_OUTLIER",
-        "RSRZ_OUTLIER",
-        "RSCC_OUTLIER",
-        "RSRCC_OUTLIER",
-        "MOGUL_ANGLE_OUTLIER",
-        "MOGUL_BOND_OUTLIER",
-        "STEREO_OUTLIER",
-        "CIS_PEPTIDE",
-        "BINDING_SITE",
-        "ASA_UNBOUND",
-        "ASA_BOUND",
-        "BURIAL_FRACTION",
-        "BURIED_RESIDUES",
-        "DISULFIDE_BRIDGE",
-        "COVALENT_BOND",
-        "METAL_COORDINATION",
-        "HYDROGEN_BOND"
-    ],
-    "entity_order": [
-        "ARTIFACT",
-        "MUTATION",
-        "MODIFIED_MONOMER",
-        "HYDROPATHY",
-        "DISORDER",
-        "DISORDER_BINDING"
-    ],
-    "config": [{
-            "type": "CARD_MODEL",
-            "color": "#4d901b",
-            "display": "block",
-            "title": "CARD"
-        }, {
-            "type": "ECOD",
-            "color": "#42d0b1",
-            "display": "block",
-            "title": "ECOD"
-        }, {
-            "type": "IMGT_ANTIBODY_DOMAIN_NAME",
-            "color": "#3c0d7f",
-            "display": "block",
-            "title": "ANTIBODY DOMAIN"
-        }, {
-            "type": "SABDAB_ANTIBODY_HEAVY_CHAIN_SUBCLASS",
-            "color": "#4c9f0d",
-            "display": "block",
-            "title": "ANTIBODY HEAVY CHAIN",
-            "ignore": true
-        }, {
-            "type": "SABDAB_ANTIBODY_LIGHT_CHAIN_SUBCLASS",
-            "color": "#4c9f0d",
-            "display": "block",
-            "title": "ANTIBODY HEAVY CHAIN",
-            "ignore": true
-        }, {
-            "type": "SABDAB_ANTIBODY_LIGHT_CHAIN_TYPE",
-            "color": "#4c9f0d",
-            "display": "block",
-            "title": "ANTIBODY HEAVY CHAIN",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_DESCRIPTION",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY DESCRIPTION",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_GENE_ALLELE_NAME",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY GENE NAME",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_ORGANISM_NAME",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY ORGANISM NAME",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_PROTEIN_NAME",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY PROTEIN NAME",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_RECEPTOR_DESCRIPTION",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY RECEPTOR DESCRIPTION",
-            "ignore": true
-        }, {
-            "type": "IMGT_ANTIBODY_RECEPTOR_TYPE",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY RECEPTOR TYPE",
-            "ignore": true
-        }, {
-            "type": "SABDAB_ANTIBODY_ANTIGEN_NAME",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY ANTIGEN NAME",
-            "ignore": true
-        }, {
-            "type": "SABDAB_ANTIBODY_NAME",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY NAME",
-            "ignore": true
-        }, {
-            "type": "SABDAB_ANTIBODY_TARGET",
-            "color": "#bf5c0d",
-            "display": "block",
-            "title": "ANTIBODY TARGET",
-            "ignore": true
-        }, {
-            "type": "HOMOLOGY MODELLING",
-            "color": "#2fcc5d",
-            "display": "block",
-            "title": "HOMOLOGY MODELS"
-        }, {
-            "type": "DISORDER_BINDING",
-            "display": "area",
-            "color": {
-                "thresholds": [0.5],
-                "colors": ["#8484FF", "#FF8484"]
-            },
-            "height": 45,
-            "title": "DISORDERED BINDING",
-            "domain": [0, 1]
-        }, {
-            "type": "HYDROPATHY",
-            "display": "area",
-            "color": {
-                "thresholds": [0],
-                "colors": ["#8484FF", "#FF8484"]
-            },
-            "height": 45,
-            "title": "HYDROPATHY"
-        }, {
-            "type": "DISORDER",
-            "display": "area",
-            "color": {
-                "thresholds": [0.5],
-                "colors": ["#8484FF", "#FF8484"]
-            },
-            "height": 45,
-            "title": "DISORDER",
-            "domain": [0, 1]
-        }, {
-            "type": "SEQUENCE_VARIANT",
-            "display": "composite",
-            "color": "#ff6666",
-            "title": "GENOME VARIANT"
-        }, {
-            "type": "ZINC_FINGER_REGION",
-            "display": "block",
-            "color": "#66ff66",
-            "title": "ZINC FINGER"
-        }, {
-            "type": "NUCLEOTIDE_PHOSPHATE_BINDING_REGION",
-            "display": "block",
-            "color": "#ffcc00",
-            "title": "NUCLEOTIDE BINDING"
-        }, {
-            "type": "DNA_BINDING_REGION",
-            "display": "block",
-            "color": "#ff5c9f",
-            "title": "DNA BINDING"
-        }, {
-            "type": "ACTIVE_SITE",
-            "display": "pin",
-            "color": "#ff88cc",
-            "title": "ACTIVE SITE"
-        }, {
-            "type": "COMPOSITIONALLY_BIASED_REGION",
-            "display": "block",
-            "color": "#D58874",
-            "title": "COMPOSITIONAL BIAS"
-        }, {
-            "type": "BINDING_SITE",
-            "display": "pin",
-            "color": "#984657",
-            "title": "BINDING SITE",
-            "key": "name",
-            "addToType": ["feature_id"]
-        }, {
-            "type": "MUTAGENESIS_SITE",
-            "display": "composite",
-            "color": "#b82a80",
-            "title": "MUTAGENESIS"
-        }, {
-            "type": "SEQUENCE_CONFLICT",
-            "display": "composite",
-            "color": "#e80368",
-            "title": "CONFLICT"
-        }, {
-            "type": "METAL_ION_BINDING_SITE",
-            "display": "pin",
-            "color": "#41a754",
-            "title": "METAL BINDING"
-        }, {
-            "type": "CROSS_LINK",
-            "display": "pin",
-            "color": "#0a39af",
-            "title": "CROSS-LINK"
-        }, {
-            "type": "INITIATOR_METHIONINE",
-            "display": "pin",
-            "color": "#e2916d",
-            "title": "INITIATOR METHIONINE"
-        }, {
-            "type": "MODIFIED_RESIDUE",
-            "display": "pin",
-            "color": "#44b8fd",
-            "title": "MODIFIED RESIDUE"
-        }, {
-            "type": "TURN",
-            "display": "block",
-            "color": "#155870",
-            "title": "TURN"
-        }, {
-            "type": "CHAIN",
-            "display": "block",
-            "color": "#ad9c5e",
-            "title": "CHAIN"
-        }, {
-            "type": "DOMAIN",
-            "display": "block",
-            "color": "#715e76",
-            "title": "DOMAIN"
-        }, {
-            "type": "SITE",
-            "display": "composite",
-            "color": "#b5748d",
-            "title": "SITE"
-        }, {
-            "type": "SHORT_SEQUENCE_MOTIF",
-            "display": "block",
-            "color": "#6a508e",
-            "title": "LINEAR MOTIF"
-        }, {
-            "type": "SPLICE_VARIANT",
-            "display": "block",
-            "color": "#f03634",
-            "title": "SEQUENCE SPLICING"
-        }, {
-            "type": "LIPID_MOIETY_BINDING_REGION",
-            "display": "pin",
-            "color": "#06cb7a",
-            "title": "LIPIDATION"
-        }, {
-            "type": "REGION_OF_INTEREST",
-            "display": "block",
-            "color": "#6797be",
-            "title": "REGION"
-        }, {
-            "type": "PROPEPTIDE",
-            "display": "block",
-            "color": "#94d687",
-            "title": "PROPEPTIDE"
-        }, {
-            "type": "UNOBSERVED_RESIDUE_XYZ",
-            "display": "block",
-            "color": "#cccccc",
-            "title": "UNMODELED RESIDUE"
-        }, {
-            "type": "ANGLE_OUTLIER",
-            "display": "area",
-            "color": "#aa33aa",
-            "height": 45,
-            "title": "ANGLE OUTLIER",
-            "transformToNumerical": true
-        }, {
-            "type": "ROTAMER_OUTLIER",
-            "display": "pin",
-            "color": "#33aaaa",
-            "title": "ROTAMER OUTLIER"
-        }, {
-            "type": "RAMACHANDRAN_OUTLIER",
-            "display": "pin",
-            "color": "#cc3333",
-            "title": "RAMACHANDRAN OUTLIER"
-        }, {
-            "type": "RSRCC_OUTLIER",
-            "display": "pin",
-            "color": "#cc33cc",
-            "title": "RSRCC OUTLIER"
-        }, {
-            "type": "BOND_OUTLIER",
-            "display": "area",
-            "color": "#33aa33",
-            "height": 45,
-            "title": "BOND OUTLIER",
-            "transformToNumerical": true
-        }, {
-            "type": "MOGUL_BOND_OUTLIER",
-            "display": "area",
-            "color": "#fcd303",
-            "height": 45,
-            "title": "MOGUL-BOND OUTLIER",
-            "transformToNumerical": true
-        }, {
-            "type": "MOGUL_ANGLE_OUTLIER",
-            "display": "area",
-            "color": "#d303fc",
-            "height": 45,
-            "title": "MOGUL-ANGLE OUTLIER",
-            "transformToNumerical": true
-        }, {
-            "type": "MUTATION",
-            "display": "pin",
-            "color": "#ebae56",
-            "title": "MUTATION"
-        }, {
-            "type": "mutation",
-            "display": "pin",
-            "color": "#ebae56",
-            "title": "MUTATION"
-        }, {
-            "type": "HELIX_P",
-            "display": "block",
-            "color": "#e43372",
-            "title": "HELIX"
-        }, {
-            "type": "HELX_LH_PP_P",
-            "display": "block",
-            "color": "#e43372",
-            "title": "HELIX"
-        }, {
-            "type": "HELX_RH_AL_P",
-            "display": "block",
-            "color": "#e43372",
-            "title": "HELIX"
-        }, {
-            "type": "HELX_RH_3_T_P",
-            "display": "block",
-            "color": "#e43372",
-            "title": "HELIX"
-        }, {
-            "type": "HELX_RH_PI_P",
-            "display": "block",
-            "color": "#e43372",
-            "title": "HELIX"
-        }, {
-            "type": "BEND",
-            "display": "block",
-            "color": "#65cbf3",
-            "title": "BEND"
-        }, {
-            "type": "TURN_TY_1_P",
-            "display": "block",
-            "color": "#0053d6",
-            "title": "TURN"
-        }, {
-            "type": "SHEET",
-            "display": "block",
-            "color": "#f1d23b",
-            "title": "BETA STRAND"
-        }, {
-            "type": "STRN",
-            "display": "block",
-            "color": "#f1d23b",
-            "title": "BETA STRAND"
-        }, {
-            "type": "CATH",
-            "display": "block",
-            "color": "#e4ad56",
-            "title": "CATH"
-        }, {
-            "type": "SCOP",
-            "display": "block",
-            "color": "#455d5a",
-            "title": "SCOP"
-        }, {
-            "type": "SCOP_2_FAMILY",
-            "display": "block",
-            "color": "#455d5a",
-            "title": "SCOP FAMILY"
-        }, {
-            "type": "SCOP_2_B_SUPERFAMILY",
-            "display": "block",
-            "color": "#455d5a",
-            "title": "SCOP SUPERFAMILY"
-        }, {
-            "type": "SCOP_2_SUPERFAMILY",
-            "display": "block",
-            "color": "#455d5a",
-            "title": "SCOP SUPERFAMILY"
-        }, {
-            "type": "PFAM",
-            "display": "block",
-            "color": "#ECACA6",
-            "title": "PFAM"
-        }, {
-            "type": "RSRZ_OUTLIER",
-            "display": "pin",
-            "color": "#3333aa",
-            "title": "RSRZ OUTLIER"
-        }, {
-            "type": "RSCC_OUTLIER",
-            "display": "pin",
-            "color": "#63339a",
-            "title": "RSCC OUTLIER"
-        }, {
-            "type": "UNOBSERVED_ATOM_XYZ",
-            "display": "block",
-            "color": "#b2997f",
-            "title": "UNMODELED ATOM"
-        }, {
-            "type": "ZERO_OCCUPANCY_ATOM_XYZ",
-            "display": "composite",
-            "color": "#aca86a",
-            "title": "ZERO OCCUPANCY ATOM"
-        }, {
-            "type": "CIS_PEPTIDE",
-            "display": "bond",
-            "color": "#761e47",
-            "title": "CIS-PEPTIDE"
-        }, {
-            "type": "HYDROGEN_BOND",
-            "display": "bond",
-            "color": "#76Ae47",
-            "title": "HYDROGEN BOND",
-            "ignore": true
-        }, {
-            "type": "ARTIFACT",
-            "display": "block",
-            "color": "#4c3f0f",
-            "title": "ARTIFACT"
-        }, {
-            "type": "ARTIFACT",
-            "display": "block",
-            "color": "#4c3f0f",
-            "title": "ARTIFACT"
-        }, {
-            "type": "TOPOLOGICAL_DOMAIN",
-            "display": "block",
-            "color": "#853faf",
-            "title": "TOPOLOGICAL DOMAIN"
-        }, {
-            "type": "INTRAMEMBRANE_REGION",
-            "display": "block",
-            "color": "#c58f0f",
-            "title": "INTRAMEMBRANE REGION"
-        }, {
-            "type": "TRANSMEMBRANE_REGION",
-            "display": "block",
-            "color": "#8fc50f",
-            "title": "TRANSMEMBRANE REGION"
-        }, {
-            "type": "REPEAT",
-            "display": "block",
-            "color": "#2ea37b",
-            "title": "REPEAT"
-        }, {
-            "type": "SIGNAL_PEPTIDE",
-            "display": "block",
-            "color": "#2ea3bb",
-            "title": "SIGNAL PEPTIDE"
-        }, {
-            "type": "COILED_COIL_REGION",
-            "display": "block",
-            "color": "#a2ac85",
-            "title": "COILED COIL REGION"
-        }, {
-            "type": "DISULFIDE_BRIDGE",
-            "display": "bond",
-            "color": "#6a534a",
-            "title": "DISULFIDE BRIDGE"
-        }, {
-            "type": "GLYCOSYLATION_SITE",
-            "display": "pin",
-            "color": "#6af34a",
-            "title": "GLYCOSYLATION"
-        }, {
-            "type": "NON_TERMINAL_RESIDUE",
-            "display": "pin",
-            "color": "#6af3fa",
-            "title": "NON-TERMINAL RESIDUE"
-        }, {
-            "type": "MODIFIED_MONOMER",
-            "display": "composite",
-            "color": "#458756",
-            "title": "MODIFIED MONOMER"
-        }, {
-            "type": "MODIFIED_MONOMER",
-            "display": "composite",
-            "color": "#458756",
-            "title": "MODIFIED MONOMER"
-        }, {
-            "type": "ZERO_OCCUPANCY_RESIDUE_XYZ",
-            "display": "composite",
-            "color": "#fca86a",
-            "title": "ZERO OCCUPANCY RESIDUE"
-        }, {
-            "type": "METAL_COORDINATION",
-            "display": "bond",
-            "color": "#aaaada",
-            "title": "METAL COORDINATION"
-        }, {
-            "type": "COVALENT_BOND",
-            "display": "bond",
-            "color": "#aadaaa",
-            "title": "COVALENT BOND"
-        }, {
-            "type": "MEMBRANE_SEGMENT",
-            "display": "block",
-            "color": "#8fc50f",
-            "title": "MEMBRANE SEGMENT",
-            "displayCooccurrence": true
-        }, {
-            "type": "CALCIUM_BINDING_REGION",
-            "display": "block",
-            "color": "#c58f0f",
-            "title": "CALCIUM BINDING"
-        }, {
-            "type": "PEPTIDE",
-            "display": "block",
-            "color": "#cf53df",
-            "title": "PEPTIDE"
-        }, {
-            "type": "STEREO_OUTLIER",
-            "display": "pin",
-            "color": "#cfdf53",
-            "title": "STEREO OUTLIER"
-        }, {
-            "type": "ASA_UNBOUND",
-            "display": "area",
-            "color": {
-                "thresholds": [50],
-                "colors": ["#8484FF", "#FF8484"]
-            },
-            "height": 45,
-            "title": "ASA UNBOUND"
-        }, {
-            "type": "ASA_BOUND",
-            "display": "area",
-            "color": {
-                "thresholds": [50],
-                "colors": ["#8484FF", "#FF8484"]
-            },
-            "height": 45,
-            "title": "ASA BOUND"
-        }, {
-            "type": "BURIAL_FRACTION",
-            "display": "block-area",
-            "color": {
-                "colors": "#8484FF",
-                "thresholds": [0.00001, 0.2, 0.4, 0.6, 0.8]
-            },
-            "title": "BURIAL FRACTION"
-        }, {
-            "type": "BURIED_RESIDUES",
-            "display": "block-area",
-            "color": {
-                "colors": "#44AA44",
-                "thresholds": [0.000001]
-            },
-            "title": "BURIED RESIDUES"
-        }, {
-            "type": "MA_QA_METRIC_LOCAL_TYPE_PLDDT",
-            "display": "block-area",
-            "color": {
-                "colors": ["#ff7d45", "#ffdb13", "#65cbf3", "#0053d6"],
-                "thresholds": [50, 70, 90]
-            },
-            "title": "pLDDT"
-        }]
-}