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    "nts_short": "UUUUUGUCGACACAUACAUC",
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      "bridging_nts": [
        3,
        2
      ],
      "stem_indices": [
        9,
        10
      ],
      "summary": "[2] 3 2 [A.127 A.182 A.131 A.179] 3 4",
      "num_nts": 9,
      "nts_short": "CAAGCGAAG",
      "nts_long": "///A/127,///A/128,///A/129,///A/130,///A/131,///A/179,///A/180,///A/181,///A/182",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "AAG",
          "nts_long": "///A/128,///A/129,///A/130"
        },
        {
          "index": 2,
          "num_nts": 2,
          "nts_short": "AA",
          "nts_long": "///A/180,///A/181"
        }
      ]
    },
    {
      "index": 6,
      "type": "asymmetric internal loop",
      "bridging_nts": [
        5,
        1
      ],
      "stem_indices": [
        11,
        12
      ],
      "summary": "[2] 5 1 [A.140 A.171 A.146 A.169] 4 8",
      "num_nts": 10,
      "nts_short": "UAAUUAGCAG",
      "nts_long": "///A/140,///A/141,///A/142,///A/143,///A/144,///A/145,///A/146,///A/169,///A/170,///A/171",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 5,
          "nts_short": "AAUUA",
          "nts_long": "///A/141,///A/142,///A/143,///A/144,///A/145"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///A/170"
        }
      ]
    },
    {
      "index": 7,
      "type": "asymmetric internal loop",
      "bridging_nts": [
        4,
        3
      ],
      "stem_indices": [
        7,
        8
      ],
      "summary": "[2] 4 3 [A.94 A.114 A.99 A.110] 2 4",
      "num_nts": 11,
      "nts_short": "CUAAAUACAAG",
      "nts_long": "///A/94,///A/95,///A/96,///A/97,///A/98,///A/99,///A/110,///A/111,///A/112,///A/113,///A/114",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "UAAA",
          "nts_long": "///A/95,///A/96,///A/97,///A/98"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "CAA",
          "nts_long": "///A/111,///A/112,///A/113"
        }
      ]
    },
    {
      "index": 8,
      "type": "symmetric internal loop",
      "bridging_nts": [
        4,
        4
      ],
      "stem_indices": [
        6,
        7
      ],
      "summary": "[2] 4 4 [A.88 A.120 A.93 A.115] 5 2",
      "num_nts": 12,
      "nts_short": "GGAAACGCAAUC",
      "nts_long": "///A/88,///A/89,///A/90,///A/91,///A/92,///A/93,///A/115,///A/116,///A/117,///A/118,///A/119,///A/120",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "GAAA",
          "nts_long": "///A/89,///A/90,///A/91,///A/92"
        },
        {
          "index": 2,
          "num_nts": 4,
          "nts_short": "CAAU",
          "nts_long": "///A/116,///A/117,///A/118,///A/119"
        }
      ]
    }
  ],
  "num_junctions": 3,
  "junctions": [
    {
      "index": 1,
      "type": "3-way junction",
      "bridging_nts": [
        4,
        1,
        3
      ],
      "stem_indices": [
        16,
        17,
        18
      ],
      "summary": "[3] 4 1 3 [A.245 A.278 A.250 A.259 A.261 A.274] 5 3 5",
      "num_nts": 14,
      "nts_short": "UCAAAGCAGCGGGA",
      "nts_long": "///A/245,///A/246,///A/247,///A/248,///A/249,///A/250,///A/259,///A/260,///A/261,///A/274,///A/275,///A/276,///A/277,///A/278",
      "num_stems": 3,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "CAAA",
          "nts_long": "///A/246,///A/247,///A/248,///A/249"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///A/260"
        },
        {
          "index": 3,
          "num_nts": 3,
          "nts_short": "GGG",
          "nts_long": "///A/275,///A/276,///A/277"
        }
      ]
    },
    {
      "index": 2,
      "type": "5-way junction",
      "bridging_nts": [
        2,
        1,
        1,
        2,
        0
      ],
      "stem_indices": [
        1,
        2,
        3,
        19,
        -5
      ],
      "summary": "[5] 2 1 1 2 0 [A.7 A.327 A.10 A.25 A.27 A.292 A.294 A.307 A.310 A.326] 7 3 5 4 1",
      "num_nts": 16,
      "nts_short": "GUGGCUAUUGCGUGCC",
      "nts_long": "///A/7,///A/8,///A/9,///A/10,///A/25,///A/26,///A/27,///A/292,///A/293,///A/294,///A/307,///A/308,///A/309,///A/310,///A/326,///A/327",
      "num_stems": 5,
      "bridges": [
        {
          "index": 1,
          "num_nts": 2,
          "nts_short": "UG",
          "nts_long": "///A/8,///A/9"
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///A/26"
        },
        {
          "index": 3,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///A/293"
        },
        {
          "index": 4,
          "num_nts": 2,
          "nts_short": "GU",
          "nts_long": "///A/308,///A/309"
        },
        {
          "index": 5,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 3,
      "type": "10-way junction",
      "bridging_nts": [
        14,
        3,
        0,
        6,
        3,
        4,
        0,
        5,
        2,
        5
      ],
      "stem_indices": [
        3,
        -2,
        5,
        14,
        13,
        5,
        6,
        9,
        13,
        16
      ],
      "summary": "[10] 14 3 0 6 3 4 0 5 2 5 [A.31 A.288 A.46 A.70 A.74 A.203 A.204 A.227 A.234 A.194 A.198 A.79 A.84 A.124 A.125 A.184 A.190 A.238 A.241 A.282] 5 1 6 6 5 6 5 3 5 5",
      "is_repeated": true,
      "num_nts": 62,
      "nts_short": "ACUUAAAUAAUUGAGCGGAUGCUAAAGAGAGCGACGCAAACUAGUGCAGAGCCAAUGAAAAU",
      "nts_long": "///A/31,///A/32,///A/33,///A/34,///A/35,///A/36,///A/37,///A/38,///A/39,///A/40,///A/41,///A/42,///A/43,///A/44,///A/45,///A/46,///A/70,///A/71,///A/72,///A/73,///A/74,///A/203,///A/204,///A/227,///A/228,///A/229,///A/230,///A/231,///A/232,///A/233,///A/234,///A/194,///A/195,///A/196,///A/197,///A/198,///A/79,///A/80,///A/81,///A/82,///A/83,///A/84,///A/124,///A/125,///A/184,///A/185,///A/186,///A/187,///A/188,///A/189,///A/190,///A/238,///A/239,///A/240,///A/241,///A/282,///A/283,///A/284,///A/285,///A/286,///A/287,///A/288",
      "num_stems": 10,
      "bridges": [
        {
          "index": 1,
          "num_nts": 14,
          "nts_short": "CUUAAAUAAUUGAG",
          "nts_long": "///A/32,///A/33,///A/34,///A/35,///A/36,///A/37,///A/38,///A/39,///A/40,///A/41,///A/42,///A/43,///A/44,///A/45"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "GAU",
          "nts_long": "///A/71,///A/72,///A/73"
        },
        {
          "index": 3,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 4,
          "num_nts": 6,
          "nts_short": "AAGAGA",
          "nts_long": "///A/228,///A/229,///A/230,///A/231,///A/232,///A/233"
        },
        {
          "index": 5,
          "num_nts": 3,
          "nts_short": "GAC",
          "nts_long": "///A/195,///A/196,///A/197"
        },
        {
          "index": 6,
          "num_nts": 4,
          "nts_short": "AAAC",
          "nts_long": "///A/80,///A/81,///A/82,///A/83"
        },
        {
          "index": 7,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 8,
          "num_nts": 5,
          "nts_short": "GCAGA",
          "nts_long": "///A/185,///A/186,///A/187,///A/188,///A/189"
        },
        {
          "index": 9,
          "num_nts": 2,
          "nts_short": "CA",
          "nts_long": "///A/239,///A/240"
        },
        {
          "index": 10,
          "num_nts": 5,
          "nts_short": "GAAAA",
          "nts_long": "///A/283,///A/284,///A/285,///A/286,///A/287"
        }
      ]
    }
  ],
  "num_ssSegments": 1,
  "ssSegments": [
    {
      "index": 1,
      "num_nts": 1,
      "nts_short": "A",
      "nts_long": "///A/334"
    }
  ],
  "num_kissingLoops": 1,
  "kissingLoops": [
    {
      "index": 1,
      "stem_index": -1,
      "is_isoCanonPair": true,
      "hairpin_indices": [
        1,
        9
      ]
    }
  ],
  "num_Aminors": 8,
  "Aminors": [
    {
      "index": 1,
      "type": "II",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/58 vs ///A/208,///A/223",
      "A_nt1": {
        "desc": "///A/58 vs ///A/208",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.13],N3-O2'(hydroxyl)[2.33]"
      },
      "A_nt2": {
        "desc": "///A/58 vs ///A/223",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 2,
      "type": "I",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/59 vs ///A/207,///A/224",
      "A_nt1": {
        "desc": "///A/59 vs ///A/207",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.99]"
      },
      "A_nt2": {
        "desc": "///A/59 vs ///A/224",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.93],N3-N2(amino)[3.05]"
      }
    },
    {
      "index": 3,
      "type": "II",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/81 vs ///A/127,///A/182",
      "A_nt1": {
        "desc": "///A/81 vs ///A/127",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-O2'(hydroxyl)[2.93]"
      },
      "A_nt2": {
        "desc": "///A/81 vs ///A/182",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 4,
      "type": "I",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/82 vs ///A/126,///A/183",
      "A_nt1": {
        "desc": "///A/82 vs ///A/126",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.78],O2'(hydroxyl)-O2(carbonyl)[3.04]"
      },
      "A_nt2": {
        "desc": "///A/82 vs ///A/183",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.74],N3-N2(amino)[2.91]"
      }
    },
    {
      "index": 5,
      "type": "X",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/128 vs ///A/79,///A/198",
      "A_nt1": {
        "desc": "///A/128 vs ///A/79",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[3.11],N3-O2'(hydroxyl)[2.50]"
      },
      "A_nt2": {
        "desc": "///A/128 vs ///A/198",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 6,
      "type": "X",
      "desc_short": "A vs A-A (--)",
      "desc_long": "///A/145 vs ///A/141,///A/170",
      "A_nt1": {
        "desc": "///A/145 vs ///A/141",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      },
      "A_nt2": {
        "desc": "///A/145 vs ///A/170",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.95]"
      }
    },
    {
      "index": 7,
      "type": "X",
      "desc_short": "A vs C-U (--)",
      "desc_long": "///A/228 vs ///A/47,///A/69",
      "A_nt1": {
        "desc": "///A/228 vs ///A/47",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "N3-O2'(hydroxyl)[2.51]"
      },
      "A_nt2": {
        "desc": "///A/228 vs ///A/69",
        "face_type": "+",
        "hbonds_num": 0,
        "hbonds_desc": ""
      }
    },
    {
      "index": 8,
      "type": "I",
      "desc_short": "A vs C-G (WC)",
      "desc_long": "///A/269 vs ///A/94,///A/114",
      "A_nt1": {
        "desc": "///A/269 vs ///A/94",
        "face_type": "-",
        "hbonds_num": 1,
        "hbonds_desc": "O2'(hydroxyl)-O2(carbonyl)[3.29]"
      },
      "A_nt2": {
        "desc": "///A/269 vs ///A/114",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.76],N3-N2(amino)[2.91]"
      }
    }
  ],
  "num_riboseZippers": 2,
  "riboseZippers": [
    {
      "index": 1,
      "num_nts": 4,
      "nts_short": "AACC",
      "nts_long": "///A/58,///A/59,///A/207,///A/208"
    },
    {
      "index": 2,
      "num_nts": 4,
      "nts_short": "AACC",
      "nts_long": "///A/81,///A/82,///A/126,///A/127"
    }
  ],
  "num_splayUnits": 23,
  "splayUnits": [
    {
      "index": 1,
      "num_nts": 2,
      "nts_short": "GU",
      "nts_long": "///A/7,///A/8"
    },
    {
      "index": 2,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///A/16,///A/17"
    },
    {
      "index": 3,
      "num_nts": 3,
      "nts_short": "GUA",
      "nts_long": "///A/18,///A/19,///A/20"
    },
    {
      "index": 4,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/21,///A/22"
    },
    {
      "index": 5,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/56,///A/57"
    },
    {
      "index": 6,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///A/73,///A/74"
    },
    {
      "index": 7,
      "num_nts": 2,
      "nts_short": "CU",
      "nts_long": "///A/83,///A/84"
    },
    {
      "index": 8,
      "num_nts": 2,
      "nts_short": "GC",
      "nts_long": "///A/103,///A/104"
    },
    {
      "index": 9,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///A/113,///A/114"
    },
    {
      "index": 10,
      "num_nts": 2,
      "nts_short": "UU",
      "nts_long": "///A/143,///A/144"
    },
    {
      "index": 11,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///A/157,///A/158"
    },
    {
      "index": 12,
      "num_nts": 4,
      "nts_short": "AGAG",
      "nts_long": "///A/187,///A/188,///A/189,///A/190"
    },
    {
      "index": 13,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///A/197,///A/198"
    },
    {
      "index": 14,
      "num_nts": 2,
      "nts_short": "AA",
      "nts_long": "///A/227,///A/228"
    },
    {
      "index": 15,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/230,///A/231"
    },
    {
      "index": 16,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/232,///A/233"
    },
    {
      "index": 17,
      "num_nts": 2,
      "nts_short": "AG",
      "nts_long": "///A/260,///A/261"
    },
    {
      "index": 18,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/266,///A/267"
    },
    {
      "index": 19,
      "num_nts": 2,
      "nts_short": "GG",
      "nts_long": "///A/276,///A/277"
    },
    {
      "index": 20,
      "num_nts": 2,
      "nts_short": "GA",
      "nts_long": "///A/283,///A/284"
    },
    {
      "index": 21,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///A/293,///A/294"
    },
    {
      "index": 22,
      "num_nts": 2,
      "nts_short": "UG",
      "nts_long": "///A/309,///A/310"
    },
    {
      "index": 23,
      "num_nts": 2,
      "nts_short": "UC",
      "nts_long": "///A/321,///A/322"
    }
  ],
  "pseudoknot_order": 1,
  "pseudoknot_nts": [
    {
      "index": 1,
      "symbols": "[]",
      "num_nts": 12,
      "nts_short": "GGACUCGAGUCC",
      "nts_long": "///A/18,///A/190,///A/191,///A/192,///A/193,///A/194,///A/234,///A/235,///A/236,///A/237,///A/238,///A/317"
    }
  ],
  "dbn": {
    "all_chains": {
      "num_nts": 334,
      "num_chars": 334,
      "bseq": "GGGGGUGUGGCGGAAUGGUAGACGCUACGGACUUAAAUAAUUGAGCCUUAGAGAAGAAAUUCUUUAAGUGGAUGCUCUCAAACUCAGGGAAACCUAAAUCUAGCUAUAGACAAGGCAAUCCUGAGCCAAGCCGAAGUAGUAAUUAGUAAGUUAACAACAGAUAACUUACAGCUAGUCGGAAGGUGCAGAGACUCGACGGGAGCUACCCUAACGUCAAGACGAGGGUAAAGAGAGAGUCCAAUUCUCAAAGCCAAUAGGCAGUAGCGAAAGCUGCGGGAGAAUGAAAAUCCGUUGACCUUAAACGGUCGUGUGGGUUCAAGUCCCUCCACCCCCA",
      "sstr": "(((((((..(((.....[....))).(((((..............(..(((((((....)))))).)..)...((((((....(((((....((....((((....))))...))....)))))(((...((((..((((.....((((((((.(....).)))))))).)))).))))..))).....[[[[[...))))))((((((..(((....)))))))))......]]]]]..(((((....(((....))).(((((....)))))...))))).....))))).((((......))))..(.(((..]....))).)))))))).",
      "form": "AAAA.A...AA...........AAAAAAAA...............AA.A.AAAA..A..AAAA.AAA......AAAAA.....AA.......AA.....AAA..A.AAAA...AA...A..AAAA.....AA.AA..AA.....AAAAAAAAA.........AAAA.A..AA...AAA.AAAA......AAAA....AAAAAAAAAAA.AAAAA..A.AA.AAAAA.A.....AAAA...AAAAAA...A......A...A.AAA....AA.AA...A..A......AAAAA.AAAAA.....A.AA..A.A.A........AAA.AAAAAA.-"
    },
    "chain_A": {
      "num_nts": 334,
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      "atom1_serNum": 6770,
      "atom2_serNum": 6851,
      "donAcc_type": "standard",
      "distance": 2.592,
      "atom1_id": "///A/315/N3",
      "atom2_id": "///A/319/N7",
      "atom_pair": "N:N",
      "residue_pair": "nt:nt"
    },
    {
      "index": 456,
      "atom1_serNum": 6772,
      "atom2_serNum": 6919,
      "donAcc_type": "standard",
      "distance": 2.975,
      "atom1_id": "///A/315/O4",
      "atom2_id": "///A/322/N4",
      "atom_pair": "O:N",
      "residue_pair": "nt:nt"
    },
    {
      "index": 457,
      "atom1_serNum": 6785,
      "atom2_serNum": 6829,
      "donAcc_type": "acceptable",
      "distance": 2.263,
      "atom1_id": "///A/316/O2'",
      "atom2_id": "///A/318/N7",
      "atom_pair": "O:N",
      "residue_pair": "nt:nt"
    },
    {
      "index": 458,
      "atom1_serNum": 6785,
      "atom2_serNum": 6832,
      "donAcc_type": "acceptable",
      "distance": 3.374,
      "atom1_id": "///A/316/O2'",
      "atom2_id": "///A/318/N6",
      "atom_pair": "O:N",
      "residue_pair": "nt:nt"
    },
    {
      "index": 459,
      "atom1_serNum": 6789,
      "atom2_serNum": 6839,
      "donAcc_type": "questionable",
      "distance": 2.869,
      "atom1_id": "///A/316/O2",
      "atom2_id": "///A/319/OP2",
      "atom_pair": "O:O",
      "residue_pair": "nt:nt"
    },
    {
      "index": 460,
      "atom1_serNum": 6790,
      "atom2_serNum": 6839,
      "donAcc_type": "standard",
      "distance": 3.394,
      "atom1_id": "///A/316/N3",
      "atom2_id": "///A/319/OP2",
      "atom_pair": "N:O",
      "residue_pair": "nt:nt"
    },
    {
      "index": 461,
      "atom1_serNum": 6847,
      "atom2_serNum": 6884,
      "donAcc_type": "acceptable",
      "distance": 2.250,
      "atom1_id": "///A/319/O2'",
      "atom2_id": "///A/321/OP2",
      "atom_pair": "O:O",
      "residue_pair": "nt:nt"
    },
    {
      "index": 462,
      "atom1_serNum": 6857,
      "atom2_serNum": 6892,
      "donAcc_type": "acceptable",
      "distance": 3.084,
      "atom1_id": "///A/319/N3",
      "atom2_id": "///A/321/O2'",
      "atom_pair": "N:O",
      "residue_pair": "nt:nt"
    },
    {
      "index": 463,
      "atom1_serNum": 6883,
      "atom2_serNum": 6939,
      "donAcc_type": "standard",
      "distance": 3.921,
      "atom1_id": "///A/321/OP1",
      "atom2_id": "///A/323/N4",
      "atom_pair": "O:N",
      "residue_pair": "nt:nt"
    },
    {
      "index": 464,
      "atom1_serNum": 6912,
      "atom2_serNum": 6928,
      "donAcc_type": "acceptable",
      "distance": 2.842,
      "atom1_id": "///A/322/O2'",
      "atom2_id": "///A/323/O4'",
      "atom_pair": "O:O",
      "residue_pair": "nt:nt"
    },
    {
      "index": 465,
      "atom1_serNum": 6932,
      "atom2_serNum": 6948,
      "donAcc_type": "acceptable",
      "distance": 3.023,
      "atom1_id": "///A/323/O2'",
      "atom2_id": "///A/324/O4'",
      "atom_pair": "O:O",
      "residue_pair": "nt:nt"
    }
  ],
  "refCoords": {
    "purine": [
      "   12 ATOMS,    12 BONDS",
      "    1 N      -2.2500   5.0000   0.4000",
      "    2 N      -2.2500  -0.5000   0.4000",
      "    3 N      -2.2500  -0.5000  -0.4000",
      "    4 N      -2.2500   5.0000  -0.4000",
      "    5 C       1.2500   5.0000   0.4000",
      "    6 C       1.2500  -0.5000   0.4000",
      "    7 C       1.2500  -0.5000  -0.4000",
      "    8 C       1.2500   5.0000  -0.4000",
      "    9 C      -2.2500   5.0000   0.4000",
      "   10 C      -2.2500  -0.5000   0.4000",
      "   11 C      -2.2500  -0.5000  -0.4000",
      "   12 C      -2.2500   5.0000  -0.4000",
      "    1     1     2",
      "    2     2     3",
      "    3     3     4",
      "    4     4     1",
      "    5     5     6",
      "    6     6     7",
      "    7     7     8",
      "    8     5     8",
      "    9     9     5",
      "   10    10     6",
      "   11    11     7",
      "   12    12     8"
    ],
    "pyrimidine": [
      "   12 ATOMS,    12 BONDS",
      "    1 N      -2.2500   5.0000   0.4000",
      "    2 N      -2.2500   1.0000   0.4000",
      "    3 N      -2.2500   1.0000  -0.4000",
      "    4 N      -2.2500   5.0000  -0.4000",
      "    5 C       1.2500   5.0000   0.4000",
      "    6 C       1.2500   1.0000   0.4000",
      "    7 C       1.2500   1.0000  -0.4000",
      "    8 C       1.2500   5.0000  -0.4000",
      "    9 C      -2.2500   5.0000   0.4000",
      "   10 C      -2.2500   1.0000   0.4000",
      "   11 C      -2.2500   1.0000  -0.4000",
      "   12 C      -2.2500   5.0000  -0.4000",
      "    1     1     2",
      "    2     2     3",
      "    3     3     4",
      "    4     4     1",
      "    5     5     6",
      "    6     6     7",
      "    7     7     8",
      "    8     5     8",
      "    9     9     5",
      "   10    10     6",
      "   11    11     7",
      "   12    12     8"
    ],
    "wc_pair": [
      "   12 ATOMS,    12 BONDS",
      "    1 N      -2.2500   5.0000   0.4000",
      "    2 N      -2.2500  -5.0000   0.4000",
      "    3 N      -2.2500  -5.0000  -0.4000",
      "    4 N      -2.2500   5.0000  -0.4000",
      "    5 C       2.2500   5.0000   0.4000",
      "    6 C       2.2500  -5.0000   0.4000",
      "    7 C       2.2500  -5.0000  -0.4000",
      "    8 C       2.2500   5.0000  -0.4000",
      "    9 C      -2.2500   5.0000   0.4000",
      "   10 C      -2.2500  -5.0000   0.4000",
      "   11 C      -2.2500  -5.0000  -0.4000",
      "   12 C      -2.2500   5.0000  -0.4000",
      "    1     1     2",
      "    2     2     3",
      "    3     3     4",
      "    4     4     1",
      "    5     5     6",
      "    6     6     7",
      "    7     7     8",
      "    8     5     8",
      "    9     9     5",
      "   10    10     6",
      "   11    11     7",
      "   12    12     8"
    ]
  },
  "metadata": {
    "license": "http://innovation.columbia.edu/technologies/CU20391",
    "url": "http://x3dna.org/",
    "url_alt": "http://home.x3dna.org/",
    "forum": "http://forum.x3dna.org/",
    "citation": "Lu et al. (2015). 'DSSR: an integrated software tool for dissecting the spatial structure of RNA.' Nucleic Acids Res., 43(21):e142 [doi:10.1093/nar/gkv716].",
    "str_id": "9k9g",
    "num_naChains": 1,
    "naChains": "A=334",
    "num_atoms": 7168,
    "num_waters": 0,
    "num_metals": 3,
    "metals_desc": "Mg=3",
    "num_notes": 52,
    "notes": [
      {
        "Aminors": "A-minor interactions (including types I and II)"
      },
      {
        "Cstem_index": "stem index of the 'Canonical' helix in k-turn"
      },
      {
        "Cstem_pair": "Cstem bp delineating the k-turn internal loop"
      },
      {
        "Dp": "perpendicular distance of the 3' P atom to the glycosidic bond"
      },
      {
        "GA_pair": "sheared G-A pair in k-turn"
      },
      {
        "HtypePknot": "H-type pseudoknot"
      },
      {
        "Kturn": "kink-turn (k-turn)"
      },
      {
        "LW": "Leontis-Westhof"
      },
      {
        "NCstem_index": "stem index of the 'Non-Canonical' helix in k-turn"
      },
      {
        "NCstem_pair": "NCstem bp delineating the k-turn internal loop"
      },
      {
        "Uturn": "U-turn of the UNR- or GNRA-type"
      },
      {
        "aa": "amino acid"
      },
      {
        "atom_pair": "symbols of the two atoms involved in an H-bond"
      },
      {
        "auxfiles": "auxiliary files"
      },
      {
        "glyco_bond": "conformation of base related to sugar (syn or anti)"
      },
      {
        "bb_type": "backbone conformation, BI or BII"
      },
      {
        "bending_angle": "angle between two helical axes"
      },
      {
        "bp": "base pair"
      },
      {
        "bseq": "base sequence in one-letter code"
      },
      {
        "bulge": "bulge loop"
      },
      {
        "coaxStacks": "coaxial stacking of stems within a helix"
      },
      {
        "dbn": "dot bracket notation"
      },
      {
        "desc": "description"
      },
      {
        "donAcc_type": "donor/acceptor type of the atom pair in an H-bond"
      },
      {
        "epsilon_zeta": "difference between epsilon and zeta torsion angles"
      },
      {
        "hairpin": "hairpin loop"
      },
      {
        "hbond": "hydrogen bond (H-bond)"
      },
      {
        "helix": "defined by base-stacking interactions, regardless of bp type and backbone connectivity"
      },
      {
        "id": "identifier"
      },
      {
        "iloop": "internal loop"
      },
      {
        "index": "serial number"
      },
      {
        "isoCanonPairs": "isolated canonical pairs"
      },
      {
        "junction": "(multi-branched) junction loop"
      },
      {
        "kissingLoop": "kissing loop"
      },
      {
        "multiplet": "3+ bases in a coplanar geometry"
      },
      {
        "na": "nucleic acid"
      },
      {
        "nonPair": "two nts not forming a pair, but with H-bonding/stacking interactions"
      },
      {
        "nonStack": "nucleotide not involved in stacking interactions"
      },
      {
        "nt": "nucleotide"
      },
      {
        "num": "number"
      },
      {
        "oArea": "overlap areas between two bases, including exocyclic atoms"
      },
      {
        "oArea_ring": "overlap areas between two bases, including only ring atoms"
      },
      {
        "phosContacts": "H-bonding and atom-capping interactions involving a phosphate"
      },
      {
        "residue_pair": "types of the two residues involved in an H-bond"
      },
      {
        "rmsd": "root-mean-squares deviation"
      },
      {
        "serNum": "serial number"
      },
      {
        "ssSegments": "single-stranded segments not involved in loops"
      },
      {
        "ssZp": "Z-coordinate of the 3' phosphorus atom with reference to the 5' base plane"
      },
      {
        "sstr": "secondary structure in dbn"
      },
      {
        "stem": "helix consisting of only canonical pairs, with a continuous backbone"
      },
      {
        "str_id": "structure identifier, derived from inpfile with extension removed"
      },
      {
        "vert_dist": "vertical distance from an atom to a base plane"
      }
    ],
    "num_auxfiles": 20,
    "auxfiles": [
      {
        "index": 1,
        "name": "dssr-pairs.pdb",
        "desc": "an ensemble of base pairs"
      },
      {
        "index": 2,
        "name": "dssr-multiplets.pdb",
        "desc": "an ensemble of multiplets"
      },
      {
        "index": 3,
        "name": "dssr-stems.pdb",
        "desc": "an ensemble of stems"
      },
      {
        "index": 4,
        "name": "dssr-helices.pdb",
        "desc": "an ensemble of helices (coaxial stacking)"
      },
      {
        "index": 5,
        "name": "dssr-hairpins.pdb",
        "desc": "an ensemble of hairpin loops"
      },
      {
        "index": 6,
        "name": "dssr-bulges.pdb",
        "desc": "an ensemble of bulges"
      },
      {
        "index": 7,
        "name": "dssr-iloops.pdb",
        "desc": "an ensemble of internal loops"
      },
      {
        "index": 8,
        "name": "dssr-junctions.pdb",
        "desc": "an ensemble of junctions (multi-branch)"
      },
      {
        "index": 9,
        "name": "dssr-2ndstrs.bpseq",
        "desc": "secondary structure in bpseq format"
      },
      {
        "index": 10,
        "name": "dssr-2ndstrs.ct",
        "desc": "secondary structure in connectivity table format"
      },
      {
        "index": 11,
        "name": "dssr-2ndstrs.dbn",
        "desc": "secondary structure in dot-bracket notation"
      },
      {
        "index": 12,
        "name": "dssr-torsions.txt",
        "desc": "backbone torsion angles and suite names"
      },
      {
        "index": 13,
        "name": "dssr-splays.pdb",
        "desc": "an ensemble of splayed-apart units"
      },
      {
        "index": 14,
        "name": "dssr-Aminors.pdb",
        "desc": "an ensemble of A minor motifs (types I and II)"
      },
      {
        "index": 15,
        "name": "dssr-stacks.pdb",
        "desc": "an ensemble of base stacks"
      },
      {
        "index": 16,
        "name": "dssr-atom2bases.pdb",
        "desc": "an ensemble of atom-base stacking interactions"
      },
      {
        "index": 17,
        "name": "dssr-rotmat.txt",
        "desc": "position vector and rotation matrix"
      },
      {
        "index": 18,
        "name": "dssr-viewV.pdb",
        "desc": "vertical view of the principal moment of inertia"
      },
      {
        "index": 19,
        "name": "dssr-viewH.pdb",
        "desc": "horizontal view of the principal moment of inertia"
      },
      {
        "index": 20,
        "name": "dssr-viewT.pdb",
        "desc": "top view of the principal moment of inertia"
      }
    ],
    "time_used": "999"
  }
}