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      "bridges": [
        {
          "index": 1,
          "num_nts": 11,
          "nts_short": "AAUCCGCUCUA",
          "nts_long": "///B/43,///B/44,///B/45,///B/46,///B/47,///B/48,///B/49,///B/50,///B/51,///B/52,///B/53"
        }
      ]
    },
    {
      "index": 8,
      "type": "hairpin loop",
      "bridging_nts": [
        4
      ],
      "stem_indices": [
        14
      ],
      "summary": "[1] 4 [B.79 B.84] 4",
      "num_nts": 6,
      "nts_short": "GGUAAC",
      "nts_long": "///B/79,///B/80,///B/81,///B/82,///B/83,///B/84",
      "num_stems": 1,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "GUAA",
          "nts_long": "///B/80,///B/81,///B/82,///B/83"
        }
      ]
    }
  ],
  "num_bulges": 1,
  "bulges": [
    {
      "index": 1,
      "type": "bulge",
      "bridging_nts": [
        0,
        1
      ],
      "stem_indices": [
        11,
        -1
      ],
      "summary": "[2] 0 1 [B.28 B.46 B.29 B.44] 5 1",
      "num_nts": 5,
      "nts_short": "GUAUC",
      "nts_long": "///B/28,///B/29,///B/44,///B/45,///B/46",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/45"
        }
      ]
    }
  ],
  "num_iloops": 2,
  "iloops": [
    {
      "index": 1,
      "type": "symmetric internal loop",
      "bridging_nts": [
        3,
        3
      ],
      "stem_indices": [
        6,
        7
      ],
      "summary": "[2] 3 3 [A.72 A.91 A.76 A.87] 6 3",
      "num_nts": 10,
      "nts_short": "UCGAGCGACA",
      "nts_long": "///A/72,///A/73,///A/74,///A/75,///A/76,///A/87,///A/88,///A/89,///A/90,///A/91",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "CGA",
          "nts_long": "///A/73,///A/74,///A/75"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "GAC",
          "nts_long": "///A/88,///A/89,///A/90"
        }
      ]
    },
    {
      "index": 2,
      "type": "symmetric internal loop",
      "bridging_nts": [
        3,
        3
      ],
      "stem_indices": [
        13,
        14
      ],
      "summary": "[2] 3 3 [B.72 B.91 B.76 B.87] 6 4",
      "num_nts": 10,
      "nts_short": "UCGAGCGACA",
      "nts_long": "///B/72,///B/73,///B/74,///B/75,///B/76,///B/87,///B/88,///B/89,///B/90,///B/91",
      "num_stems": 2,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "CGA",
          "nts_long": "///B/73,///B/74,///B/75"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "GAC",
          "nts_long": "///B/88,///B/89,///B/90"
        }
      ]
    }
  ],
  "num_junctions": 6,
  "junctions": [
    {
      "index": 1,
      "type": "3-way junction",
      "bridging_nts": [
        0,
        3,
        0
      ],
      "stem_indices": [
        2,
        3,
        5
      ],
      "summary": "[3] 0 3 0 [A.15 A.59 A.16 A.34 A.38 A.58] 2 4 5",
      "num_nts": 9,
      "nts_short": "CGUGUACGG",
      "nts_long": "///A/15,///A/16,///A/34,///A/35,///A/36,///A/37,///A/38,///A/58,///A/59",
      "num_stems": 3,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "GUA",
          "nts_long": "///A/35,///A/36,///A/37"
        },
        {
          "index": 3,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 2,
      "type": "3-way junction",
      "bridging_nts": [
        0,
        3,
        0
      ],
      "stem_indices": [
        9,
        10,
        12
      ],
      "summary": "[3] 0 3 0 [B.15 B.59 B.16 B.34 B.38 B.58] 2 4 5",
      "num_nts": 9,
      "nts_short": "CGUGUACGG",
      "nts_long": "///B/15,///B/16,///B/34,///B/35,///B/36,///B/37,///B/38,///B/58,///B/59",
      "num_stems": 3,
      "bridges": [
        {
          "index": 1,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "GUA",
          "nts_long": "///B/35,///B/36,///B/37"
        },
        {
          "index": 3,
          "num_nts": 0,
          "nts_short": "",
          "nts_long": ""
        }
      ]
    },
    {
      "index": 3,
      "type": "3-way junction",
      "bridging_nts": [
        3,
        6,
        1
      ],
      "stem_indices": [
        1,
        2,
        6
      ],
      "summary": "[3] 3 6 1 [A.10 A.98 A.14 A.60 A.67 A.96] 8 2 6",
      "num_nts": 16,
      "nts_short": "CUAAGCCGAAUCCGUG",
      "nts_long": "///A/10,///A/11,///A/12,///A/13,///A/14,///A/60,///A/61,///A/62,///A/63,///A/64,///A/65,///A/66,///A/67,///A/96,///A/97,///A/98",
      "num_stems": 3,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "UAA",
          "nts_long": "///A/11,///A/12,///A/13"
        },
        {
          "index": 2,
          "num_nts": 6,
          "nts_short": "CGAAUC",
          "nts_long": "///A/61,///A/62,///A/63,///A/64,///A/65,///A/66"
        },
        {
          "index": 3,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///A/97"
        }
      ]
    },
    {
      "index": 4,
      "type": "3-way junction",
      "bridging_nts": [
        3,
        6,
        1
      ],
      "stem_indices": [
        8,
        9,
        13
      ],
      "summary": "[3] 3 6 1 [B.10 B.98 B.14 B.60 B.67 B.96] 8 2 6",
      "num_nts": 16,
      "nts_short": "CUAAGCCGAAUCCGUG",
      "nts_long": "///B/10,///B/11,///B/12,///B/13,///B/14,///B/60,///B/61,///B/62,///B/63,///B/64,///B/65,///B/66,///B/67,///B/96,///B/97,///B/98",
      "num_stems": 3,
      "bridges": [
        {
          "index": 1,
          "num_nts": 3,
          "nts_short": "UAA",
          "nts_long": "///B/11,///B/12,///B/13"
        },
        {
          "index": 2,
          "num_nts": 6,
          "nts_short": "CGAAUC",
          "nts_long": "///B/61,///B/62,///B/63,///B/64,///B/65,///B/66"
        },
        {
          "index": 3,
          "num_nts": 1,
          "nts_short": "U",
          "nts_long": "///B/97"
        }
      ]
    },
    {
      "index": 5,
      "type": "4-way junction",
      "bridging_nts": [
        4,
        3,
        1,
        1
      ],
      "stem_indices": [
        10,
        11,
        12,
        -1
      ],
      "summary": "[4] 4 3 1 1 [B.19 B.31 B.24 B.50 B.54 B.42 B.44 B.29] 4 5 5 1",
      "num_nts": 17,
      "nts_short": "GAGGUAUCUAGCAAUGC",
      "nts_long": "///B/19,///B/20,///B/21,///B/22,///B/23,///B/24,///B/50,///B/51,///B/52,///B/53,///B/54,///B/42,///B/43,///B/44,///B/29,///B/30,///B/31",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "AGGU",
          "nts_long": "///B/20,///B/21,///B/22,///B/23"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "CUA",
          "nts_long": "///B/51,///B/52,///B/53"
        },
        {
          "index": 3,
          "num_nts": 1,
          "nts_short": "A",
          "nts_long": "///B/43"
        },
        {
          "index": 4,
          "num_nts": 1,
          "nts_short": "G",
          "nts_long": "///B/30"
        }
      ]
    },
    {
      "index": 6,
      "type": "4-way junction",
      "bridging_nts": [
        4,
        3,
        3,
        2
      ],
      "stem_indices": [
        3,
        4,
        5,
        4
      ],
      "summary": "[4] 4 3 3 2 [A.19 A.31 A.24 A.50 A.54 A.42 A.46 A.28] 4 5 5 5",
      "is_repeated": true,
      "num_nts": 20,
      "nts_short": "GAGGUAUCUAGCAAUCGUGC",
      "nts_long": "///A/19,///A/20,///A/21,///A/22,///A/23,///A/24,///A/50,///A/51,///A/52,///A/53,///A/54,///A/42,///A/43,///A/44,///A/45,///A/46,///A/28,///A/29,///A/30,///A/31",
      "num_stems": 4,
      "bridges": [
        {
          "index": 1,
          "num_nts": 4,
          "nts_short": "AGGU",
          "nts_long": "///A/20,///A/21,///A/22,///A/23"
        },
        {
          "index": 2,
          "num_nts": 3,
          "nts_short": "CUA",
          "nts_long": "///A/51,///A/52,///A/53"
        },
        {
          "index": 3,
          "num_nts": 3,
          "nts_short": "AAU",
          "nts_long": "///A/43,///A/44,///A/45"
        },
        {
          "index": 4,
          "num_nts": 2,
          "nts_short": "UG",
          "nts_long": "///A/29,///A/30"
        }
      ]
    }
  ],
  "num_kissingLoops": 3,
  "kissingLoops": [
    {
      "index": 1,
      "stem_index": -1,
      "is_isoCanonPair": true,
      "hairpin_indices": [
        5,
        7
      ]
    },
    {
      "index": 2,
      "stem_index": 4,
      "hairpin_indices": [
        1,
        3
      ]
    },
    {
      "index": 3,
      "stem_index": 11,
      "hairpin_indices": [
        5,
        7
      ]
    }
  ],
  "num_Aminors": 4,
  "Aminors": [
    {
      "index": 1,
      "type": "I",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///A/43 vs ///A/28,///A/46",
      "A_nt1": {
        "desc": "///A/43 vs ///A/28",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.68],N3-N2(amino)[3.16]"
      },
      "A_nt2": {
        "desc": "///A/43 vs ///A/46",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.67],O2'(hydroxyl)-O2(carbonyl)[2.34]"
      }
    },
    {
      "index": 2,
      "type": "I",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///A/53 vs ///A/25,///A/49",
      "A_nt1": {
        "desc": "///A/53 vs ///A/25",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.43],N3-N2(amino)[3.07]"
      },
      "A_nt2": {
        "desc": "///A/53 vs ///A/49",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.79],O2'(hydroxyl)-O2(carbonyl)[2.68]"
      }
    },
    {
      "index": 3,
      "type": "I",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/43 vs ///B/28,///B/46",
      "A_nt1": {
        "desc": "///B/43 vs ///B/28",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.72],N3-N2(amino)[3.08]"
      },
      "A_nt2": {
        "desc": "///B/43 vs ///B/46",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.65],O2'(hydroxyl)-O2(carbonyl)[2.67]"
      }
    },
    {
      "index": 4,
      "type": "I",
      "desc_short": "A vs G-C (WC)",
      "desc_long": "///B/53 vs ///B/25,///B/49",
      "A_nt1": {
        "desc": "///B/53 vs ///B/25",
        "face_type": "+",
        "hbonds_num": 2,
        "hbonds_desc": "N1-O2'(hydroxyl)[2.44],N3-N2(amino)[3.14]"
      },
      "A_nt2": {
        "desc": "///B/53 vs ///B/49",
        "face_type": "-",
        "hbonds_num": 2,
        "hbonds_desc": "O2'(hydroxyl)-O2'(hydroxyl)[2.80],O2'(hydroxyl)-O2(carbonyl)[2.83]"
      }
    }
  ],
  "num_riboseZippers": 4,
  "riboseZippers": [
    {
      "index": 1,
      "num_nts": 4,
      "nts_short": "CACC",
      "nts_long": "///A/42,///A/43,///A/46,///A/47"
    },
    {
      "index": 2,
      "num_nts": 4,
      "nts_short": "GCAG",
      "nts_long": "///A/48,///A/49,///A/53,///A/54"
    },
    {
      "index": 3,
      "num_nts": 4,
      "nts_short": "CACC",
      "nts_long": "///B/42,///B/43,///B/46,///B/47"
    },
    {
      "index": 4,
      "num_nts": 4,
      "nts_short": "GCAG",
      "nts_long": "///B/48,///B/49,///B/53,///B/54"
    }
  ],
  "num_splayUnits": 10,
  "splayUnits": [
    {
      "index": 1,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///A/15,///A/16"
    },
    {
      "index": 2,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///A/37,///A/38"
    },
    {
      "index": 3,
      "num_nts": 3,
      "nts_short": "AUC",
      "nts_long": "///A/44,///A/45,///A/46"
    },
    {
      "index": 4,
      "num_nts": 4,
      "nts_short": "CUAG",
      "nts_long": "///A/51,///A/52,///A/53,///A/54"
    },
    {
      "index": 5,
      "num_nts": 2,
      "nts_short": "AU",
      "nts_long": "///A/64,///A/65"
    },
    {
      "index": 6,
      "num_nts": 2,
      "nts_short": "CG",
      "nts_long": "///B/15,///B/16"
    },
    {
      "index": 7,
      "num_nts": 2,
      "nts_short": "AC",
      "nts_long": "///B/37,///B/38"
    },
    {
      "index": 8,
      "num_nts": 3,
      "nts_short": "AUC",
      "nts_long": "///B/44,///B/45,///B/46"
    },
    {
      "index": 9,
      "num_nts": 4,
      "nts_short": "CUAG",
      "nts_long": "///B/51,///B/52,///B/53,///B/54"
    },
    {
      "index": 10,
      "num_nts": 2,
      "nts_short": "AU",
      "nts_long": "///B/64,///B/65"
    }
  ],
  "num_HtypePknots": 3,
  "HtypePknots": [
    {
      "index": 1,
      "desc": "stem#3(hairpin#1) vs stem#4(hairpin#2) L1 groove=MAJOR nts=4 AGGU ///A/20,///A/21,///A/22,///A/23"
    },
    {
      "index": 2,
      "desc": "stem#3(hairpin#1) vs stem#4(hairpin#2) L2 groove=----- nts=2 UG ///A/29,///A/30"
    },
    {
      "index": 3,
      "desc": "stem#3(hairpin#1) vs stem#4(hairpin#2) L3 groove=MAJOR nts=11 GUACCUGCAAU ///A/35,///A/36,///A/37,///A/38,///A/39,///A/40,///A/41,///A/42,///A/43,///A/44,///A/45"
    }
  ],
  "pseudoknot_order": 1,
  "pseudoknot_nts": [
    {
      "index": 1,
      "symbols": "[]",
      "num_nts": 22,
      "nts_short": "AGCGGCCGCUAGCGGUACCGCU",
      "nts_long": "///A/24,///A/25,///A/26,///A/27,///A/28,///A/46,///A/47,///A/48,///A/49,///A/50,///B/24,///B/25,///B/26,///B/27,///B/28,///B/29,///B/44,///B/46,///B/47,///B/48,///B/49,///B/50"
    }
  ],
  "dbn": {
    "all_chains": {
      "num_nts": 206,
      "num_chars": 207,
      "bseq": "gGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUc&gGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUc",
      "bseqUP": "GGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUC&GGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUC",
      "sstr": "((((((((...((((((....[[[[[..))))...(((((...]]]]]...)))))))......((((((...(((......)))...)))))).))))))))&((((((((...((((((....[[[[[[.))))...(((((.].]]]]]...)))))))......((((((...((((....))))...)))))).))))))))",
      "form": "AA.AAAAA...A.AAAA.A..AAAAA.AAAA....AAAA....AA.A....AAAA.AA......AAAAA....AAAA..B..A.....AAAAAA.AAAA.AA-&AAA.AAAA...A.AAAA.AA.AAAA..AAAA....AAA.....AA.A....AAAAAAA......AAAAA....AAAA....AAA....AAAAAA.A.A.AAA-"
    },
    "chain_A": {
      "num_nts": 103,
      "num_chars": 103,
      "bseq": "gGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUc",
      "bseqUP": "GGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUC",
      "sstr": "((((((((...((((((....[[[[[..))))...(((((...]]]]]...)))))))......((((((...(((......)))...)))))).))))))))",
      "form": "AA.AAAAA...A.AAAA.A..AAAAA.AAAA....AAAA....AA.A....AAAA.AA......AAAAA....AAAA..B..A.....AAAAAA.AAAA.AA-"
    },
    "chain_B": {
      "num_nts": 103,
      "num_chars": 103,
      "bseq": "gGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUc",
      "bseqUP": "GGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUC",
      "sstr": "((((((((...((((((....[[[[[[.))))...(((((.].]]]]]...)))))))......((((((...((((....))))...)))))).))))))))",
      "form": "AAA.AAAA...A.AAAA.AA.AAAA..AAAA....AAA.....AA.A....AAAAAAA......AAAAA....AAAA....AAA....AAAAAA.A.A.AAA-"
    }
  },
  "chains": {
    "chain_A": {
      "num_nts": 103,
      "bseq": "gGCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUGGUAACAUCGACAGAAGGUGCACGGUc",
      "sstr": "((((((((...((((((....[[[[[..))))...(((((...]]]]]...)))))))......((((((...(((......)))...)))))).))))))))",
      "form": "AA.AAAAA...A.AAAA.A..AAAAA.AAAA....AAAA....AA.A....AAAA.AA......AAAAA....AAAA..B..A.....AAAAAA.AAAA.AA-",
      "helical_rise": 0.068,
      "helical_rise_std": 3.165,
      "helical_axis": [
        0.441,
        0.360,
        -0.822
      ],
      "point1": [
        -34.773,
        -39.693,
        2.127
      ],
      "point2": [
        -31.452,
        -36.983,
        -4.069
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      "    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": "4wfm",
    "num_naChains": 2,
    "naChains": "A=103,B=103",
    "num_atoms": 4600,
    "num_waters": 4,
    "num_metals": 24,
    "metals_desc": "Mg=1,Co=23",
    "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"
  }
}