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      "atom1_id": "///N/25/O",
      "atom2_id": "///N/29/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1315,
      "atom1_serNum": 12469,
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      "donAcc_type": "standard",
      "distance": 2.870,
      "atom1_id": "///N/26/O",
      "atom2_id": "///N/30/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1316,
      "atom1_serNum": 12479,
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      "donAcc_type": "standard",
      "distance": 2.866,
      "atom1_id": "///N/27/O",
      "atom2_id": "///N/31/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1317,
      "atom1_serNum": 12489,
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      "donAcc_type": "standard",
      "distance": 2.939,
      "atom1_id": "///N/28/O",
      "atom2_id": "///N/32/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1318,
      "atom1_serNum": 12499,
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      "donAcc_type": "standard",
      "distance": 2.897,
      "atom1_id": "///N/29/O",
      "atom2_id": "///N/33/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1319,
      "atom1_serNum": 12509,
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      "donAcc_type": "standard",
      "distance": 2.916,
      "atom1_id": "///N/30/O",
      "atom2_id": "///N/34/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1320,
      "atom1_serNum": 12519,
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      "donAcc_type": "standard",
      "distance": 2.862,
      "atom1_id": "///N/31/O",
      "atom2_id": "///N/35/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1321,
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      "donAcc_type": "standard",
      "distance": 3.015,
      "atom1_id": "///N/32/O",
      "atom2_id": "///N/36/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1322,
      "atom1_serNum": 12539,
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      "donAcc_type": "standard",
      "distance": 2.984,
      "atom1_id": "///N/33/O",
      "atom2_id": "///N/37/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1323,
      "atom1_serNum": 12549,
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      "donAcc_type": "standard",
      "distance": 2.994,
      "atom1_id": "///N/34/O",
      "atom2_id": "///N/38/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1324,
      "atom1_serNum": 12559,
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      "donAcc_type": "standard",
      "distance": 2.940,
      "atom1_id": "///N/35/O",
      "atom2_id": "///N/39/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1325,
      "atom1_serNum": 12569,
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      "donAcc_type": "standard",
      "distance": 2.881,
      "atom1_id": "///N/36/O",
      "atom2_id": "///N/40/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1326,
      "atom1_serNum": 12579,
      "atom2_serNum": 12613,
      "donAcc_type": "standard",
      "distance": 3.046,
      "atom1_id": "///N/37/O",
      "atom2_id": "///N/41/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1327,
      "atom1_serNum": 12589,
      "atom2_serNum": 12623,
      "donAcc_type": "standard",
      "distance": 2.944,
      "atom1_id": "///N/38/O",
      "atom2_id": "///N/42/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1328,
      "atom1_serNum": 12599,
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      "donAcc_type": "standard",
      "distance": 2.872,
      "atom1_id": "///N/39/O",
      "atom2_id": "///N/43/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1329,
      "atom1_serNum": 12609,
      "atom2_serNum": 12643,
      "donAcc_type": "standard",
      "distance": 2.941,
      "atom1_id": "///N/40/O",
      "atom2_id": "///N/44/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1330,
      "atom1_serNum": 12619,
      "atom2_serNum": 12653,
      "donAcc_type": "standard",
      "distance": 2.980,
      "atom1_id": "///N/41/O",
      "atom2_id": "///N/45/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1331,
      "atom1_serNum": 12629,
      "atom2_serNum": 12663,
      "donAcc_type": "standard",
      "distance": 2.927,
      "atom1_id": "///N/42/O",
      "atom2_id": "///N/46/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1332,
      "atom1_serNum": 12639,
      "atom2_serNum": 12673,
      "donAcc_type": "standard",
      "distance": 2.844,
      "atom1_id": "///N/43/O",
      "atom2_id": "///N/47/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1333,
      "atom1_serNum": 12649,
      "atom2_serNum": 12683,
      "donAcc_type": "standard",
      "distance": 3.068,
      "atom1_id": "///N/44/O",
      "atom2_id": "///N/48/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1334,
      "atom1_serNum": 12659,
      "atom2_serNum": 12693,
      "donAcc_type": "standard",
      "distance": 3.182,
      "atom1_id": "///N/45/O",
      "atom2_id": "///N/49/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1335,
      "atom1_serNum": 12669,
      "atom2_serNum": 12693,
      "donAcc_type": "standard",
      "distance": 2.907,
      "atom1_id": "///N/46/O",
      "atom2_id": "///N/49/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1336,
      "atom1_serNum": 12669,
      "atom2_serNum": 12703,
      "donAcc_type": "standard",
      "distance": 3.491,
      "atom1_id": "///N/46/O",
      "atom2_id": "///N/50/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1337,
      "atom1_serNum": 12679,
      "atom2_serNum": 12703,
      "donAcc_type": "standard",
      "distance": 3.218,
      "atom1_id": "///N/47/O",
      "atom2_id": "///N/50/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1338,
      "atom1_serNum": 12709,
      "atom2_serNum": 12737,
      "donAcc_type": "standard",
      "distance": 2.996,
      "atom1_id": "///N/50/O",
      "atom2_id": "///N/53/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1339,
      "atom1_serNum": 12709,
      "atom2_serNum": 12747,
      "donAcc_type": "standard",
      "distance": 3.172,
      "atom1_id": "///N/50/O",
      "atom2_id": "///N/54/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1340,
      "atom1_serNum": 12743,
      "atom2_serNum": 12765,
      "donAcc_type": "standard",
      "distance": 2.959,
      "atom1_id": "///N/53/O",
      "atom2_id": "///N/56/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1341,
      "atom1_serNum": 12801,
      "atom2_serNum": 12835,
      "donAcc_type": "standard",
      "distance": 2.783,
      "atom1_id": "///N/59/O",
      "atom2_id": "///N/63/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1342,
      "atom1_serNum": 12811,
      "atom2_serNum": 12845,
      "donAcc_type": "standard",
      "distance": 2.892,
      "atom1_id": "///N/60/O",
      "atom2_id": "///N/64/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1343,
      "atom1_serNum": 12821,
      "atom2_serNum": 12855,
      "donAcc_type": "standard",
      "distance": 2.826,
      "atom1_id": "///N/61/O",
      "atom2_id": "///N/65/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1344,
      "atom1_serNum": 12831,
      "atom2_serNum": 12865,
      "donAcc_type": "standard",
      "distance": 2.805,
      "atom1_id": "///N/62/O",
      "atom2_id": "///N/66/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1345,
      "atom1_serNum": 12841,
      "atom2_serNum": 12875,
      "donAcc_type": "standard",
      "distance": 2.869,
      "atom1_id": "///N/63/O",
      "atom2_id": "///N/67/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1346,
      "atom1_serNum": 12851,
      "atom2_serNum": 12885,
      "donAcc_type": "standard",
      "distance": 2.850,
      "atom1_id": "///N/64/O",
      "atom2_id": "///N/68/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1347,
      "atom1_serNum": 12861,
      "atom2_serNum": 12895,
      "donAcc_type": "standard",
      "distance": 2.853,
      "atom1_id": "///N/65/O",
      "atom2_id": "///N/69/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1348,
      "atom1_serNum": 12871,
      "atom2_serNum": 12905,
      "donAcc_type": "standard",
      "distance": 2.769,
      "atom1_id": "///N/66/O",
      "atom2_id": "///N/70/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1349,
      "atom1_serNum": 12881,
      "atom2_serNum": 12915,
      "donAcc_type": "standard",
      "distance": 2.885,
      "atom1_id": "///N/67/O",
      "atom2_id": "///N/71/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1350,
      "atom1_serNum": 12891,
      "atom2_serNum": 12925,
      "donAcc_type": "standard",
      "distance": 2.951,
      "atom1_id": "///N/68/O",
      "atom2_id": "///N/72/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    },
    {
      "index": 1351,
      "atom1_serNum": 12901,
      "atom2_serNum": 12935,
      "donAcc_type": "standard",
      "distance": 2.841,
      "atom1_id": "///N/69/O",
      "atom2_id": "///N/73/N",
      "atom_pair": "O:N",
      "residue_pair": "aa:aa"
    }
  ],
  "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": "8ott",
    "num_aaChains": 10,
    "aaChains": "A=94,B=82,C=109,D=93,E=95,F=81,G=108,H=93,M=53,N=51",
    "num_naChains": 2,
    "naChains": "I=144,J=144",
    "num_atoms": 12448,
    "num_waters": 0,
    "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": 11,
    "auxfiles": [
      {
        "index": 1,
        "name": "dssr-pairs.pdb",
        "desc": "an ensemble of base pairs"
      },
      {
        "index": 2,
        "name": "dssr-stems.pdb",
        "desc": "an ensemble of stems"
      },
      {
        "index": 3,
        "name": "dssr-helices.pdb",
        "desc": "an ensemble of helices (coaxial stacking)"
      },
      {
        "index": 4,
        "name": "dssr-2ndstrs.bpseq",
        "desc": "secondary structure in bpseq format"
      },
      {
        "index": 5,
        "name": "dssr-2ndstrs.ct",
        "desc": "secondary structure in connectivity table format"
      },
      {
        "index": 6,
        "name": "dssr-2ndstrs.dbn",
        "desc": "secondary structure in dot-bracket notation"
      },
      {
        "index": 7,
        "name": "dssr-torsions.txt",
        "desc": "backbone torsion angles and suite names"
      },
      {
        "index": 8,
        "name": "dssr-rotmat.txt",
        "desc": "position vector and rotation matrix"
      },
      {
        "index": 9,
        "name": "dssr-viewV.pdb",
        "desc": "vertical view of the principal moment of inertia"
      },
      {
        "index": 10,
        "name": "dssr-viewH.pdb",
        "desc": "horizontal view of the principal moment of inertia"
      },
      {
        "index": 11,
        "name": "dssr-viewT.pdb",
        "desc": "top view of the principal moment of inertia"
      }
    ],
    "time_used": "999"
  }
}