Obtain An SSE Sequence Vector From A PDB Object

Usage

pdb2sse(pdb, verbose = TRUE)

Arguments

pdb
an object of class pdb as obtained from function read.pdb.
verbose
logical, if TRUE warnings and other messages will be printed.

Value

a character vector indicating SSE elements for each amino acide residue. The 'names' attribute of the vector contains 'resno', 'chain', 'insert', and 'SSE segment number', seperated by the character '_'.

Description

Results are similar to that returned by stride(pdb)$sse and dssp(pdb)$sse.

Details

call for its effects.

Examples


   #PDB server connection required - testing excluded

   pdb <- read.pdb("1a7l")



  Note: Accessing on-line PDB file



   sse <- pdb2sse(pdb)
   sse



     4_A_NA      5_A_NA      6_A_NA    7_A_NA_1    8_A_NA_1    9_A_NA_1 
        " "         " "         " "         "E"         "E"         "E" 
  10_A_NA_1     11_A_NA     12_A_NA     13_A_NA     14_A_NA     15_A_NA 
        "E"         " "         " "         " "         " "         " " 
    16_A_NA   17_A_NA_1   18_A_NA_1   19_A_NA_1   20_A_NA_1   21_A_NA_1 
        " "         "H"         "H"         "H"         "H"         "H" 
  22_A_NA_1   23_A_NA_1   24_A_NA_1   25_A_NA_1   26_A_NA_1   27_A_NA_1 
        "H"         "H"         "H"         "H"         "H"         "H" 
  28_A_NA_1   29_A_NA_1   30_A_NA_1   31_A_NA_1     32_A_NA     33_A_NA 
        "H"         "H"         "H"         "H"         " "         " " 
    34_A_NA   35_A_NA_2   36_A_NA_2   37_A_NA_2   38_A_NA_2     39_A_NA 
        " "         "E"         "E"         "E"         "E"         " " 
    40_A_NA     41_A_NA     42_A_NA   43_A_NA_2   44_A_NA_2   45_A_NA_2 
        " "         " "         " "         "H"         "H"         "H" 
  46_A_NA_2   47_A_NA_2   48_A_NA_2   49_A_NA_2   50_A_NA_2   51_A_NA_2 
        "H"         "H"         "H"         "H"         "H"         "H" 
  52_A_NA_2   53_A_NA_2     54_A_NA     55_A_NA     56_A_NA     57_A_NA 
        "H"         "H"         " "         " "         " "         " " 
    58_A_NA   59_A_NA_3   60_A_NA_3   61_A_NA_3   62_A_NA_3   63_A_NA_3 
        " "         "E"         "E"         "E"         "E"         "E" 
  64_A_NA_3   65_A_NA_3   66_A_NA_3   67_A_NA_3   68_A_NA_3   69_A_NA_3 
        "H"         "H"         "H"         "H"         "H"         "H" 
  70_A_NA_3   71_A_NA_3   72_A_NA_3     73_A_NA     74_A_NA     75_A_NA 
        "H"         "H"         "H"         " "         " "         " " 
    76_A_NA     77_A_NA     78_A_NA     79_A_NA     80_A_NA     81_A_NA 
        " "         " "         " "         " "         " "         " " 
    82_A_NA   83_A_NA_4   84_A_NA_4   85_A_NA_4   86_A_NA_4   87_A_NA_4 
        " "         "H"         "H"         "H"         "H"         "H" 
  88_A_NA_4     89_A_NA     90_A_NA   91_A_NA_5   92_A_NA_5   93_A_NA_5 
        "H"         " "         " "         "H"         "H"         "H" 
  94_A_NA_5   95_A_NA_5   96_A_NA_5   97_A_NA_5     98_A_NA     99_A_NA 
        "H"         "H"         "H"         "H"         " "         " " 
   100_A_NA    101_A_NA    102_A_NA    103_A_NA    104_A_NA    105_A_NA 
        " "         " "         " "         " "         " "         " " 
 106_A_NA_5  107_A_NA_5  108_A_NA_5  109_A_NA_5  110_A_NA_5  111_A_NA_5 
        "E"         "E"         "E"         "E"         "E"         "E" 
   112_A_NA    113_A_NA  114_A_NA_7  115_A_NA_7  116_A_NA_7  117_A_NA_7 
        " "         " "         "E"         "E"         "E"         "E" 
 118_A_NA_7    119_A_NA    120_A_NA    121_A_NA    122_A_NA    123_A_NA 
        "E"         " "         " "         " "         " "         " " 
   124_A_NA    125_A_NA    126_A_NA    127_A_NA    128_A_NA    129_A_NA 
        " "         " "         " "         " "         " "         " " 
   130_A_NA    131_A_NA  132_A_NA_6  133_A_NA_6  134_A_NA_6  135_A_NA_6 
        " "         " "         "H"         "H"         "H"         "H" 
 136_A_NA_6  137_A_NA_6  138_A_NA_6  139_A_NA_6  140_A_NA_6  141_A_NA_6 
        "H"         "H"         "H"         "H"         "H"         "H" 
 142_A_NA_6    143_A_NA    144_A_NA    145_A_NA    146_A_NA    147_A_NA 
        "H"         " "         " "         " "         " "         " " 
   148_A_NA    149_A_NA    150_A_NA    151_A_NA    152_A_NA    153_A_NA 
        " "         " "         " "         " "         " "         " " 
 154_A_NA_7  155_A_NA_7  156_A_NA_7  157_A_NA_7  158_A_NA_7  159_A_NA_7 
        "H"         "H"         "H"         "H"         "H"         "H" 
 160_A_NA_7  161_A_NA_7  162_A_NA_7  163_A_NA_7    164_A_NA    165_A_NA 
        "H"         "H"         "H"         "H"         " "         " " 
   166_A_NA    167_A_NA    168_A_NA    169_A_NA    170_A_NA    171_A_NA 
        " "         " "         " "         " "         " "         " " 
   172_A_NA    173_A_NA    174_A_NA    175_A_NA    176_A_NA    177_A_NA 
        " "         " "         " "         " "         " "         " " 
   178_A_NA    179_A_NA    180_A_NA    181_A_NA    182_A_NA    183_A_NA 
        " "         " "         " "         " "         " "         " " 
   184_A_NA    185_A_NA  186_A_NA_8  187_A_NA_8  188_A_NA_8  189_A_NA_8 
        " "         " "         "H"         "H"         "H"         "H" 
 190_A_NA_8  191_A_NA_8  192_A_NA_8  193_A_NA_8  194_A_NA_8  195_A_NA_8 
        "H"         "H"         "H"         "H"         "H"         "H" 
 196_A_NA_8  197_A_NA_8  198_A_NA_8  199_A_NA_8  200_A_NA_8    201_A_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   202_A_NA    203_A_NA    204_A_NA    205_A_NA    206_A_NA    207_A_NA 
        " "         " "         " "         " "         " "         " " 
   208_A_NA    209_A_NA  210_A_NA_9  211_A_NA_9  212_A_NA_9  213_A_NA_9 
        " "         " "         "H"         "H"         "H"         "H" 
 214_A_NA_9  215_A_NA_9  216_A_NA_9  217_A_NA_9  218_A_NA_9    219_A_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   220_A_NA    221_A_NA    222_A_NA    223_A_NA  224_A_NA_6  225_A_NA_6 
        " "         " "         " "         " "         "E"         "E" 
 226_A_NA_6  227_A_NA_6    228_A_NA 229_A_NA_10 230_A_NA_10 231_A_NA_10 
        "E"         "E"         " "         "H"         "H"         "H" 
232_A_NA_10 233_A_NA_10 234_A_NA_10 235_A_NA_10 236_A_NA_10 237_A_NA_10 
        "H"         "H"         "H"         "H"         "H"         "H" 
238_A_NA_10    239_A_NA    240_A_NA    241_A_NA  242_A_NA_8  243_A_NA_8 
        "H"         " "         " "         " "         "E"         "E" 
 244_A_NA_8  245_A_NA_8    246_A_NA    247_A_NA    248_A_NA    249_A_NA 
        "E"         "E"         " "         " "         " "         " " 
   250_A_NA    251_A_NA    252_A_NA    253_A_NA    254_A_NA    255_A_NA 
        " "         " "         " "         " "         " "         " " 
   256_A_NA    257_A_NA    258_A_NA    259_A_NA  260_A_NA_4  261_A_NA_4 
        " "         " "         " "         " "         "E"         "E" 
 262_A_NA_4  263_A_NA_4  264_A_NA_4  265_A_NA_4  266_A_NA_4    267_A_NA 
        "E"         "E"         "E"         "E"         "E"         " " 
   268_A_NA    269_A_NA    270_A_NA    271_A_NA    272_A_NA 273_A_NA_11 
        " "         " "         " "         " "         " "         "H" 
274_A_NA_11 275_A_NA_11 276_A_NA_11 277_A_NA_11 278_A_NA_11 279_A_NA_11 
        "H"         "H"         "H"         "H"         "H"         "H" 
280_A_NA_11 281_A_NA_11 282_A_NA_11    283_A_NA    284_A_NA    285_A_NA 
        "H"         "H"         "H"         " "         " "         " " 
   286_A_NA 287_A_NA_12 288_A_NA_12 289_A_NA_12 290_A_NA_12 291_A_NA_12 
        " "         "H"         "H"         "H"         "H"         "H" 
292_A_NA_12 293_A_NA_12 294_A_NA_12 295_A_NA_12 296_A_NA_12    297_A_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   298_A_NA    299_A_NA    300_A_NA    301_A_NA    302_A_NA    303_A_NA 
        " "         " "         " "         " "         " "         " " 
   304_A_NA 305_A_NA_13 306_A_NA_13 307_A_NA_13 308_A_NA_13 309_A_NA_13 
        " "         "H"         "H"         "H"         "H"         "H" 
310_A_NA_13 311_A_NA_13 312_A_NA_13 313_A_NA_13    314_A_NA 315_A_NA_14 
        "H"         "H"         "H"         "H"         " "         "H" 
316_A_NA_14 317_A_NA_14 318_A_NA_14 319_A_NA_14 320_A_NA_14 321_A_NA_14 
        "H"         "H"         "H"         "H"         "H"         "H" 
322_A_NA_14 323_A_NA_14 324_A_NA_14 325_A_NA_14 326_A_NA_14    327_A_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   328_A_NA    329_A_NA    330_A_NA    331_A_NA    332_A_NA    333_A_NA 
        " "         " "         " "         " "         " "         " " 
334_A_NA_15 335_A_NA_15 336_A_NA_15 337_A_NA_15 338_A_NA_15 339_A_NA_15 
        "H"         "H"         "H"         "H"         "H"         "H" 
340_A_NA_15 341_A_NA_15 342_A_NA_15 343_A_NA_15 344_A_NA_15 345_A_NA_15 
        "H"         "H"         "H"         "H"         "H"         "H" 
346_A_NA_15 347_A_NA_15 348_A_NA_15 349_A_NA_15 350_A_NA_15 351_A_NA_15 
        "H"         "H"         "H"         "H"         "H"         "H" 
   352_A_NA    353_A_NA    354_A_NA    355_A_NA    356_A_NA 357_A_NA_16 
        " "         " "         " "         " "         " "         "H" 
358_A_NA_16 359_A_NA_16 360_A_NA_16 361_A_NA_16 362_A_NA_16 363_A_NA_16 
        "H"         "H"         "H"         "H"         "H"         "H" 
 364_A_I_16  365_A_I_16     132_A_E     133_A_E  134_A_E_17  135_A_E_17 
        "H"         "H"         " "         " "         "H"         "H" 
 136_A_E_17  137_A_E_17     138_A_E     139_A_E     140_A_E     141_A_E 
        "H"         "H"         " "         " "         " "         " " 
    142_A_E     143_A_E     144_A_E     145_A_E     380_A_I     381_A_I 
        " "         " "         " "         " "         " "         " " 
    382_A_I     383_A_I      4_B_NA      5_B_NA    6_B_NA_9    7_B_NA_9 
        " "         " "         " "         " "         "E"         "E" 
   8_B_NA_9    9_B_NA_9   10_B_NA_9     11_B_NA     12_B_NA     13_B_NA 
        "E"         "E"         "E"         " "         " "         " " 
    14_B_NA     15_B_NA     16_B_NA  17_B_NA_18  18_B_NA_18  19_B_NA_18 
        " "         " "         " "         "H"         "H"         "H" 
 20_B_NA_18  21_B_NA_18  22_B_NA_18  23_B_NA_18  24_B_NA_18  25_B_NA_18 
        "H"         "H"         "H"         "H"         "H"         "H" 
 26_B_NA_18  27_B_NA_18  28_B_NA_18  29_B_NA_18  30_B_NA_18  31_B_NA_18 
        "H"         "H"         "H"         "H"         "H"         "H" 
    32_B_NA     33_B_NA  34_B_NA_10  35_B_NA_10  36_B_NA_10  37_B_NA_10 
        " "         " "         "E"         "E"         "E"         "E" 
 38_B_NA_10     39_B_NA     40_B_NA     41_B_NA     42_B_NA  43_B_NA_19 
        "E"         " "         " "         " "         " "         "H" 
 44_B_NA_19  45_B_NA_19  46_B_NA_19  47_B_NA_19  48_B_NA_19  49_B_NA_19 
        "H"         "H"         "H"         "H"         "H"         "H" 
 50_B_NA_19     51_B_NA     52_B_NA     53_B_NA     54_B_NA     55_B_NA 
        "H"         " "         " "         " "         " "         " " 
    56_B_NA     57_B_NA     58_B_NA  59_B_NA_11  60_B_NA_11  61_B_NA_11 
        " "         " "         " "         "E"         "E"         "E" 
 62_B_NA_11  63_B_NA_11  64_B_NA_20  65_B_NA_20  66_B_NA_20  67_B_NA_20 
        "E"         "E"         "H"         "H"         "H"         "H" 
 68_B_NA_20  69_B_NA_20  70_B_NA_20  71_B_NA_20  72_B_NA_20  73_B_NA_20 
        "H"         "H"         "H"         "H"         "H"         "H" 
    74_B_NA     75_B_NA     76_B_NA     77_B_NA     78_B_NA     79_B_NA 
        " "         " "         " "         " "         " "         " " 
    80_B_NA     81_B_NA     82_B_NA  83_B_NA_21  84_B_NA_21  85_B_NA_21 
        " "         " "         " "         "H"         "H"         "H" 
 86_B_NA_21  87_B_NA_21  88_B_NA_21     89_B_NA     90_B_NA  91_B_NA_22 
        "H"         "H"         "H"         " "         " "         "H" 
 92_B_NA_22  93_B_NA_22  94_B_NA_22  95_B_NA_22  96_B_NA_22  97_B_NA_22 
        "H"         "H"         "H"         "H"         "H"         "H" 
    98_B_NA     99_B_NA    100_B_NA    101_B_NA    102_B_NA    103_B_NA 
        " "         " "         " "         " "         " "         " " 
   104_B_NA    105_B_NA 106_B_NA_13 107_B_NA_13 108_B_NA_13 109_B_NA_13 
        " "         " "         "E"         "E"         "E"         "E" 
110_B_NA_13 111_B_NA_13    112_B_NA    113_B_NA 114_B_NA_15 115_B_NA_15 
        "E"         "E"         " "         " "         "E"         "E" 
116_B_NA_15 117_B_NA_15 118_B_NA_15    119_B_NA    120_B_NA    121_B_NA 
        "E"         "E"         "E"         " "         " "         " " 
   122_B_NA    123_B_NA    124_B_NA    125_B_NA    126_B_NA    127_B_NA 
        " "         " "         " "         " "         " "         " " 
   128_B_NA    129_B_NA    130_B_NA    131_B_NA 132_B_NA_23 133_B_NA_23 
        " "         " "         " "         " "         "H"         "H" 
134_B_NA_23 135_B_NA_23 136_B_NA_23 137_B_NA_23 138_B_NA_23 139_B_NA_23 
        "H"         "H"         "H"         "H"         "H"         "H" 
140_B_NA_23 141_B_NA_23 142_B_NA_23    143_B_NA    144_B_NA    145_B_NA 
        "H"         "H"         "H"         " "         " "         " " 
   146_B_NA    147_B_NA    148_B_NA    149_B_NA    150_B_NA    151_B_NA 
        " "         " "         " "         " "         " "         " " 
   152_B_NA    153_B_NA 154_B_NA_24 155_B_NA_24 156_B_NA_24 157_B_NA_24 
        " "         " "         "H"         "H"         "H"         "H" 
158_B_NA_24 159_B_NA_24 160_B_NA_24 161_B_NA_24 162_B_NA_24 163_B_NA_24 
        "H"         "H"         "H"         "H"         "H"         "H" 
   164_B_NA    165_B_NA    166_B_NA    167_B_NA    168_B_NA    169_B_NA 
        " "         " "         " "         " "         " "         " " 
   170_B_NA    171_B_NA    172_B_NA    173_B_NA    174_B_NA    175_B_NA 
        " "         " "         " "         " "         " "         " " 
   176_B_NA    177_B_NA    178_B_NA    179_B_NA    180_B_NA    181_B_NA 
        " "         " "         " "         " "         " "         " " 
   182_B_NA    183_B_NA    184_B_NA    185_B_NA 186_B_NA_25 187_B_NA_25 
        " "         " "         " "         " "         "H"         "H" 
188_B_NA_25 189_B_NA_25 190_B_NA_25 191_B_NA_25 192_B_NA_25 193_B_NA_25 
        "H"         "H"         "H"         "H"         "H"         "H" 
194_B_NA_25 195_B_NA_25 196_B_NA_25 197_B_NA_25 198_B_NA_25 199_B_NA_25 
        "H"         "H"         "H"         "H"         "H"         "H" 
200_B_NA_25    201_B_NA    202_B_NA    203_B_NA    204_B_NA    205_B_NA 
        "H"         " "         " "         " "         " "         " " 
   206_B_NA    207_B_NA    208_B_NA    209_B_NA 210_B_NA_26 211_B_NA_26 
        " "         " "         " "         " "         "H"         "H" 
212_B_NA_26 213_B_NA_26 214_B_NA_26 215_B_NA_26 216_B_NA_26 217_B_NA_26 
        "H"         "H"         "H"         "H"         "H"         "H" 
218_B_NA_26 219_B_NA_26    220_B_NA    221_B_NA    222_B_NA    223_B_NA 
        "H"         "H"         " "         " "         " "         " " 
224_B_NA_14 225_B_NA_14 226_B_NA_14 227_B_NA_14    228_B_NA 229_B_NA_27 
        "E"         "E"         "E"         "E"         " "         "H" 
230_B_NA_27 231_B_NA_27 232_B_NA_27 233_B_NA_27 234_B_NA_27 235_B_NA_27 
        "H"         "H"         "H"         "H"         "H"         "H" 
236_B_NA_27 237_B_NA_27 238_B_NA_27    239_B_NA    240_B_NA    241_B_NA 
        "H"         "H"         "H"         " "         " "         " " 
242_B_NA_16 243_B_NA_16 244_B_NA_16 245_B_NA_16    246_B_NA    247_B_NA 
        "E"         "E"         "E"         "E"         " "         " " 
   248_B_NA    249_B_NA    250_B_NA    251_B_NA    252_B_NA    253_B_NA 
        " "         " "         " "         " "         " "         " " 
   254_B_NA    255_B_NA    256_B_NA    257_B_NA    258_B_NA    259_B_NA 
        " "         " "         " "         " "         " "         " " 
260_B_NA_12 261_B_NA_12 262_B_NA_12 263_B_NA_12 264_B_NA_12 265_B_NA_12 
        "E"         "E"         "E"         "E"         "E"         "E" 
266_B_NA_12    267_B_NA    268_B_NA    269_B_NA    270_B_NA    271_B_NA 
        "E"         " "         " "         " "         " "         " " 
   272_B_NA 273_B_NA_28 274_B_NA_28 275_B_NA_28 276_B_NA_28 277_B_NA_28 
        " "         "H"         "H"         "H"         "H"         "H" 
278_B_NA_28 279_B_NA_28 280_B_NA_28 281_B_NA_28 282_B_NA_28    283_B_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   284_B_NA    285_B_NA    286_B_NA 287_B_NA_29 288_B_NA_29 289_B_NA_29 
        " "         " "         " "         "H"         "H"         "H" 
290_B_NA_29 291_B_NA_29 292_B_NA_29 293_B_NA_29 294_B_NA_29 295_B_NA_29 
        "H"         "H"         "H"         "H"         "H"         "H" 
296_B_NA_29    297_B_NA    298_B_NA    299_B_NA    300_B_NA    301_B_NA 
        "H"         " "         " "         " "         " "         " " 
   302_B_NA    303_B_NA    304_B_NA 305_B_NA_30 306_B_NA_30 307_B_NA_30 
        " "         " "         " "         "H"         "H"         "H" 
308_B_NA_30 309_B_NA_30 310_B_NA_30 311_B_NA_30 312_B_NA_30 313_B_NA_30 
        "H"         "H"         "H"         "H"         "H"         "H" 
   314_B_NA 315_B_NA_31 316_B_NA_31 317_B_NA_31 318_B_NA_31 319_B_NA_31 
        " "         "H"         "H"         "H"         "H"         "H" 
320_B_NA_31 321_B_NA_31 322_B_NA_31 323_B_NA_31 324_B_NA_31 325_B_NA_31 
        "H"         "H"         "H"         "H"         "H"         "H" 
326_B_NA_31    327_B_NA    328_B_NA    329_B_NA    330_B_NA    331_B_NA 
        "H"         " "         " "         " "         " "         " " 
   332_B_NA    333_B_NA 334_B_NA_32 335_B_NA_32 336_B_NA_32 337_B_NA_32 
        " "         " "         "H"         "H"         "H"         "H" 
338_B_NA_32 339_B_NA_32 340_B_NA_32 341_B_NA_32 342_B_NA_32 343_B_NA_32 
        "H"         "H"         "H"         "H"         "H"         "H" 
344_B_NA_32 345_B_NA_32 346_B_NA_32 347_B_NA_32 348_B_NA_32 349_B_NA_32 
        "H"         "H"         "H"         "H"         "H"         "H" 
350_B_NA_32 351_B_NA_32    352_B_NA    353_B_NA    354_B_NA    355_B_NA 
        "H"         "H"         " "         " "         " "         " " 
   356_B_NA 357_B_NA_33 358_B_NA_33 359_B_NA_33 360_B_NA_33 361_B_NA_33 
        " "         "H"         "H"         "H"         "H"         "H" 
362_B_NA_33 363_B_NA_33  364_B_I_33  365_B_I_33  132_B_E_33     133_B_E 
        "H"         "H"         "H"         "H"         "H"         " " 
    134_B_E     135_B_E     136_B_E     137_B_E     138_B_E     139_B_E 
        " "         " "         " "         " "         " "         " " 
    140_B_E     141_B_E      4_C_NA      5_C_NA      6_C_NA   7_C_NA_17 
        " "         " "         " "         " "         " "         "E" 
  8_C_NA_17   9_C_NA_17  10_C_NA_17     11_C_NA     12_C_NA     13_C_NA 
        "E"         "E"         "E"         " "         " "         " " 
    14_C_NA     15_C_NA     16_C_NA  17_C_NA_34  18_C_NA_34  19_C_NA_34 
        " "         " "         " "         "H"         "H"         "H" 
 20_C_NA_34  21_C_NA_34  22_C_NA_34  23_C_NA_34  24_C_NA_34  25_C_NA_34 
        "H"         "H"         "H"         "H"         "H"         "H" 
 26_C_NA_34  27_C_NA_34  28_C_NA_34  29_C_NA_34  30_C_NA_34  31_C_NA_34 
        "H"         "H"         "H"         "H"         "H"         "H" 
    32_C_NA     33_C_NA     34_C_NA  35_C_NA_18  36_C_NA_18  37_C_NA_18 
        " "         " "         " "         "E"         "E"         "E" 
 38_C_NA_18     39_C_NA     40_C_NA     41_C_NA     42_C_NA  43_C_NA_35 
        "E"         " "         " "         " "         " "         "H" 
 44_C_NA_35  45_C_NA_35  46_C_NA_35  47_C_NA_35  48_C_NA_35  49_C_NA_35 
        "H"         "H"         "H"         "H"         "H"         "H" 
 50_C_NA_35  51_C_NA_35  52_C_NA_35  53_C_NA_35     54_C_NA     55_C_NA 
        "H"         "H"         "H"         "H"         " "         " " 
    56_C_NA     57_C_NA     58_C_NA  59_C_NA_19  60_C_NA_19  61_C_NA_19 
        " "         " "         " "         "E"         "E"         "E" 
 62_C_NA_19  63_C_NA_19  64_C_NA_36  65_C_NA_36  66_C_NA_36  67_C_NA_36 
        "E"         "E"         "H"         "H"         "H"         "H" 
 68_C_NA_36  69_C_NA_36  70_C_NA_36  71_C_NA_36  72_C_NA_36     73_C_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
    74_C_NA     75_C_NA     76_C_NA     77_C_NA     78_C_NA     79_C_NA 
        " "         " "         " "         " "         " "         " " 
    80_C_NA     81_C_NA     82_C_NA  83_C_NA_37  84_C_NA_37  85_C_NA_37 
        " "         " "         " "         "H"         "H"         "H" 
 86_C_NA_37  87_C_NA_37  88_C_NA_37     89_C_NA     90_C_NA  91_C_NA_38 
        "H"         "H"         "H"         " "         " "         "H" 
 92_C_NA_38  93_C_NA_38  94_C_NA_38  95_C_NA_38  96_C_NA_38  97_C_NA_38 
        "H"         "H"         "H"         "H"         "H"         "H" 
    98_C_NA     99_C_NA    100_C_NA    101_C_NA    102_C_NA    103_C_NA 
        " "         " "         " "         " "         " "         " " 
   104_C_NA    105_C_NA 106_C_NA_21 107_C_NA_21 108_C_NA_21 109_C_NA_21 
        " "         " "         "E"         "E"         "E"         "E" 
110_C_NA_21 111_C_NA_21    112_C_NA    113_C_NA 114_C_NA_23 115_C_NA_23 
        "E"         "E"         " "         " "         "E"         "E" 
116_C_NA_23 117_C_NA_23 118_C_NA_23    119_C_NA    120_C_NA    121_C_NA 
        "E"         "E"         "E"         " "         " "         " " 
   122_C_NA    123_C_NA    124_C_NA    125_C_NA    126_C_NA    127_C_NA 
        " "         " "         " "         " "         " "         " " 
   128_C_NA    129_C_NA    130_C_NA    131_C_NA 132_C_NA_39 133_C_NA_39 
        " "         " "         " "         " "         "H"         "H" 
134_C_NA_39 135_C_NA_39 136_C_NA_39 137_C_NA_39 138_C_NA_39 139_C_NA_39 
        "H"         "H"         "H"         "H"         "H"         "H" 
140_C_NA_39 141_C_NA_39 142_C_NA_39    143_C_NA    144_C_NA    145_C_NA 
        "H"         "H"         "H"         " "         " "         " " 
   146_C_NA    147_C_NA    148_C_NA    149_C_NA    150_C_NA    151_C_NA 
        " "         " "         " "         " "         " "         " " 
   152_C_NA    153_C_NA 154_C_NA_40 155_C_NA_40 156_C_NA_40 157_C_NA_40 
        " "         " "         "H"         "H"         "H"         "H" 
158_C_NA_40 159_C_NA_40 160_C_NA_40 161_C_NA_40 162_C_NA_40 163_C_NA_40 
        "H"         "H"         "H"         "H"         "H"         "H" 
   164_C_NA    165_C_NA    166_C_NA    167_C_NA    168_C_NA    169_C_NA 
        " "         " "         " "         " "         " "         " " 
   170_C_NA    171_C_NA    172_C_NA    173_C_NA    174_C_NA    175_C_NA 
        " "         " "         " "         " "         " "         " " 
   176_C_NA    177_C_NA    178_C_NA    179_C_NA    180_C_NA    181_C_NA 
        " "         " "         " "         " "         " "         " " 
   182_C_NA    183_C_NA    184_C_NA    185_C_NA 186_C_NA_41 187_C_NA_41 
        " "         " "         " "         " "         "H"         "H" 
188_C_NA_41 189_C_NA_41 190_C_NA_41 191_C_NA_41 192_C_NA_41 193_C_NA_41 
        "H"         "H"         "H"         "H"         "H"         "H" 
194_C_NA_41 195_C_NA_41 196_C_NA_41 197_C_NA_41 198_C_NA_41 199_C_NA_41 
        "H"         "H"         "H"         "H"         "H"         "H" 
200_C_NA_41    201_C_NA    202_C_NA    203_C_NA    204_C_NA    205_C_NA 
        "H"         " "         " "         " "         " "         " " 
   206_C_NA    207_C_NA    208_C_NA    209_C_NA 210_C_NA_42 211_C_NA_42 
        " "         " "         " "         " "         "H"         "H" 
212_C_NA_42 213_C_NA_42 214_C_NA_42 215_C_NA_42 216_C_NA_42 217_C_NA_42 
        "H"         "H"         "H"         "H"         "H"         "H" 
218_C_NA_42    219_C_NA    220_C_NA    221_C_NA    222_C_NA    223_C_NA 
        "H"         " "         " "         " "         " "         " " 
224_C_NA_22 225_C_NA_22 226_C_NA_22 227_C_NA_22    228_C_NA 229_C_NA_43 
        "E"         "E"         "E"         "E"         " "         "H" 
230_C_NA_43 231_C_NA_43 232_C_NA_43 233_C_NA_43 234_C_NA_43 235_C_NA_43 
        "H"         "H"         "H"         "H"         "H"         "H" 
236_C_NA_43 237_C_NA_43 238_C_NA_43    239_C_NA    240_C_NA    241_C_NA 
        "H"         "H"         "H"         " "         " "         " " 
242_C_NA_24 243_C_NA_24 244_C_NA_24 245_C_NA_24    246_C_NA    247_C_NA 
        "E"         "E"         "E"         "E"         " "         " " 
   248_C_NA    249_C_NA    250_C_NA    251_C_NA    252_C_NA    253_C_NA 
        " "         " "         " "         " "         " "         " " 
   254_C_NA    255_C_NA    256_C_NA    257_C_NA    258_C_NA    259_C_NA 
        " "         " "         " "         " "         " "         " " 
260_C_NA_20 261_C_NA_20 262_C_NA_20 263_C_NA_20 264_C_NA_20 265_C_NA_20 
        "E"         "E"         "E"         "E"         "E"         "E" 
266_C_NA_20    267_C_NA    268_C_NA    269_C_NA    270_C_NA    271_C_NA 
        "E"         " "         " "         " "         " "         " " 
   272_C_NA 273_C_NA_44 274_C_NA_44 275_C_NA_44 276_C_NA_44 277_C_NA_44 
        " "         "H"         "H"         "H"         "H"         "H" 
278_C_NA_44 279_C_NA_44 280_C_NA_44 281_C_NA_44 282_C_NA_44    283_C_NA 
        "H"         "H"         "H"         "H"         "H"         " " 
   284_C_NA    285_C_NA    286_C_NA 287_C_NA_45 288_C_NA_45 289_C_NA_45 
        " "         " "         " "         "H"         "H"         "H" 
290_C_NA_45 291_C_NA_45 292_C_NA_45 293_C_NA_45 294_C_NA_45 295_C_NA_45 
        "H"         "H"         "H"         "H"         "H"         "H" 
296_C_NA_45    297_C_NA    298_C_NA    299_C_NA    300_C_NA    301_C_NA 
        "H"         " "         " "         " "         " "         " " 
   302_C_NA    303_C_NA    304_C_NA 305_C_NA_46 306_C_NA_46 307_C_NA_46 
        " "         " "         " "         "H"         "H"         "H" 
308_C_NA_46 309_C_NA_46 310_C_NA_46 311_C_NA_46 312_C_NA_46 313_C_NA_46 
        "H"         "H"         "H"         "H"         "H"         "H" 
   314_C_NA 315_C_NA_47 316_C_NA_47 317_C_NA_47 318_C_NA_47 319_C_NA_47 
        " "         "H"         "H"         "H"         "H"         "H" 
320_C_NA_47 321_C_NA_47 322_C_NA_47 323_C_NA_47 324_C_NA_47 325_C_NA_47 
        "H"         "H"         "H"         "H"         "H"         "H" 
326_C_NA_47    327_C_NA    328_C_NA    329_C_NA    330_C_NA    331_C_NA 
        "H"         " "         " "         " "         " "         " " 
   332_C_NA    333_C_NA 334_C_NA_48 335_C_NA_48 336_C_NA_48 337_C_NA_48 
        " "         " "         "H"         "H"         "H"         "H" 
338_C_NA_48 339_C_NA_48 340_C_NA_48 341_C_NA_48 342_C_NA_48 343_C_NA_48 
        "H"         "H"         "H"         "H"         "H"         "H" 
344_C_NA_48 345_C_NA_48 346_C_NA_48 347_C_NA_48 348_C_NA_48 349_C_NA_48 
        "H"         "H"         "H"         "H"         "H"         "H" 
350_C_NA_48 351_C_NA_48 352_C_NA_48    353_C_NA    354_C_NA    355_C_NA 
        "H"         "H"         "H"         " "         " "         " " 
   356_C_NA 357_C_NA_49 358_C_NA_49 359_C_NA_49 360_C_NA_49 361_C_NA_49 
        " "         "H"         "H"         "H"         "H"         "H" 
362_C_NA_49 363_C_NA_49     364_C_I     365_C_I 
        "H"         "H"         " "         " "

See also

dssp, stride, bounds.sse

Author

Barry Grant & Xin-Qiu Yao