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Table 1 The test of the structure prediction for the helical skeletons

From: Structure prediction for the helical skeletons detected from the low resolution protein density map

No ID #AAa #hlcesb #sticksc #Possible Topologiesd #Valid Topologiese #Generated structuresf Rankg RMSDh Prcti
1 1DP3 55 3 3 48 6 3000 10 4.78 0.33%
2 1A2T 149 3 3 48 32 16000 15 3.72 0.09%
3 1AIL 73 3 3 48 16 8000 3 3.96 0.04%
4 1BUU 168 3 3 48 16 8000 27 4.67 0.34%
5 1lRE 81 3 3 48 18 9000 10 4.55 0.11%
6 1BR0 120 3 3 48 4 2000 4 11.17 0.20%
7 1B67 68 3 3 48 14 7000 17 4.03 0.24%
8 1AYI 87 4 3 192 48 24000 93 3.8 0.39%
9 1BEA 127 4 3 192 160 80000 572 4.75 0.72%
10 1GXG 85 4 3 192 40 20000 12 2.8 0.06%
11 1NO1 126 4 3 192 120 60000 42 4.24 0.07%
12 2EZH 75 4 3 192 104 52000 47 4.2 0.09%
13 1A3C 181 4 3 192 48 24000 110 3.57 0.46%
14 1A32 88 4 3 192 40 20000 9 3.69 0.05%
15 1PZ4 116 4 3 192 72 36000 147 7.3 0.41%
16 1LIH 164 4 3 192 124 62000 114 5.48 0.18%
17 1DXS 80 5 3 480 450 225000 30 3.51 0.01%
18 1SU0 159 5 3 480 96 48000 60 6.69 0.13%
19 1BO9 73 6 3 960 438 219000 35 3.43 0.02%
20 1JW2 72 4 4 384 66 33000 31 4.26 0.09%
21 1I2T 61 4 4 384 64 32000 21 5.58 0.07%
22 1CCD 77 4 4 384 20 10000 3 4.75 0.03%
23 2PSR 100 5 4 1920 468 234000 339 4.75 0.14%
24 1A7D 118 6 4 5760 139 69500 144 5.33 0.21%
25 2LIS 136 6 4 5760 144 72000 8 4.84 0.01%
26 1ALU 186 6 4 5760 419 209500 288 7.22 0.14%
27 1HXI 121 6 4 5760 400 200000 17 3.78 0.01%
28 1JMW 146 6 4 5760 304 152000 129 5.25 0.08%
29 1AA2 108 7 4 13440 768 384000 3599 4.15 0.94%
30 1BVC 153 8 4 26880 1215 607500 8 5.59 0.00%
31 1BZ4 144 5 5 3840 16 8000 31 4.91 0.39%
32 1AEP 161 5 5 3840 157 78500 204 5.3 0.26%
33 1DUS 194 6 5 23040 3840 1920000 2179 4.44 0.11%
34 1B5L 172 6 5 23040 438 219000 759 5.44 0.35%
35 1FLP 142 7 6 322560 7734 3867000 4707 4.65 0.12%
  1. a: the number of amino acids in the protein
  2. b: the number of helices in the protein
  3. c: the number of skeletons detected by Helix Tracer
  4. d: the number of all possible topologies
  5. e: the number of valid topologies after applying distance and length screening
  6. f: the number of structures generated for all valid topologies
  7. g: the highest rank of the structure that has the correct topology
  8. h: the Root Mean Square Deviation (RMSD) of Cá atoms of the structure that has the highest rank with the correct topology
  9. i: the percentage of the highest rank among all generated structures