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. 2017 Jan 1;24(1):52–67. doi: 10.1089/cmb.2016.0145

Table 1.

Averaged Radial Distance Between Backbone Centroids and the Helix Axis That Is Either Calculated From the PDB Structure or Assigned to the Simulated Density Map

    PDB   Sensitivity (%)f
Indexa Helix IDb r100c r80d Image r80e S2.0 S2.5 S3.0
 1 1FLP_1_4-19 1.99 1.98 2.40 53.33 86.67 100.00
 2 1HZ4_6_107-123 1.96 1.95 1.86 93.75 100.00 100.00
 3 3E46_7_160-171 2.02 1.96 2.24 63.64 100.00 100.00
 4 1HZ4_4_67-83 1.97 1.96 2.08 81.25 100.00 100.00
 5 1NG6_9_136-146 2.06 1.97 1.98 90.00 100.00 100.00
 6 2OVJ_3_390-401 2.00 1.98 2.10 72.73 100.00 100.00
 7 3E46_9_190-199 2.02 1.97 2.00 66.67 100.00 100.00
 8 1NG6_1_3-16 1.99 1.96 2.24 69.23 100.00 100.00
 9 2OVJ_9_493-504 2.08 2.06 2.50 45.45 90.91 100.00
10 1HZ4_12_209-225 1.97 1.96 2.39 62.50 93.75 100.00
11 2OVJ_10_514-533 2.08 1.95 2.28 63.16 94.74 100.00
12 3IEE_1_33-56 2.03 1.96 2.27 56.52 95.65 100.00
13 1NG6_3_47-71 2.08 1.97 2.03 75.00 100.00 100.00
14 3E46_4_106-118 2.10 1.96 2.13 75.00 100.00 100.00
15 1NG6_6_97-110 1.99 1.95 2.35 69.23 84.62 100.00
16 1LWB_2_17-28 2.07 1.96 2.17 72.73 100.00 100.00
17 3IEE_5_139-178 2.23 1.97 2.05 71.05 97.37 100.00
18 1HZ4_20_334-346 2.02 1.99 2.29 58.33 91.67 100.00
19 1FLP_2_21-35 2.05 2.00 2.50 64.29 85.71 85.71
20 3E46_8_176-185 2.10 1.95 2.25 44.44 100.00 100.00
21 1HG5_10_229-257 2.15 1.95 2.22 82.14 96.43 100.00
22 1HZ4_1_5-24 1.99 1.96 2.00 84.21 100.00 100.00
23 1NG6_4-5_74-90 2.04 1.95 1.92 87.50 100.00 100.00
24 1FLP_9-10_124-141 2.13 2.00 2.56 47.06 76.47 100.00
25 1NG6_2_20-39 2.00 1.95 2.13 73.68 94.74 100.00
26 3IEE_2_59-72 2.21 2.02 2.18 58.33 91.67 91.67
27 1FLP_6_82-97 2.00 1.94 2.32 53.33 100.00 100.00
28 1FLP_5_59-76 2.00 1.97 2.07 64.71 94.12 94.12
29 1UNF_7_125-138 2.05 1.98 2.28 84.62 100.00 100.00
30 1LWB_5_77-96 2.18 1.96 2.25 68.42 89.47 100.00
31 1HG5_9_191-221 2.06 1.97 1.93 86.67 96.67 100.00
32 1UNF_13_223-237 2.14 1.97 2.28 64.29 100.00 100.00
33 1HZ4_17_287-304 2.14 1.95 2.26 76.47 94.12 100.00
34 1HZ4_3_47-64 2.04 1.94 2.30 70.59 88.24 94.12
35 1FLP_7-8_103-120 2.04 1.97 2.22 70.59 94.12 100.00
36 1HZ4_11_188-202 1.98 1.94 2.01 71.43 92.86 100.00
37 1LWB_4_58-74 2.09 1.98 2.22 68.75 87.50 93.75
38 1HG5_3_56-66 2.00 1.97 1.96 90.00 100.00 100.00
39 2OVJ_7_451-463 2.06 1.97 2.30 66.67 83.33 100.00
40 3E46_1_3-18 2.15 1.97 2.26 60.00 93.33 100.00
41 2OVJ_2_364-376 2.14 2.03 2.28 66.67 91.67 100.00
42 1UNF_3-4_69-80 2.03 1.93 2.71 63.64 63.64 90.91
43 2OVJ_8_467-485 1.99 1.97 2.27 61.11 94.44 100.00
44 2OVJ_11-12_536-543 2.04 1.97 2.99 28.57 85.71 100.00
45 1HG5_5_91-99 2.05 2.00 4.10 62.50 87.50 87.50
46 1HZ4_16_267-283 1.98 1.96 2.02 81.25 87.50 100.00
47 1HZ4_8_149-162 2.00 1.94 2.02 84.62 100.00 100.00
48 1LWB_6_101-119 2.11 1.96 2.81 50.00 77.78 83.33
49 1HZ4_18_307-324 2.06 1.95 2.35 82.35 88.24 100.00
50 1NG6_7-8_116-130 2.13 2.03 2.66 42.86 78.57 92.86
51 1HG5_6_115-141 2.08 1.99 2.07 76.92 96.15 96.15
52 3E46_6_138-153 2.68 1.99 3.39 53.33 73.33 80.00
53 1UNF_12_209-219 2.14 1.99 2.62 50.00 80.00 90.00
54 3IEE_8_240-263 2.25 1.97 2.03 77.27 95.45 100.00
55 3E46_5_128-136 2.04 1.96 5.23 25.00 62.50 62.50
56 3IEE_9_271-284 2.24 1.96 4.66 41.67 58.33 58.33
57 3IEE_4_103-135 2.02 1.99 2.14 75.00 90.63 100.00
58 1HG5_2_39-49 2.00 1.94 1.93 90.00 100.00 100.00
59 1HZ4_9-10_168-185 2.10 1.97 2.52 64.71 76.47 100.00
60 1HG5_4_72-88 2.09 1.98 2.69 62.50 75.00 87.50
61 3IEE_6_185-205 2.27 2.20 2.31 58.82 88.24 100.00
62 3IEE_7_213-231 2.02 1.97 2.11 72.22 83.33 94.44
63 2OVJ_5_415-427 1.98 1.95 2.09 75.00 100.00 100.00
64 1LWB_1_5-11 2.02 1.95 1.96 100.00 100.00 100.00
65 1HG5_1_20-29 2.07 2.00 2.50 66.67 88.89 100.00
66 1HZ4_5_87-103 2.05 1.95 2.17 68.75 93.75 100.00
67 1FLP_3_37-41 2.11 2.06 2.13 75.00 100.00 100.00
68 1UNF_5_85-100 2.05 2.01 2.96 33.33 53.33 80.00
69 1UNF_2_47-58 2.00 1.97 2.31 63.64 100.00 100.00
70 1HG5_7_161-179 2.08 1.91 2.18 66.67 94.44 100.00
71 2OVJ_6_439-447 2.10 1.95 2.45 87.50 100.00 100.00
Average values: 2.07 1.97 2.37 67.40 90.97 96.66

Results computed with SSETracer.

a

Index of the data as it appears in Figures 4 and 5. Sorted approximately by longitudinal discrepancy.

b

PDB ID, the chain ID in the PDB file, the helix ID, and the first and last amino acid index. Sequentially adjacent helices that share same direction are combined.

c

Averaged amino acid backbone centroid distance from the axis.

d

Radius for 80% of helix centroids to be within the radial distance from the axis calculated from PDB file.

e

Radius for 80% of helix centroids to be within the radial distance from the axis detected from the density image using SSETracer.

f

Sensitivity calculated as A/B using a specified radius threshold, where A is the number of detected AAs and B is the total number of AAs of the helix.

PDB, Protein Data Bank.