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OPENSEQ.org
RPOS - RNA polymerase sigma factor RpoS
UniProt: P13445 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10510
Length: 330 (269)
Sequences: 1937
Seq/Len: 7.20
RPOS
Paralog alert: 0.58 [within 20: 0.06] - ratio of genomes with paralogs
Cluster includes: FLIA RPOH RPOS
GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Scaled Score Prob
271_R 275_A 4.069 1.00
75_E 93_R 3.865 1.00
297_L 302_V 3.555 1.00
196_E 206_V 3.303 1.00
82_R 87_D 3.267 1.00
272_E 294_E 2.892 1.00
78_Y 82_R 2.86 1.00
185_L 189_L 2.817 1.00
191_H 197_E 2.45 1.00
101_L 143_S 2.393 1.00
188_K 201_Q 2.196 1.00
62_L 65_I 2.153 1.00
65_I 103_V 2.148 1.00
102_V 123_G 2.111 1.00
77_V 81_R 2.103 1.00
301_R 304_Q 2.061 1.00
272_E 295_I 2.043 1.00
300_E 304_Q 2.035 1.00
276_R 294_E 2.021 1.00
92_R 96_E 2.014 1.00
295_I 302_V 1.963 1.00
247_E 251_Q 1.941 1.00
270_Q 312_R 1.89 1.00
61_Y 124_N 1.868 1.00
101_L 144_T 1.838 1.00
72_T 75_E 1.837 1.00
289_E 293_R 1.805 1.00
275_A 281_L 1.792 1.00
61_Y 65_I 1.765 1.00
277_R 306_Q 1.764 1.00
68_S 97_S 1.7 1.00
198_I 209_V 1.679 1.00
185_L 191_H 1.665 1.00
232_K 237_I 1.661 1.00
276_R 286_A 1.66 1.00
101_L 147_T 1.626 1.00
81_R 137_E 1.617 1.00
189_L 193_P 1.614 1.00
84_L 136_P 1.584 1.00
73_A 77_V 1.547 1.00
125_L 128_I 1.528 0.99
91_R 132_E 1.524 0.99
300_E 303_R 1.514 0.99
135_D 138_R 1.511 0.99
181_T 202_L 1.506 0.99
87_D 90_S 1.501 0.99
195_A 213_L 1.499 0.99
93_R 97_S 1.463 0.99
178_Y 202_L 1.462 0.99
223_D 233_A 1.444 0.99
71_L 76_E 1.431 0.99
58_T 120_I 1.42 0.99
289_E 298_T 1.415 0.99
99_L 124_N 1.393 0.99
267_N 312_R 1.371 0.99
195_A 206_V 1.348 0.98
129_R 133_K 1.336 0.98
274_L 313_L 1.325 0.98
82_R 90_S 1.299 0.98
172_V 176_N 1.287 0.98
264_F 271_R 1.277 0.97
205_P 208_D 1.272 0.97
286_A 294_E 1.269 0.97
81_R 85_R 1.259 0.97
144_T 147_T 1.258 0.97
76_E 80_A 1.256 0.97
288_L 300_E 1.232 0.97
273_V 305_I 1.225 0.97
273_V 309_G 1.217 0.96
84_L 137_E 1.206 0.96
62_L 103_V 1.19 0.96
272_E 276_R 1.182 0.96
196_E 200_E 1.174 0.95
186_S 189_L 1.17 0.95
61_Y 76_E 1.166 0.95
104_K 121_E 1.166 0.95
95_I 128_I 1.16 0.95
181_T 184_E 1.159 0.95
288_L 304_Q 1.147 0.94
269_K 300_E 1.143 0.94
199_A 206_V 1.142 0.94
75_E 78_Y 1.133 0.94
69_P 76_E 1.131 0.94
185_L 193_P 1.126 0.94
98_N 143_S 1.126 0.94
143_S 156_R 1.119 0.93
131_V 142_F 1.118 0.93
185_L 197_E 1.11 0.93
70_L 76_E 1.094 0.92
284_E 290_D 1.094 0.92
165_I 219_I 1.083 0.92
104_K 107_R 1.076 0.92
184_E 201_Q 1.074 0.92
301_R 305_I 1.066 0.91
89_A 92_R 1.065 0.91
167_L 171_I 1.06 0.91
138_R 214_R 1.06 0.91
65_I 68_S 1.059 0.91
156_R 169_I 1.059 0.91
141_R 160_N 1.055 0.91
268_A 272_E 1.048 0.90
177_V 181_T 1.045 0.90
167_L 175_L 1.044 0.90
208_D 211_R 1.041 0.90
268_A 271_R 1.04 0.90
61_Y 70_L 1.039 0.90
190_D 193_P 1.029 0.89
185_L 198_I 1.026 0.89
130_A 142_F 1.025 0.89
178_Y 212_M 1.022 0.89
254_D 257_Q 1.021 0.89
269_K 304_Q 1.018 0.88
226_L 233_A 1.013 0.88
105_I 147_T 1.011 0.88
260_V 281_L 1.009 0.88
94_M 131_V 1.008 0.88
173_K 177_V 1.006 0.88
189_L 197_E 1.005 0.88
226_L 232_K 1.005 0.88
191_H 194_S 1.002 0.87
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Scaled Score = (raw_score/average(raw_scores)) > 1 are listed. For all 3L/2 predictions, click on one of the links below.
HHsearch Results: GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled_score >1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov P(%) HHΔ   Acc
2a6hF20.98791000.347Contact Map0.471
1l9zH10.99091000.351Contact Map0.062
4kn7X20.99391000.458Contact Map0.586
4ljzF20.98791000.491Contact Map0.51
3ugoA10.52421000.607Contact Map0.719
1l0oC10.73031000.651Contact Map0.731
1rp3A40.71000.674Contact Map0.609
1sigA10.484899.90.782Contact Map0.522
3vdoA10.566799.80.81Contact Map0.495
1or7A20.587999.80.811Contact Map0.561
Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.
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