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OPENSEQ.org
RS4 - 30S ribosomal protein S4
UniProt: P0A7V8 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG10903
Length: 206 (205)
Sequences: 1666
Seq/Len: 8.13
RS4
Paralog alert: 0.09 [within 20: 0.02] - ratio of genomes with paralogs
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
126_N 141_D 4.884 1.00
105_M 180_G 3.77 1.00
130_V 135_Y 3.298 1.00
125_V 135_Y 3.282 1.00
124_M 144_S 3.193 1.00
188_R 197_E 3.041 1.00
61_V 200_I 2.999 1.00
123_I 145_I 2.733 1.00
121_K 129_V 2.71 1.00
105_M 171_L 2.512 1.00
78_E 81_R 2.342 1.00
57_E 60_K 2.329 1.00
121_K 131_N 2.322 1.00
82_L 89_N 2.262 1.00
89_N 92_A 2.257 1.00
109_A 113_E 2.236 1.00
15_E 63_R 2.16 1.00
2_A 68_L 2.116 1.00
144_S 179_E 2.058 1.00
74_N 78_E 2.049 1.00
113_E 154_R 1.987 1.00
73_R 77_K 1.974 1.00
153_S 157_A 1.858 1.00
137_V 143_V 1.855 1.00
78_E 136_Q 1.832 1.00
203_L 206_K 1.814 1.00
105_M 173_V 1.77 1.00
96_G 182_F 1.747 1.00
172_E 181_T 1.74 1.00
184_R 190_D 1.692 1.00
174_D 177_K 1.622 1.00
78_E 82_L 1.597 1.00
107_F 173_V 1.566 1.00
91_L 191_L 1.551 1.00
108_G 114_A 1.55 1.00
96_G 136_Q 1.525 1.00
3_R 6_G 1.488 1.00
15_E 56_R 1.481 0.99
108_G 113_E 1.474 0.99
18_D 110_T 1.419 0.99
101_V 137_V 1.362 0.99
150_K 178_M 1.356 0.99
151_K 156_K 1.337 0.99
11_L 63_R 1.335 0.99
147_E 150_K 1.332 0.99
145_I 155_V 1.327 0.99
75_Y 136_Q 1.326 0.99
11_L 15_E 1.314 0.98
21_L 27_A 1.306 0.98
9_L 18_D 1.303 0.98
4_Y 7_P 1.27 0.98
8_K 112_A 1.258 0.98
82_L 93_L 1.257 0.98
36_Q 43_A 1.247 0.98
174_D 179_E 1.247 0.98
38_P 41_H 1.246 0.98
155_V 159_L 1.242 0.98
24_G 27_A 1.239 0.98
152_Q 155_V 1.223 0.97
69_E 204_Y 1.212 0.97
156_K 160_E 1.21 0.97
84_G 89_N 1.204 0.97
111_R 170_W 1.201 0.97
39_G 42_G 1.192 0.97
153_S 156_K 1.178 0.96
28_I 31_K 1.159 0.96
129_V 146_R 1.159 0.96
38_P 42_G 1.156 0.96
82_L 96_G 1.136 0.95
92_A 185_K 1.136 0.95
96_G 185_K 1.135 0.95
74_N 77_K 1.133 0.95
156_K 178_M 1.131 0.95
145_I 178_M 1.127 0.95
48_L 52_G 1.123 0.95
82_L 92_A 1.122 0.95
142_V 179_E 1.1 0.94
142_V 181_T 1.095 0.94
9_L 12_S 1.094 0.94
12_S 18_D 1.075 0.93
90_L 203_L 1.074 0.93
56_R 63_R 1.073 0.93
15_E 19_L 1.063 0.93
29_D 32_C 1.057 0.92
169_T 184_R 1.056 0.92
171_L 182_F 1.051 0.92
172_E 183_K 1.047 0.92
122_A 149_A 1.04 0.92
98_L 125_V 1.037 0.91
68_L 203_L 1.033 0.91
21_L 26_R 1.032 0.91
91_L 197_E 1.019 0.90
19_L 39_G 1.015 0.90
9_L 110_T 1.01 0.90
18_D 27_A 1.003 0.89
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
4kiyD111000.244Contact Map0.731
3bbnD10.9661000.288Contact Map0.628
2vqeD10.99511000.305Contact Map0.757
1c05A10.77181000.487Contact Map0.78
3j20E10.70871000.648Contact Map0.362
3iz6C10.810799.90.688Contact Map0.062
3kbgA10.548599.90.7Contact Map0.46
4bpeD10.650599.90.724Contact Map0.687
3u5cJ10.781699.80.753Contact Map0.519
3j20D10.669999.70.789Contact Map0.625
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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