May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
YBIX - PKHD-type hydroxylase YbiX
UniProt: P75779 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13316
Length: 225 (225)
Sequences: 320
Seq/Len: 1.42
YBIX
Paralog alert: 0.06 [within 20: 0.00] - 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
127_D 165_R 4.765 1.00
114_L 151_L 4.022 1.00
7_G 148_D 3.147 1.00
118_L 149_L 2.538 1.00
4_H 148_D 2.324 0.99
11_P 122_D 2.309 0.99
74_A 114_L 2.299 0.99
69_L 189_F 2.277 0.99
112_T 155_S 2.264 0.99
74_A 151_L 2.235 0.99
116_A 175_I 2.228 0.99
37_G 93_Y 2.172 0.99
180_R 224_E 2.14 0.99
145_P 148_D 2.064 0.98
88_Q 167_V 2.033 0.98
37_G 99_G 1.981 0.98
30_R 33_T 1.968 0.97
184_K 221_E 1.909 0.97
14_V 171_S 1.88 0.96
22_E 169_V 1.847 0.96
121_S 170_A 1.794 0.95
13_D 66_Q 1.751 0.94
116_A 149_L 1.734 0.94
116_A 173_M 1.69 0.93
2_M 133_V 1.679 0.92
9_L 63_A 1.669 0.92
123_P 143_K 1.628 0.91
201_R 207_E 1.591 0.89
44_Q 91_E 1.538 0.87
27_V 31_V 1.51 0.86
93_Y 102_R 1.497 0.85
21_L 56_L 1.461 0.83
40_V 94_G 1.459 0.83
4_H 145_P 1.45 0.82
20_Q 55_A 1.435 0.81
95_F 159_C 1.419 0.80
134_N 190_E 1.417 0.80
199_K 208_I 1.406 0.80
56_L 84_F 1.405 0.79
2_M 150_V 1.391 0.79
197_S 207_E 1.377 0.78
37_G 80_S 1.375 0.77
114_L 175_I 1.368 0.77
37_G 83_L 1.339 0.75
33_T 37_G 1.338 0.75
135_D 140_H 1.329 0.74
44_Q 86_R 1.323 0.73
52_L 56_L 1.307 0.72
77_R 176_Q 1.304 0.72
201_R 205_S 1.3 0.72
157_L 176_Q 1.28 0.70
172_F 216_H 1.277 0.70
83_L 102_R 1.268 0.69
100_A 219_L 1.255 0.68
191_L 194_N 1.254 0.68
83_L 93_Y 1.246 0.67
33_T 40_V 1.242 0.67
17_F 120_L 1.241 0.66
94_G 162_P 1.241 0.66
10_S 13_D 1.216 0.64
8_V 118_L 1.189 0.62
179_I 188_L 1.186 0.61
9_L 17_F 1.185 0.61
85_N 170_A 1.184 0.61
18_R 84_F 1.18 0.61
180_R 222_W 1.177 0.60
106_Q 109_W 1.17 0.60
137_F 156_S 1.168 0.60
94_G 198_L 1.165 0.59
122_D 149_L 1.164 0.59
183_K 221_E 1.134 0.56
11_P 14_V 1.121 0.55
209_L 213_N 1.115 0.54
30_R 40_V 1.111 0.54
184_K 224_E 1.103 0.53
50_S 63_A 1.097 0.52
192_D 215_Y 1.084 0.51
196_Q 199_K 1.074 0.50
85_N 216_H 1.067 0.49
32_T 99_G 1.058 0.48
80_S 83_L 1.056 0.48
175_I 178_M 1.053 0.48
75_L 215_Y 1.049 0.48
57_Q 60_V 1.045 0.47
102_R 112_T 1.045 0.47
84_F 192_D 1.044 0.47
137_F 155_S 1.039 0.47
137_F 140_H 1.036 0.46
33_T 99_G 1.036 0.46
211_L 216_H 1.029 0.45
58_N 122_D 1.024 0.45
14_V 169_V 1.019 0.44
172_F 195_I 1.014 0.44
187_M 213_N 1.014 0.44
46_V 212_L 1.011 0.44
199_K 203_G 1.01 0.44
63_A 67_H 1.006 0.43
99_G 110_M 1.005 0.43
193_N 196_Q 1 0.43
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
3dkqA30.99561000.464Contact Map0.537
2rg4A20.761000.712Contact Map0.268
3kt7A10.937899.90.75Contact Map0.318
2jigA20.755699.90.755Contact Map0.527
3itqA20.733399.90.756Contact Map0.491
3w20A20.773399.90.764Contact Map0.388
4bqyA10.893399.80.798Contact Map0.464
2rdqA10.866796.60.931Contact Map0.53
3nnfA10.933396.50.932Contact Map0.46
3gjaA20.924496.40.933Contact Map0.417
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.
Page generated in 0.2371 seconds.