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OPENSEQ.org
YAFC - Uncharacterized HTH-type transcriptional regulator YafC
UniProt: P30864 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11649
Length: 304 (292)
Sequences: 37243
Seq/Len: 127.54
YAFC
Paralog alert: 0.88 [within 20: 0.50] - ratio of genomes with paralogs
Cluster includes: AAER ABGR ALLS CBL CYNR CYSB DMLR DSDC GCVA HCAR HDFR ICIA ILVY LEUO LRHA LYSR METR NAC NHAR OXYR PERR TDCA TTDR XAPR YAFC YAHB YBDO YBEF YBHD YCAN YCJZ YDCI YDHB YEEY YEIE YFER YFIE YGFI YHAJ YHJC YIAU YIDZ YJIE YNEJ YNFL
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
72_S 76_E 3.765 1.00
17_S 26_Q 3.437 1.00
157_R 290_S 2.615 1.00
230_C 237_A 2.533 1.00
98_D 140_V 2.407 1.00
22_R 25_E 2.378 1.00
69_R 83_E 2.348 1.00
163_Y 241_D 2.282 1.00
16_E 71_Q 2.252 1.00
13_S 26_Q 2.204 1.00
181_T 184_D 2.194 1.00
94_L 123_T 2.17 1.00
96_R 125_S 2.158 1.00
73_I 77_M 2.141 1.00
94_L 125_S 2.133 1.00
158_P 161_N 2.122 1.00
172_Y 188_H 2.087 1.00
114_P 292_H 2.078 1.00
69_R 76_E 2.073 1.00
227_K 247_E 2.073 1.00
15_V 59_L 2.071 1.00
12_V 67_F 2.018 1.00
10_I 37_A 1.997 1.00
20_F 38_V 1.987 1.00
67_F 71_Q 1.974 1.00
47_V 62_E 1.973 1.00
161_N 267_P 1.931 1.00
13_S 17_S 1.929 1.00
12_V 71_Q 1.914 1.00
12_V 16_E 1.882 1.00
13_S 16_E 1.874 1.00
114_P 288_F 1.874 1.00
51_N 58_S 1.845 1.00
66_Y 80_A 1.833 1.00
10_I 34_V 1.832 1.00
115_F 122_V 1.819 1.00
231_L 247_E 1.818 1.00
191_L 235_G 1.785 1.00
165_K 241_D 1.781 1.00
158_P 267_P 1.775 1.00
15_V 67_F 1.755 1.00
61_E 64_E 1.704 1.00
65_R 83_E 1.702 1.00
11_F 67_F 1.694 1.00
12_V 70_V 1.683 1.00
115_F 285_F 1.651 1.00
16_E 26_Q 1.651 1.00
231_L 252_E 1.643 1.00
21_S 31_N 1.643 1.00
10_I 29_Q 1.624 1.00
189_I 217_G 1.621 1.00
17_S 22_R 1.617 1.00
19_S 22_R 1.6 1.00
30_A 33_A 1.594 1.00
12_V 74_L 1.582 1.00
90_T 121_E 1.579 1.00
161_N 265_E 1.529 1.00
69_R 79_A 1.504 1.00
13_S 27_L 1.486 1.00
73_I 80_A 1.474 1.00
7_E 40_K 1.474 1.00
156_A 269_S 1.451 1.00
191_L 226_L 1.439 1.00
48_S 51_N 1.438 1.00
142_V 282_I 1.434 1.00
105_L 224_E 1.432 1.00
7_E 44_K 1.428 1.00
114_P 118_R 1.423 1.00
165_K 255_E 1.418 1.00
64_E 68_R 1.406 0.99
7_E 37_A 1.405 0.99
66_Y 81_E 1.402 0.99
39_K 43_M 1.391 0.99
188_H 236_I 1.365 0.99
92_R 121_E 1.349 0.99
114_P 117_E 1.349 0.99
168_A 236_I 1.334 0.99
69_R 72_S 1.324 0.99
113_K 117_E 1.318 0.99
245_D 249_A 1.313 0.99
200_N 204_I 1.312 0.99
226_L 237_A 1.305 0.99
168_A 256_L 1.303 0.99
155_R 274_S 1.301 0.99
284_A 287_D 1.297 0.99
286_I 290_S 1.297 0.99
278_V 282_I 1.293 0.99
44_K 81_E 1.292 0.99
177_G 184_D 1.282 0.99
178_K 254_V 1.275 0.99
270_A 286_I 1.264 0.99
155_R 272_Y 1.263 0.99
134_N 137_E 1.255 0.99
11_F 15_V 1.253 0.99
220_S 226_L 1.253 0.99
5_S 77_M 1.248 0.99
95_L 285_F 1.247 0.99
115_F 288_F 1.236 0.98
36_R 39_K 1.228 0.98
116_R 189_I 1.222 0.98
68_R 72_S 1.222 0.98
168_A 172_Y 1.22 0.98
247_E 252_E 1.216 0.98
14_V 38_V 1.209 0.98
11_F 50_L 1.204 0.98
157_R 272_Y 1.203 0.98
65_R 68_R 1.199 0.98
29_Q 33_A 1.196 0.98
69_R 80_A 1.196 0.98
76_E 79_A 1.194 0.98
228_Q 231_L 1.191 0.98
35_S 39_K 1.191 0.98
118_R 288_F 1.186 0.98
53_T 58_S 1.175 0.98
241_D 245_D 1.174 0.98
59_L 63_G 1.172 0.98
11_F 49_L 1.167 0.97
15_V 50_L 1.166 0.97
14_V 23_A 1.161 0.97
9_A 78_A 1.16 0.97
180_E 184_D 1.159 0.97
20_F 57_L 1.155 0.97
134_N 139_K 1.154 0.97
135_L 143_A 1.154 0.97
13_S 23_A 1.15 0.97
96_R 127_V 1.124 0.97
283_R 287_D 1.121 0.97
255_E 258_A 1.121 0.97
241_D 255_E 1.114 0.96
287_D 290_S 1.111 0.96
145_R 271_V 1.11 0.96
167_I 244_I 1.108 0.96
142_V 270_A 1.107 0.96
162_S 242_Y 1.106 0.96
113_K 232_S 1.101 0.96
166_I 236_I 1.091 0.96
37_A 40_K 1.091 0.96
4_T 7_E 1.083 0.96
119_Y 284_A 1.082 0.96
50_L 57_L 1.079 0.95
228_Q 232_S 1.079 0.95
169_S 233_G 1.077 0.95
115_F 119_Y 1.074 0.95
8_L 70_V 1.074 0.95
72_S 79_A 1.072 0.95
65_R 69_R 1.071 0.95
227_K 231_L 1.071 0.95
172_Y 189_I 1.062 0.95
136_I 153_S 1.061 0.95
29_Q 34_V 1.058 0.95
118_R 291_E 1.055 0.95
170_P 252_E 1.054 0.95
78_A 82_S 1.054 0.95
116_R 217_G 1.05 0.94
246_K 250_R 1.047 0.94
73_I 76_E 1.043 0.94
36_R 40_K 1.038 0.94
158_P 269_S 1.038 0.94
125_S 219_S 1.036 0.94
98_D 145_R 1.032 0.94
272_Y 286_I 1.02 0.93
15_V 63_G 1.011 0.93
156_A 271_V 1.01 0.93
66_Y 70_V 1.007 0.93
97_I 142_V 1.005 0.93
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
3hhgA811000.123Contact Map0.926
2esnA40.97371000.13Contact Map0.771
3fzvA40.98361000.14Contact Map0.703
3szpA20.95721000.142Contact Map0.778
1uthA10.98681000.146Contact Map0.751
1ixcA20.95071000.151Contact Map0.762
3fxqA20.98361000.153Contact Map0.786
1al3A10.98681000.154Contact Map0.735
2h98A20.9771000.157Contact Map0.737
3mz1A40.97371000.167Contact Map0.773
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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