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DDPF - Probable D,D-dipeptide transport ATP-binding protein DdpF
UniProt: P77622 Sequence
Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13786
Length: 308 (304)
Sequences: 14682
Seq/Len: 48.30

DDPF
Paralog alert: 0.96 [within 20: 0.81] - ratio of genomes with paralogs
Cluster includes: ARTP BTUD CCMA CYSA DDPD DDPF DPPD DPPF FBPC FECE FEPC FHUC FTSE GLNQ GLTL HISP LIVF LIVG LOLD LPTB MALK METN MLAF MODC NIKD NIKE OPPD OPPF PHNC PHNK PHNL POTA POTG PROV PSTB SAPD SAPF SSUB SUFC TAUB THIQ UGPC YADG YBBA YBBL YCJV YDCT YECC YEHX YHDZ YNJD ZNUC
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
43_E 212_R 4.57 1.00
81_I 162_D 4.007 1.00
7_T 38_Q 3.619 1.00
9_R 72_Q 3.603 1.00
10_D 34_G 3.478 1.00
46_G 210_S 3.161 1.00
125_L 158_S 2.958 1.00
33_N 220_Q 2.883 1.00
128_Q 192_H 2.847 1.00
13_I 61_L 2.826 1.00
45_L 214_A 2.821 1.00
187_T 191_N 2.767 1.00
225_G 230_V 2.749 1.00
226_D 229_Q 2.724 1.00
214_A 221_I 2.681 1.00
212_R 224_L 2.679 1.00
76_S 162_D 2.638 1.00
41_R 162_D 2.515 1.00
128_Q 191_N 2.443 1.00
40_R 43_E 2.417 1.00
7_T 74_I 2.363 1.00
121_L 124_E 2.33 1.00
114_S 117_Q 2.328 1.00
121_L 160_Q 2.318 1.00
12_H 34_G 2.276 1.00
30_H 33_N 2.228 1.00
8_L 11_V 2.213 1.00
104_T 118_R 2.196 1.00
286_G 290_R 2.165 1.00
104_T 122_A 2.164 1.00
284_T 306_R 2.089 1.00
135_Y 138_R 2.088 1.00
14_N 30_H 2.078 1.00
59_A 199_I 2.019 1.00
15_F 57_T 2.008 1.00
200_S 206_I 2.006 1.00
127_V 133_P 1.984 1.00
10_D 36_D 1.976 1.00
8_L 37_L 1.825 1.00
90_L 148_R 1.814 1.00
123_E 136_L 1.814 1.00
76_S 81_I 1.776 1.00
103_I 126_A 1.727 1.00
185_L 196_Y 1.72 1.00
9_R 74_I 1.705 1.00
4_T 40_R 1.696 1.00
12_H 70_H 1.686 1.00
143_F 151_I 1.676 1.00
85_V 166_L 1.668 1.00
100_W 137_D 1.656 1.00
166_L 196_Y 1.654 1.00
214_A 224_L 1.65 1.00
46_G 206_I 1.633 1.00
229_Q 233_A 1.631 1.00
44_T 189_Q 1.618 1.00
277_Y 288_E 1.604 1.00
160_Q 192_H 1.602 1.00
108_W 118_R 1.566 1.00
124_E 128_Q 1.556 1.00
135_Y 143_F 1.555 1.00
100_W 136_L 1.545 1.00
118_R 122_A 1.54 1.00
13_I 66_L 1.538 1.00
119_R 123_E 1.537 1.00
126_A 136_L 1.533 1.00
182_L 205_V 1.524 1.00
186_V 189_Q 1.521 1.00
47_I 197_V 1.512 1.00
9_R 38_Q 1.495 1.00
103_I 158_S 1.474 1.00
128_Q 187_T 1.441 1.00
8_L 62_L 1.402 0.99
12_H 30_H 1.396 0.99
45_L 224_L 1.386 0.99
97_L 101_R 1.384 0.99
39_I 163_V 1.376 0.99
33_N 275_F 1.363 0.99
35_I 58_L 1.36 0.99
9_R 36_D 1.357 0.99
119_R 136_L 1.347 0.99
37_L 58_L 1.338 0.99
15_F 31_A 1.327 0.99
100_W 119_R 1.318 0.99
283_A 288_E 1.315 0.99
220_Q 291_Q 1.294 0.99
120_A 124_E 1.278 0.99
98_P 137_D 1.277 0.99
130_G 187_T 1.276 0.99
58_L 216_M 1.276 0.99
222_V 236_H 1.275 0.99
286_G 305_W 1.261 0.99
100_W 122_A 1.26 0.99
10_D 70_H 1.258 0.99
220_Q 303_R 1.247 0.99
294_A 303_R 1.245 0.98
12_H 33_N 1.243 0.98
39_I 197_V 1.241 0.98
138_R 142_A 1.234 0.98
13_I 69_S 1.233 0.98
285_H 288_E 1.231 0.98
64_G 67_Q 1.229 0.98
228_Q 232_T 1.227 0.98
103_I 122_A 1.225 0.98
119_R 137_D 1.223 0.98
5_L 163_V 1.219 0.98
225_G 229_Q 1.218 0.98
117_Q 120_A 1.211 0.98
220_Q 275_F 1.209 0.98
41_R 193_G 1.201 0.98
5_L 75_R 1.199 0.98
39_I 45_L 1.198 0.98
272_Q 277_Y 1.198 0.98
236_H 239_T 1.189 0.98
59_A 165_V 1.188 0.98
164_I 196_Y 1.176 0.98
213_V 227_A 1.176 0.98
124_E 127_V 1.174 0.98
44_T 210_S 1.172 0.98
63_M 84_M 1.168 0.97
37_L 214_A 1.166 0.97
62_L 197_V 1.166 0.97
44_T 196_Y 1.163 0.97
43_E 211_D 1.16 0.97
75_R 163_V 1.159 0.97
285_H 289_V 1.157 0.97
116_Q 120_A 1.156 0.97
93_L 151_I 1.146 0.97
98_P 101_R 1.144 0.97
14_N 69_S 1.138 0.97
75_R 81_I 1.132 0.97
50_E 238_Y 1.131 0.97
14_N 33_N 1.123 0.97
274_C 280_C 1.122 0.97
237_P 240_R 1.12 0.96
41_R 76_S 1.12 0.96
189_Q 211_D 1.112 0.96
35_I 221_I 1.111 0.96
113_S 118_R 1.108 0.96
45_L 212_R 1.106 0.96
134_E 138_R 1.098 0.96
280_C 287_C 1.092 0.96
78_S 81_I 1.091 0.96
130_G 180_Q 1.089 0.96
6_L 163_V 1.087 0.96
32_I 61_L 1.074 0.95
296_R 299_G 1.069 0.95
4_T 7_T 1.065 0.95
13_I 32_I 1.058 0.95
17_A 20_N 1.045 0.94
198_L 209_M 1.043 0.94
47_I 214_A 1.04 0.94
164_I 194_L 1.039 0.94
101_R 104_T 1.039 0.94
121_L 125_L 1.035 0.94
41_R 195_T 1.033 0.94
203_V 231_L 1.032 0.94
62_L 73_Y 1.028 0.94
93_L 148_R 1.026 0.94
107_L 158_S 1.021 0.93
123_E 133_P 1.02 0.93
221_I 224_L 1.002 0.92
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
4fwiB10.97081000.07Contact Map0.755
3tuiC40.93511000.29Contact Map0.867
2it1A20.94161000.297Contact Map0.812
2yyzA10.94161000.301Contact Map0.769
1oxxK10.94481000.302Contact Map0.776
1v43A10.94811000.306Contact Map0.797
1g29120.94161000.308Contact Map0.853
3rlfA20.94161000.312Contact Map0.794
1z47A20.93511000.315Contact Map0.812
3fvqA20.94481000.318Contact Map0.712

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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