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YPHD - Probable ABC transporter permease protein YphD
UniProt: P77315 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG13465
Length: 332 (298)
Sequences: 12673
Seq/Len: 42.53
YPHD
Paralog alert: 0.92 [within 20: 0.63] - ratio of genomes with paralogs
Cluster includes: ALSC ARAH LIVH LSRC LSRD MGLC RBSC XYLH YJFF YPHD YTFT
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
112_L 232_L 3.981 1.00
116_A 228_T 3.767 1.00
209_A 223_R 3.008 1.00
218_N 221_R 2.723 1.00
93_C 114_L 2.704 1.00
116_A 232_L 2.698 1.00
119_G 231_G 2.696 1.00
115_G 231_G 2.576 1.00
120_T 228_T 2.478 1.00
202_V 226_I 2.45 1.00
64_G 182_M 2.383 1.00
115_G 235_A 2.345 1.00
71_T 281_T 2.278 1.00
128_V 220_R 2.196 1.00
205_V 222_V 2.188 1.00
103_P 106_V 2.168 1.00
221_R 225_L 2.165 1.00
192_I 198_F 2.145 1.00
191_F 195_K 2.128 1.00
188_L 192_I 2.123 1.00
112_L 236_V 2.099 1.00
122_A 140_L 2.069 1.00
97_L 110_L 2.06 1.00
198_F 225_L 2.027 1.00
259_D 292_G 2.003 1.00
66_A 260_V 1.972 1.00
120_T 224_I 1.902 1.00
60_A 289_T 1.865 1.00
217_I 222_V 1.831 1.00
40_F 294_G 1.808 1.00
198_F 202_V 1.791 1.00
88_A 148_G 1.763 1.00
201_S 222_V 1.757 1.00
187_A 191_F 1.751 1.00
190_V 194_R 1.714 1.00
204_A 212_A 1.708 1.00
267_G 280_G 1.681 1.00
108_C 239_I 1.644 1.00
73_I 230_S 1.638 1.00
123_G 224_I 1.631 1.00
186_F 282_L 1.621 1.00
210_T 213_Q 1.596 1.00
197_A 201_S 1.593 1.00
78_E 133_S 1.587 1.00
72_L 189_F 1.574 1.00
66_A 87_V 1.573 1.00
65_I 237_T 1.551 1.00
201_S 217_I 1.539 1.00
64_G 285_V 1.538 1.00
60_A 286_L 1.534 1.00
105_A 109_L 1.534 1.00
205_V 219_V 1.531 1.00
76_S 226_I 1.52 1.00
123_G 127_G 1.515 1.00
72_L 226_I 1.509 1.00
39_V 43_N 1.495 1.00
209_A 213_Q 1.492 1.00
109_L 113_L 1.48 1.00
113_L 117_L 1.476 1.00
67_A 281_T 1.459 1.00
142_S 145_R 1.455 1.00
277_S 280_G 1.435 1.00
201_S 212_A 1.433 1.00
224_I 228_T 1.429 1.00
78_E 227_F 1.422 1.00
140_L 144_L 1.421 1.00
184_V 188_L 1.419 1.00
113_L 116_A 1.418 1.00
124_V 128_V 1.412 1.00
127_G 220_R 1.408 1.00
225_L 229_L 1.405 0.99
75_I 203_F 1.404 0.99
238_G 242_A 1.402 0.99
87_V 241_L 1.383 0.99
75_I 276_G 1.377 0.99
94_L 111_V 1.373 0.99
71_T 269_T 1.37 0.99
102_V 106_V 1.366 0.99
268_G 274_G 1.365 0.99
52_N 293_N 1.364 0.99
65_I 240_L 1.357 0.99
92_V 250_A 1.345 0.99
259_D 309_R 1.344 0.99
265_V 271_L 1.339 0.99
180_L 184_V 1.337 0.99
68_W 189_F 1.336 0.99
228_T 232_L 1.328 0.99
112_L 239_I 1.328 0.99
69_A 233_L 1.31 0.99
269_T 281_T 1.302 0.99
225_L 228_T 1.296 0.99
85_P 145_R 1.294 0.99
64_G 282_L 1.291 0.99
213_Q 220_R 1.29 0.99
102_V 110_L 1.285 0.99
107_A 111_V 1.281 0.99
89_F 118_M 1.28 0.99
111_V 115_G 1.267 0.99
94_L 239_I 1.259 0.99
130_N 209_A 1.245 0.98
70_M 83_V 1.231 0.98
202_V 222_V 1.231 0.98
231_G 235_A 1.229 0.98
67_A 264_V 1.226 0.98
70_M 264_V 1.223 0.98
81_V 261_I 1.214 0.98
116_A 235_A 1.21 0.98
91_S 248_G 1.209 0.98
189_F 229_L 1.201 0.98
83_V 234_A 1.201 0.98
91_S 252_A 1.2 0.98
125_L 136_A 1.194 0.98
29_L 33_I 1.19 0.98
267_G 284_G 1.184 0.98
262_A 313_I 1.179 0.98
212_A 217_I 1.177 0.98
133_S 227_F 1.176 0.98
183_I 187_A 1.166 0.97
117_L 121_L 1.165 0.97
145_R 257_E 1.164 0.97
235_A 239_I 1.148 0.97
117_L 120_T 1.147 0.97
72_L 193_S 1.132 0.97
78_E 223_R 1.113 0.96
67_A 263_A 1.107 0.96
106_V 109_L 1.107 0.96
70_M 260_V 1.104 0.96
118_M 144_L 1.091 0.96
311_V 315_V 1.085 0.96
128_V 224_I 1.077 0.95
90_V 238_G 1.077 0.95
279_F 283_L 1.076 0.95
60_A 285_V 1.066 0.95
293_N 296_V 1.066 0.95
263_A 284_G 1.057 0.95
198_F 229_L 1.051 0.94
166_D 169_G 1.049 0.94
98_L 107_A 1.046 0.94
205_V 212_A 1.045 0.94
173_L 180_L 1.043 0.94
119_G 228_T 1.033 0.94
33_I 37_Y 1.032 0.94
164_V 168_L 1.029 0.94
115_G 119_G 1.028 0.94
97_L 102_V 1.027 0.94
85_P 141_W 1.018 0.93
87_V 256_L 1.01 0.93
198_F 222_V 1.007 0.93
304_F 307_V 1.005 0.93
93_C 97_L 1.002 0.92
111_V 239_I 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
2nq2A20.855495.30.904Contact Map0.537
4g1uA20.918791.20.918Contact Map0.526
2qi9A20.861487.80.923Contact Map0.602
2kluA10.123518.20.955Contact Map0.135
2rddB10.093410.40.96Contact Map0.6
2l2tA20.12356.90.963Contact Map0.297
2ksfA10.307260.964Contact Map0.377
2m20A20.09945.40.965Contact Map0.009
2ks1B10.13255.40.965Contact Map0.149
3ukxC10.03613.50.968Contact Map
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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