May 4, 2021 - We are working on upgrading the webserver, some pages may not work.
OPENSEQ.org
AMIA - N-acetylmuramoyl-L-alanine amidase AmiA
UniProt: P36548 Sequence
 Download Alignment
We filter this alignment to remove sites that have > 75% gaps before running GREMLIN.
EcoGene: EG11823
Length: 289 (230)
Sequences: 726
Seq/Len: 3.16
AMIA
Paralog alert: 0.47 [within 20: 0.00] - ratio of genomes with paralogs
Cluster includes: AMIA AMIB AMIC
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
208_I 239_V 4.997 1.00
87_I 243_T 3.309 1.00
130_M 272_V 3.233 1.00
79_K 82_H 2.987 1.00
78_S 256_G 2.745 1.00
96_R 102_A 2.714 1.00
78_S 252_E 2.691 1.00
90_N 262_Q 2.394 1.00
87_I 264_I 2.296 1.00
74_G 252_E 2.273 1.00
135_D 146_S 2.245 1.00
90_N 261_R 2.207 1.00
63_P 105_T 2.114 1.00
88_A 104_L 2.109 1.00
92_R 96_R 2.071 1.00
95_L 100_I 2.06 1.00
86_A 261_R 2.056 1.00
241_V 268_I 1.927 1.00
204_L 239_V 1.887 0.99
94_I 266_T 1.858 0.99
227_A 232_K 1.847 0.99
73_I 79_K 1.766 0.99
63_P 88_A 1.742 0.99
149_A 202_L 1.73 0.99
58_V 101_D 1.632 0.98
86_A 90_N 1.618 0.98
116_D 119_E 1.61 0.98
164_S 168_N 1.602 0.98
100_I 273_I 1.58 0.97
92_R 102_A 1.568 0.97
92_R 104_L 1.479 0.96
202_L 205_G 1.472 0.96
202_L 225_Q 1.45 0.95
254_L 260_F 1.432 0.95
59_V 128_L 1.42 0.94
88_A 132_I 1.415 0.94
149_A 205_G 1.412 0.94
266_T 270_E 1.403 0.94
95_L 102_A 1.39 0.93
122_H 235_S 1.378 0.93
84_V 134_A 1.35 0.92
145_A 216_H 1.329 0.91
135_D 145_A 1.311 0.90
113_P 116_D 1.284 0.89
147_V 209_L 1.282 0.89
58_V 103_R 1.279 0.89
87_I 132_I 1.274 0.89
145_A 212_I 1.274 0.89
143_A 247_T 1.267 0.88
216_H 244_S 1.262 0.88
60_V 105_T 1.256 0.88
143_A 250_E 1.253 0.88
61_L 88_A 1.247 0.87
128_L 272_V 1.246 0.87
251_E 260_F 1.236 0.87
100_I 244_S 1.223 0.86
136_G 247_T 1.208 0.85
94_I 269_A 1.196 0.84
75_R 249_P 1.186 0.83
262_Q 266_T 1.184 0.83
211_K 274_S 1.181 0.83
135_D 222_N 1.162 0.82
94_I 97_N 1.157 0.81
263_K 270_E 1.144 0.80
268_I 271_G 1.141 0.80
114_L 229_V 1.138 0.80
209_L 220_S 1.133 0.79
104_L 132_I 1.131 0.79
60_V 102_A 1.127 0.79
116_D 120_I 1.127 0.79
90_N 258_A 1.125 0.79
254_L 263_K 1.125 0.79
244_S 260_F 1.123 0.78
164_S 247_T 1.117 0.78
223_T 228_F 1.114 0.78
198_I 225_Q 1.107 0.77
137_F 140_P 1.106 0.77
103_R 124_H 1.106 0.77
95_L 269_A 1.102 0.77
111_F 114_L 1.096 0.76
72_A 246_I 1.095 0.76
243_T 255_L 1.084 0.75
93_S 96_R 1.08 0.75
139_N 142_A 1.07 0.74
136_G 246_I 1.056 0.72
136_G 220_S 1.053 0.72
250_E 253_R 1.049 0.72
128_L 204_L 1.048 0.71
206_S 210_K 1.046 0.71
63_P 84_V 1.045 0.71
115_Y 158_A 1.044 0.71
146_S 245_F 1.044 0.71
59_V 272_V 1.039 0.70
194_Q 197_T 1.038 0.70
146_S 229_V 1.029 0.69
74_G 83_V 1.023 0.69
145_A 218_L 1.021 0.69
178_A 186_Q 1.019 0.68
130_M 239_V 1.019 0.68
164_S 226_A 1.017 0.68
91_V 268_I 1.015 0.68
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
4binA10.96541000.301Contact Map0.747
3ne8A10.80281000.334Contact Map0.692
1jwqA10.61251000.435Contact Map0.661
4m6gA10.67821000.446Contact Map0.644
1xovA10.67821000.456Contact Map0.71
3czxA40.60551000.471Contact Map0.695
3qayA40.59171000.49Contact Map0.665
1vr6A40.328720.30.969Contact Map0.057
1wtyA40.384113.40.972Contact Map0.124
3s1sA10.3529100.973Contact Map0.104
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 0.0219 seconds.