GREMLIN Database
AMIA - N-acetylmuramoyl-L-alanine amidase AmiA
UniProt: P36548 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11823
Length: 289 (237)
Sequences: 2036 (1305)
Seq/√Len: 84.8

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
87_I243_T4.6881.00
208_I239_V4.3201.00
79_K82_H3.7391.00
90_N262_Q3.3601.00
92_R104_L3.2321.00
86_A261_R3.1861.00
58_V101_D3.1271.00
92_R96_R2.9941.00
96_R102_A2.9131.00
63_P88_A2.8781.00
78_S252_E2.8291.00
74_G252_E2.7601.00
94_I266_T2.6231.00
130_M272_V2.5931.00
61_L88_A2.5701.00
78_S256_G2.4641.00
88_A132_I2.3401.00
90_N261_R2.3261.00
103_R120_I2.3051.00
135_D146_S2.3051.00
241_V268_I2.2731.00
204_L239_V2.2391.00
116_D119_E2.1901.00
72_A246_I2.1641.00
86_A90_N2.1041.00
95_L100_I2.0591.00
90_N258_A2.0371.00
76_N252_E2.0311.00
209_L220_S2.0271.00
113_P116_D1.9291.00
147_V209_L1.8881.00
63_P105_T1.8881.00
60_V105_T1.7931.00
73_I79_K1.7771.00
84_V134_A1.7721.00
95_L102_A1.7091.00
171_D176_K1.6961.00
171_D174_A1.6921.00
137_F142_A1.6721.00
58_V103_R1.6611.00
103_R124_H1.6571.00
164_S168_N1.6561.00
93_S96_R1.6541.00
60_V126_A1.6281.00
227_A232_K1.6231.00
100_I273_I1.6101.00
88_A104_L1.6011.00
94_I269_A1.5751.00
132_I243_T1.5651.00
93_S97_N1.5641.00
91_V268_I1.5591.00
95_L269_A1.5201.00
94_I262_Q1.5201.00
94_I97_N1.4850.99
243_T264_I1.4690.99
164_S167_E1.4620.99
149_A202_L1.4470.99
90_N93_S1.4380.99
207_H271_G1.4330.99
173_V176_K1.4310.99
128_L204_L1.4060.99
60_V120_I1.3990.99
143_A254_L1.3870.99
143_A250_E1.3790.99
254_L260_F1.3660.99
57_R276_F1.3600.99
122_H235_S1.3580.99
149_A205_G1.3510.99
145_A216_H1.3460.99
254_L263_K1.3240.99
136_G247_T1.3160.99
252_E256_G1.3030.99
211_K214_P1.3010.98
92_R102_A1.2820.98
211_K270_E1.2700.98
56_K101_D1.2700.98
204_L208_I1.2540.98
90_N94_I1.2490.98
211_K274_S1.2410.98
115_Y229_V1.2400.98
257_T260_F1.2380.98
116_D123_K1.2290.98
120_I124_H1.2270.98
135_D145_A1.2220.98
153_R227_A1.1900.97
118_V233_S1.1820.97
148_F245_F1.1760.97
128_L272_V1.1590.97
171_D175_G1.1540.97
87_I132_I1.1430.97
184_L188_V1.1420.97
145_A212_I1.1380.96
114_L229_V1.1370.96
87_I264_I1.1350.96
112_I116_D1.1350.96
81_K109_D1.1350.96
91_V269_A1.1340.96
63_P84_V1.1260.96
251_E260_F1.1250.96
111_F114_L1.1190.96
202_L225_Q1.1100.96
119_E123_K1.0960.96
118_V234_P1.0950.96
121_A236_V1.0870.95
122_H236_V1.0840.95
160_A164_S1.0780.95
110_T113_P1.0650.95
259_A263_K1.0400.94
59_V91_V1.0240.94
216_H244_S1.0170.93
202_L205_G1.0140.93
118_V229_V1.0060.93
212_I241_V1.0060.93
198_I225_Q1.0060.93
92_R107_S1.0020.93
156_S164_S0.9950.93
70_T73_I0.9850.92
172_E176_K0.9810.92
68_I111_F0.9780.92
209_L218_L0.9700.92
122_H234_P0.9670.92
95_L272_V0.9590.91
207_H278_W0.9560.91
61_L95_L0.9560.91
61_L102_A0.9530.91
211_K271_G0.9450.91
56_K99_G0.9290.90
89_K108_G0.9240.90
262_Q266_T0.9230.90
269_A273_I0.9210.90
59_V100_I0.9200.89
91_V132_I0.9170.89
48_P51_K0.9170.89
250_E254_L0.9140.89
266_T270_E0.9090.89
243_T255_L0.8980.88
69_D111_F0.8970.88
129_F230_V0.8920.88
148_F226_A0.8810.87
61_L91_V0.8800.87
60_V102_A0.8780.87
189_L196_D0.8720.87
89_K107_S0.8690.87
215_V267_A0.8660.86
43_N46_S0.8620.86
70_T79_K0.8610.86
78_S83_V0.8570.86
178_A181_K0.8560.86
244_S260_F0.8550.86
148_F160_A0.8400.85
43_N48_P0.8340.84
87_I265_A0.8340.84
130_M239_V0.8320.84
274_S277_H0.8260.84
213_K218_L0.8230.84
229_V232_K0.8190.83
243_T268_I0.8170.83
116_D120_I0.8130.83
248_N252_E0.8130.83
87_I261_R0.8120.83
96_R107_S0.8110.83
107_S244_S0.8100.83
100_I276_F0.7990.82
263_K267_A0.7960.81
162_Y165_E0.7890.81
158_A161_K0.7890.81
254_L257_T0.7890.81
156_S160_A0.7870.81
122_H233_S0.7820.80
146_S260_F0.7820.80
260_F264_I0.7790.80
139_N142_A0.7760.80
157_S224_E0.7730.80
59_V128_L0.7700.79
194_Q197_T0.7660.79
154_G227_A0.7650.79
158_A162_Y0.7560.78
178_A186_Q0.7540.78
137_F140_P0.7510.78
211_K267_A0.7470.77
55_G127_D0.7420.77
89_K92_R0.7420.77
223_T228_F0.7370.76
188_V192_L0.7350.76
149_A198_I0.7330.76
206_S210_K0.7310.76
61_L92_R0.7300.76
91_V265_A0.7280.75
77_G256_G0.7270.75
142_A219_H0.7210.75
147_V220_S0.7160.74
159_M194_Q0.7150.74
134_A246_I0.7090.73
177_K180_D0.7080.73
145_A238_S0.7080.73
54_G250_E0.7030.73
160_A168_N0.7030.73
43_N50_A0.7020.73
84_V132_I0.7010.73
91_V272_V0.7000.72
100_I269_A0.6980.72
59_V95_L0.6970.72
88_A91_V0.6930.72
232_K236_V0.6920.72
114_L228_F0.6900.71
172_E178_A0.6890.71
143_A251_E0.6890.71
209_L213_K0.6880.71
146_S245_F0.6860.71
45_H49_K0.6850.71
63_P92_R0.6840.71
207_H274_S0.6800.70
48_P54_G0.6780.70
203_T278_W0.6730.69
185_L189_L0.6730.69
74_G83_V0.6690.69
76_N249_P0.6660.69
115_Y158_A0.6660.69
180_D183_H0.6650.69
190_F193_V0.6640.68
78_S246_I0.6600.68
82_H86_A0.6560.68
123_K190_F0.6550.67
194_Q198_I0.6540.67
154_G157_S0.6520.67
129_F168_N0.6480.67
183_H187_Q0.6470.66
43_N51_K0.6470.66
213_K220_S0.6460.66
152_N195_T0.6440.66
91_V130_M0.6440.66
253_R256_G0.6440.66
193_V196_D0.6410.66
166_R186_Q0.6360.65
135_D222_N0.6360.65
114_L230_V0.6330.65
160_A167_E0.6330.65
149_A223_T0.6300.64
215_V270_E0.6280.64
65_H242_E0.6270.64
64_G242_E0.6270.64
197_T234_P0.6270.64
181_K186_Q0.6250.64
268_I272_V0.6250.64
141_K250_E0.6230.64
167_E170_A0.6220.63
164_S247_T0.6190.63
99_G102_A0.6180.63
200_N275_Y0.6170.63
148_F228_F0.6160.63
195_T202_L0.6150.63
49_K52_K0.6140.62
193_V197_T0.6140.62
129_F228_F0.6140.62
64_G133_H0.6120.62
65_H133_H0.6120.62
156_S168_N0.6100.62
126_A238_S0.6080.62
218_L251_E0.6070.62
250_E253_R0.6070.62
147_V241_V0.6050.61
145_A260_F0.6050.61
67_G71_G0.6040.61
83_V256_G0.6030.61
74_G78_S0.6000.61
204_L271_G0.5980.60
83_V195_T0.5970.60
137_F219_H0.5970.60
210_K274_S0.5960.60
194_Q244_S0.5900.59
75_R140_P0.5870.59
66_G69_D0.5870.59
82_H256_G0.5860.59
137_F248_N0.5860.59
63_P104_L0.5850.59
244_S251_E0.5830.58
133_H242_E0.5800.58
168_N201_S0.5790.58
128_L237_P0.5780.58
198_I275_Y0.5760.58
56_K100_I0.5760.58
78_S104_L0.5760.58
83_V134_A0.5750.57
89_K104_L0.5720.57
63_P120_I0.5720.57
187_Q190_F0.5710.57
149_A225_Q0.5690.57
190_F194_Q0.5690.57
259_A277_H0.5680.57
56_K115_Y0.5670.56
219_H246_I0.5660.56
45_H48_P0.5650.56
249_P270_E0.5650.56
148_F163_L0.5650.56
148_F224_E0.5640.56
185_L188_V0.5620.56
154_G232_K0.5580.55
192_L196_D0.5560.55
258_A262_Q0.5540.55
73_I266_T0.5530.55
105_T120_I0.5490.54
108_G112_I0.5480.54
59_V272_V0.5470.54
229_V233_S0.5460.54
46_S50_A0.5430.53
118_V158_A0.5430.53
208_I268_I0.5420.53
269_A272_V0.5410.53
179_T187_Q0.5410.53
208_I241_V0.5390.53
58_V99_G0.5380.53
44_G48_P0.5370.52
118_V236_V0.5370.52
68_I175_G0.5370.52
145_A244_S0.5370.52
43_N47_K0.5360.52
47_K277_H0.5360.52
258_A261_R0.5360.52
168_N171_D0.5350.52
150_L238_S0.5340.52
94_I265_A0.5330.52
161_K195_T0.5320.52
75_R83_V0.5300.51
233_S238_S0.5300.51
162_Y236_V0.5290.51
164_S226_A0.5290.51
60_V63_P0.5290.51
119_E179_T0.5270.51
45_H50_A0.5270.51
218_L254_L0.5270.51
212_I264_I0.5260.51
142_A247_T0.5260.51
157_S228_F0.5250.51
47_K52_K0.5240.51
150_L228_F0.5220.50
250_E263_K0.5200.50
153_R226_A0.5190.50
154_G161_K0.5180.50
135_D219_H0.5180.50
250_E270_E0.5140.49
176_K179_T0.5130.49
100_I272_V0.5130.49
70_T192_L0.5120.49
189_L192_L0.5120.49
83_V252_E0.5110.49
251_E256_G0.5110.49
210_K216_H0.5100.49
253_R277_H0.5090.49
143_A219_H0.5080.49
85_L89_K0.5070.48
72_A134_A0.5060.48
99_G272_V0.5050.48
209_L223_T0.5030.48
146_S229_V0.5020.48
205_G223_T0.5010.48
47_K50_A0.5000.47
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) 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 % HHΔ  
4binA 1 0.8651 100 0.205 Contact Map
3ne8A 2 0.7751 100 0.237 Contact Map
1jwqA 1 0.6125 100 0.324 Contact Map
4rn7A 1 0.6332 100 0.325 Contact Map
4lq6A 1 0.6367 100 0.336 Contact Map
1xovA 1 0.6401 100 0.351 Contact Map
3czxA 2 0.6055 100 0.366 Contact Map
3qayA 1 0.5917 100 0.388 Contact Map
4axvA 2 0.6644 27.6 0.96 Contact Map
2h9aB 1 0.4983 18.2 0.963 Contact 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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