GREMLIN Database
AMIB - N-acetylmuramoyl-L-alanine amidase AmiB
UniProt: P26365 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11363
Length: 445 (375)
Sequences: 1449 (1033)
Seq/√Len: 53.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
348_M379_V5.4051.00
120_T124_T4.2201.00
231_N238_G4.1051.00
227_R231_N4.0921.00
214_R217_N3.9801.00
122_V126_N3.4991.00
121_V124_T3.4341.00
230_L236_F3.2441.00
121_V127_A3.2331.00
198_A223_A3.1061.00
266_V412_L3.1041.00
225_K402_Q3.0241.00
233_D413_R2.9641.00
222_I383_T2.9391.00
229_L406_E2.9061.00
230_L238_G2.9041.00
213_T392_E2.8571.00
121_V126_N2.7731.00
29_Q42_S2.6581.00
59_V102_L2.5171.00
62_D97_R2.5101.00
381_V408_I2.4871.00
198_A241_T2.4251.00
225_K401_Q2.4241.00
213_T396_A2.3951.00
86_R99_V2.3851.00
285_V345_A2.3621.00
122_V127_A2.3171.00
223_A268_I2.2961.00
124_T127_A2.2481.00
236_F413_R2.1571.00
227_R240_L2.1321.00
367_S372_R2.0441.00
209_G392_E2.0291.00
195_A241_T2.0291.00
86_R101_D2.0271.00
264_F412_L2.0261.00
281_A356_G1.9951.00
230_L409_Y1.9951.00
208_I214_R1.9901.00
120_T126_N1.9891.00
193_I237_K1.9321.00
222_I404_L1.9301.00
58_T99_V1.9110.99
272_A387_S1.9030.99
221_A225_K1.8940.99
29_Q38_R1.8820.99
123_F126_N1.8800.99
223_A240_L1.8540.99
300_E304_K1.8520.99
292_N300_E1.8380.99
258_R375_D1.8290.99
229_L402_Q1.8210.99
221_A401_Q1.7850.99
53_H58_T1.7280.99
53_H62_D1.7260.99
62_D99_V1.7250.99
90_P95_T1.6990.99
233_D409_Y1.6900.99
41_L98_L1.6900.99
39_I100_V1.6850.99
279_T394_L1.6760.99
54_Q57_R1.6710.99
86_R97_R1.6660.99
211_G392_E1.6640.99
279_T390_S1.6490.98
283_V349_I1.6480.98
53_H99_V1.6480.98
227_R238_G1.6450.98
58_T86_R1.6410.98
324_Y328_A1.6390.98
252_G255_D1.6350.98
344_V379_V1.6350.98
196_I238_G1.6320.98
51_F60_A1.6150.98
53_H56_K1.6030.98
228_T232_D1.5840.98
62_D86_R1.5700.98
29_Q40_T1.5590.98
58_T62_D1.5060.97
195_A238_G1.5010.97
56_K99_V1.4990.97
285_V342_Y1.4980.97
342_Y345_A1.4940.97
229_L232_D1.4890.97
273_A278_A1.4780.97
225_K398_D1.4730.97
88_G99_V1.4650.97
284_W296_A1.4440.96
196_I223_A1.4350.96
191_K235_M1.4310.96
293_S364_E1.4300.96
400_Y404_L1.4280.96
38_R124_T1.3980.96
254_S373_S1.3610.95
271_D282_S1.3570.95
60_A99_V1.3550.95
249_S252_G1.3520.95
349_I358_I1.3520.95
40_T120_T1.3510.95
61_L100_V1.3480.95
91_K95_T1.3420.95
43_F47_P1.3360.95
391_E400_Y1.3260.94
195_A256_V1.3170.94
250_V369_G1.3140.94
190_D263_N1.3080.94
193_I239_V1.3060.94
225_K228_T1.2930.93
111_V115_N1.2890.93
56_K86_R1.2860.93
194_I264_F1.2840.93
275_N278_A1.2800.93
58_T97_R1.2700.93
41_L63_I1.2690.93
353_Q358_I1.2560.92
342_Y365_H1.2540.92
273_A276_R1.2530.92
40_T122_V1.2390.92
62_D88_G1.2330.92
29_Q124_T1.2320.92
28_I39_I1.2290.92
192_I416_F1.2270.92
239_V256_V1.2210.91
38_R111_V1.2130.91
31_S203_Q1.2100.91
191_K237_K1.2070.91
224_R243_D1.2070.91
80_N103_T1.2010.91
29_Q122_V1.1950.90
123_F127_A1.1900.90
29_Q113_R1.1890.90
120_T123_F1.1880.90
219_T240_L1.1880.90
282_S400_Y1.1870.90
372_R376_I1.1870.90
304_K368_L1.1850.90
137_P141_K1.1790.90
53_H97_R1.1730.90
29_Q37_A1.1680.89
352_L404_L1.1670.89
137_P140_A1.1640.89
196_I227_R1.1580.89
31_S34_N1.1550.89
117_S122_V1.1540.89
295_M334_F1.1520.89
120_T127_A1.1500.89
56_K62_D1.1480.89
264_F344_V1.1470.89
29_Q111_V1.1430.88
351_Q414_N1.1360.88
392_E396_A1.1350.88
258_R373_S1.1280.88
300_E303_E1.1240.88
53_H86_R1.0990.86
33_G203_Q1.0950.86
23_A44_I1.0900.86
268_I383_T1.0870.86
63_I66_T1.0820.85
266_V381_V1.0790.85
271_D281_A1.0760.85
121_V125_I1.0760.85
278_A359_H1.0730.85
258_R374_P1.0730.85
195_A198_A1.0720.85
195_A262_A1.0710.85
394_L400_Y1.0650.85
296_A300_E1.0630.84
31_S111_V1.0600.84
211_G389_N1.0540.84
91_K94_Q1.0530.84
338_Q365_H1.0410.83
328_A332_L1.0400.83
351_Q354_R1.0370.83
356_G384_G1.0330.83
12_T15_L1.0330.83
49_Y198_A1.0300.83
111_V124_T1.0280.82
265_L368_L1.0270.82
198_A219_T1.0250.82
38_R122_V1.0250.82
62_D101_D1.0170.82
42_S120_T1.0150.82
408_I412_L1.0110.81
229_L233_D1.0040.81
59_V106_G0.9970.80
313_G318_N0.9940.80
59_V407_A0.9920.80
239_V260_Q0.9910.80
390_S394_L0.9910.80
122_V128_D0.9890.80
38_R113_R0.9880.80
394_L397_S0.9860.80
117_S120_T0.9860.80
113_R124_T0.9850.80
117_S124_T0.9830.79
285_V292_N0.9830.79
17_C21_G0.9810.79
388_N392_E0.9760.79
251_M294_E0.9750.79
296_A304_K0.9700.79
250_V368_L0.9640.78
285_V365_H0.9610.78
209_G218_V0.9540.77
138_V141_K0.9530.77
56_K97_R0.9500.77
58_T88_G0.9460.77
102_L106_G0.9450.77
122_V129_V0.9430.77
229_L409_Y0.9360.76
51_F62_D0.9270.75
20_V44_I0.9250.75
247_F250_V0.9200.75
209_G391_E0.9170.75
42_S124_T0.9110.74
285_V363_P0.9100.74
12_T19_P0.9100.74
291_A372_R0.9070.74
61_L123_F0.8990.73
65_Q94_Q0.8910.72
16_L20_V0.8900.72
196_I230_L0.8890.72
292_N304_K0.8870.72
90_P93_A0.8870.72
334_F337_S0.8860.72
254_S376_I0.8860.72
313_G333_Q0.8850.72
88_G97_R0.8840.72
351_Q410_K0.8780.71
129_V180_P0.8750.71
383_T408_I0.8720.71
211_G403_Q0.8680.70
222_I400_Y0.8640.70
19_P22_A0.8630.70
252_G256_V0.8620.70
293_S300_E0.8570.69
298_W376_I0.8560.69
345_A358_I0.8560.69
31_S38_R0.8540.69
285_V338_Q0.8510.69
288_N335_G0.8490.69
251_M369_G0.8460.68
359_H364_E0.8330.67
53_H60_A0.8330.67
348_M408_I0.8320.67
356_G400_Y0.8310.67
51_F86_R0.8280.67
208_I392_E0.8270.67
124_T128_D0.8250.66
198_A244_G0.8230.66
359_H386_I0.8220.66
84_A101_D0.8190.66
254_S369_G0.8160.66
50_A64_K0.8160.66
129_V133_P0.8160.66
53_H88_G0.8140.65
51_F99_V0.8140.65
35_Q40_T0.8130.65
304_K307_E0.8100.65
119_Y122_V0.8090.65
340_V415_Y0.8050.65
40_T124_T0.8020.64
402_Q406_E0.8000.64
31_S113_R0.7930.63
129_V132_P0.7920.63
323_P327_Q0.7890.63
58_T101_D0.7880.63
236_F384_G0.7850.63
196_I226_L0.7810.62
38_R120_T0.7800.62
333_Q337_S0.7790.62
119_Y124_T0.7780.62
13_L16_L0.7740.61
51_F97_R0.7710.61
121_V128_D0.7700.61
299_L368_L0.7670.61
255_D259_K0.7650.61
334_F384_G0.7650.61
33_G36_Q0.7640.60
300_E368_L0.7620.60
51_F58_T0.7590.60
254_S294_E0.7590.60
225_K229_L0.7550.60
345_A365_H0.7530.59
332_L375_D0.7520.59
42_S122_V0.7520.59
281_A384_G0.7510.59
9_L14_L0.7500.59
108_T111_V0.7460.59
265_L304_K0.7460.59
222_I401_Q0.7440.58
227_R243_D0.7430.58
333_Q336_H0.7430.58
207_A386_I0.7410.58
14_L19_P0.7400.58
307_E311_G0.7330.57
258_R376_I0.7310.57
276_R404_L0.7280.57
300_E307_E0.7280.57
116_G122_V0.7280.57
97_R101_D0.7240.56
325_L411_G0.7240.56
399_D403_Q0.7230.56
179_R194_I0.7230.56
13_L194_I0.7200.56
340_V411_G0.7160.56
349_I353_Q0.7120.55
14_L18_T0.7110.55
209_G386_I0.7110.55
222_I226_L0.7090.55
198_A227_R0.7090.55
18_T21_G0.7040.54
121_V129_V0.7030.54
49_Y110_A0.7020.54
115_N119_Y0.7020.54
38_R42_S0.7010.54
255_D319_S0.7010.54
194_I236_F0.6980.54
29_Q126_N0.6980.54
107_K185_T0.6980.54
318_N321_S0.6950.53
88_G101_D0.6940.53
115_N127_A0.6940.53
364_E384_G0.6930.53
343_D419_H0.6910.53
237_K403_Q0.6900.53
287_S292_N0.6890.53
279_T357_E0.6860.52
31_S124_T0.6860.52
301_Q387_S0.6840.52
318_N326_S0.6830.52
81_L106_G0.6830.52
90_P99_V0.6800.52
328_A373_S0.6800.52
326_S333_Q0.6780.52
339_R384_G0.6770.51
226_L409_Y0.6760.51
228_T402_Q0.6730.51
11_A14_L0.6730.51
18_T98_L0.6730.51
293_S304_K0.6720.51
271_D359_H0.6700.51
236_F416_F0.6690.51
29_Q115_N0.6690.51
334_F374_P0.6660.50
217_N221_A0.6660.50
16_L21_G0.6640.50
115_N121_V0.6640.50
56_K60_A0.6630.50
258_R271_D0.6630.50
224_R227_R0.6620.50
296_A303_E0.6620.50
273_A359_H0.6610.50
266_V379_V0.6600.50
251_M318_N0.6600.50
364_E386_I0.6600.50
28_I47_P0.6600.50
10_V15_L0.6600.50
294_E297_S0.6590.50
68_V82_V0.6580.49
52_S59_V0.6580.49
332_L336_H0.6570.49
183_R186_A0.6570.49
205_P214_R0.6560.49
77_S80_N0.6560.49
222_I405_A0.6540.49
115_N122_V0.6540.49
304_K341_G0.6530.49
11_A21_G0.6530.49
98_L241_T0.6500.49
56_K88_G0.6490.48
107_K182_A0.6490.48
27_D42_S0.6480.48
367_S374_P0.6470.48
272_A359_H0.6460.48
87_S96_L0.6450.48
246_Y249_S0.6450.48
290_R293_S0.6440.48
299_L311_G0.6430.48
16_L19_P0.6430.48
41_L46_D0.6430.48
57_R105_N0.6420.48
49_Y344_V0.6420.48
123_F128_D0.6400.48
89_T95_T0.6400.48
300_E363_P0.6400.48
271_D375_D0.6400.48
42_S111_V0.6400.48
294_E298_W0.6390.47
258_R282_S0.6380.47
254_S374_P0.6370.47
46_D63_I0.6350.47
13_L24_T0.6350.47
271_D283_V0.6340.47
243_D384_G0.6260.46
236_F409_Y0.6260.46
179_R187_N0.6250.46
254_S265_L0.6240.46
119_Y125_I0.6240.46
16_L177_V0.6230.46
31_S35_Q0.6220.46
381_V411_G0.6180.45
228_T231_N0.6150.45
20_V24_T0.6140.45
287_S367_S0.6140.45
212_G288_N0.6140.45
194_I226_L0.6130.45
87_S98_L0.6120.45
297_S301_Q0.6120.45
273_A298_W0.6120.45
278_A383_T0.6110.44
294_E369_G0.6100.44
222_I268_I0.6090.44
224_R244_G0.6080.44
290_R304_K0.6060.44
180_P184_A0.6050.44
116_G121_V0.6050.44
11_A18_T0.6050.44
17_C28_I0.6040.44
384_G409_Y0.6020.44
284_W365_H0.6010.43
256_V260_Q0.6000.43
31_S42_S0.5970.43
15_L20_V0.5960.43
241_T248_I0.5940.43
226_L408_I0.5940.43
219_T270_A0.5940.43
290_R368_L0.5930.43
295_M376_I0.5930.43
287_S307_E0.5930.43
357_E384_G0.5920.42
384_G400_Y0.5900.42
38_R216_K0.5880.42
68_V96_L0.5880.42
13_L18_T0.5870.42
213_T401_Q0.5860.42
141_K171_V0.5840.42
251_M320_Q0.5820.41
330_L372_R0.5810.41
252_G259_K0.5810.41
336_H340_V0.5790.41
258_R337_S0.5770.41
205_P208_I0.5770.41
307_E310_G0.5760.41
98_L350_S0.5760.41
180_P183_R0.5740.41
281_A352_L0.5740.41
209_G212_G0.5740.41
240_L268_I0.5720.40
29_Q35_Q0.5710.40
194_I407_A0.5710.40
37_A124_T0.5710.40
415_Y419_H0.5700.40
386_I392_E0.5680.40
217_N396_A0.5670.40
115_N120_T0.5660.40
118_N124_T0.5660.40
133_P140_A0.5660.40
212_G345_A0.5660.40
56_K291_A0.5660.40
28_I397_S0.5650.40
117_S128_D0.5640.40
209_G407_A0.5640.40
254_S367_S0.5640.40
68_V87_S0.5630.40
233_D236_F0.5630.40
258_R311_G0.5620.39
272_A386_I0.5620.39
17_C24_T0.5610.39
306_S310_G0.5600.39
209_G213_T0.5600.39
10_V13_L0.5600.39
289_R367_S0.5590.39
42_S115_N0.5570.39
24_T218_V0.5570.39
207_A226_L0.5560.39
16_L230_L0.5550.39
32_N79_N0.5540.39
90_P328_A0.5540.39
220_I250_V0.5540.39
209_G216_K0.5530.39
32_N36_Q0.5520.38
249_S278_A0.5520.38
52_S57_R0.5520.38
42_S113_R0.5520.38
271_D373_S0.5500.38
231_N408_I0.5480.38
112_K266_V0.5480.38
65_Q93_A0.5470.38
194_I309_L0.5470.38
34_N203_Q0.5460.38
262_A378_S0.5450.38
355_I407_A0.5450.38
290_R367_S0.5440.38
82_V102_L0.5440.38
39_I61_L0.5430.38
40_T111_V0.5430.38
91_K399_D0.5430.38
335_G363_P0.5420.37
248_I299_L0.5400.37
321_S326_S0.5400.37
27_D40_T0.5390.37
351_Q407_A0.5390.37
383_T395_L0.5390.37
236_F411_G0.5380.37
394_L403_Q0.5380.37
60_A86_R0.5380.37
292_N365_H0.5370.37
29_Q34_N0.5360.37
390_S397_S0.5360.37
178_T194_I0.5350.37
286_L372_R0.5350.37
65_Q350_S0.5340.37
193_I398_D0.5320.36
254_S330_L0.5320.36
219_T348_M0.5310.36
24_T61_L0.5300.36
284_W364_E0.5290.36
63_I352_L0.5290.36
358_I365_H0.5290.36
305_Q313_G0.5290.36
247_F307_E0.5280.36
60_A97_R0.5270.36
347_S411_G0.5270.36
344_V407_A0.5270.36
210_P392_E0.5260.36
283_V381_V0.5260.36
344_V416_F0.5250.36
285_V364_E0.5250.36
73_P406_E0.5240.36
247_F353_Q0.5230.36
32_N81_L0.5230.36
272_A276_R0.5200.35
265_L363_P0.5200.35
285_V297_S0.5200.35
358_I407_A0.5200.35
363_P368_L0.5190.35
337_S375_D0.5170.35
278_A420_P0.5170.35
218_V343_D0.5170.35
379_V411_G0.5150.35
71_G74_L0.5130.35
190_D420_P0.5110.34
10_V14_L0.5110.34
374_P415_Y0.5100.34
400_Y403_Q0.5100.34
78_G100_V0.5100.34
18_T22_A0.5090.34
61_L77_S0.5090.34
409_Y413_R0.5070.34
243_D350_S0.5070.34
179_R182_A0.5070.34
323_P408_I0.5060.34
329_V345_A0.5040.34
341_G363_P0.5040.34
287_S330_L0.5040.34
61_L225_K0.5030.34
334_F339_R0.5020.34
257_A376_I0.5020.34
282_S369_G0.5020.34
111_V120_T0.5010.33
243_D356_G0.5000.33
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 0.7663 100 0.289 Contact Map
3ne8A 2 0.5056 100 0.466 Contact Map
4rn7A 1 0.4135 100 0.551 Contact Map
1jwqA 1 0.4 100 0.553 Contact Map
4lq6A 1 0.4135 100 0.561 Contact Map
1xovA 1 0.4517 100 0.565 Contact Map
3czxA 2 0.3955 100 0.577 Contact Map
3qayA 1 0.3843 100 0.598 Contact Map
4av2A 3 0.4629 99.1 0.9 Contact Map
4aqzA 1 0.2742 96.2 0.947 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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