GREMLIN Database
AMY2 - Cytoplasmic alpha-amylase
UniProt: P26612 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11387
Length: 495 (406)
Sequences: 12912 (8974)
Seq/√Len: 445.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_D93_N4.2451.00
91_K230_D4.2181.00
15_P27_R4.1721.00
89_A92_R3.9801.00
46_K72_S3.9781.00
84_L226_Q3.7261.00
213_T247_E3.5661.00
22_P85_A3.5611.00
89_A93_N3.4221.00
79_D82_Q3.4141.00
132_I196_N3.1631.00
31_F36_I3.1281.00
22_P25_A3.0651.00
25_A89_A3.0081.00
15_P26_E3.0061.00
90_L97_V2.8971.00
25_A85_A2.8041.00
90_L95_I2.7811.00
28_A93_N2.7691.00
46_K59_Y2.7141.00
22_P82_Q2.6541.00
32_N93_N2.6491.00
411_T423_S2.5541.00
329_A369_D2.4361.00
353_A394_Q2.4281.00
423_S432_G2.3571.00
221_R251_H2.3321.00
33_D396_D2.3031.00
393_E396_D2.2441.00
357_L422_F2.1961.00
28_A90_L2.1781.00
352_Y395_L2.1741.00
421_A436_V2.1661.00
4_P37_N2.1641.00
9_C24_L2.1391.00
249_I253_Q2.0931.00
106_K128_I2.0551.00
217_K247_E2.0091.00
221_R225_E1.9861.00
242_A283_G1.9851.00
400_L404_R1.9811.00
85_A89_A1.9811.00
83_L87_I1.9681.00
24_L41_L1.9651.00
22_P26_E1.9591.00
37_N403_Q1.9511.00
215_E218_Y1.9291.00
62_F218_Y1.9271.00
220_A248_W1.9181.00
88_D92_R1.9011.00
198_D202_G1.8881.00
460_D463_G1.8791.00
6_L38_M1.8731.00
224_M260_L1.8651.00
72_S80_K1.8441.00
87_I97_V1.8401.00
106_K205_I1.8311.00
80_K226_Q1.8301.00
425_S432_G1.8291.00
411_T425_S1.8151.00
60_D72_S1.7921.00
80_K222_W1.7491.00
349_P394_Q1.7421.00
418_N440_G1.7361.00
354_L437_M1.7271.00
409_V425_S1.7181.00
39_V90_L1.7061.00
214_E218_Y1.6821.00
350_L437_M1.6751.00
315_T319_A1.6721.00
46_K75_T1.6641.00
103_V216_I1.6601.00
210_H214_E1.6471.00
423_S434_V1.6391.00
111_E115_I1.6341.00
214_E251_H1.6221.00
24_L86_A1.6111.00
83_L99_L1.6111.00
328_V351_A1.6071.00
356_L399_I1.6051.00
221_R256_A1.5891.00
5_T399_I1.5831.00
20_L23_E1.5811.00
345_P349_P1.5631.00
217_K251_H1.5541.00
407_H426_G1.5531.00
316_L319_A1.5451.00
81_A84_L1.5371.00
33_D392_I1.5271.00
62_F222_W1.5211.00
84_L88_D1.5201.00
8_Q42_P1.4851.00
337_Q348_K1.4671.00
125_R194_L1.4661.00
46_K60_D1.4481.00
117_V191_D1.4441.00
307_D310_Q1.4401.00
80_K84_L1.4401.00
246_K283_G1.4371.00
41_L44_A1.4311.00
225_E256_A1.4281.00
188_D195_G1.4181.00
353_A398_L1.4121.00
211_A214_E1.4091.00
81_A85_A1.4041.00
460_D464_N1.3991.00
62_F219_W1.3821.00
115_I118_Q1.3811.00
124_D127_Q1.3741.00
246_K282_E1.3711.00
305_D311_I1.3681.00
183_G186_W1.3621.00
392_I396_D1.3611.00
422_F435_V1.3571.00
382_G385_Y1.3541.00
261_F286_M1.3381.00
44_A73_I1.3361.00
25_A86_A1.3351.00
32_N95_I1.3311.00
315_T318_E1.3281.00
305_D309_T1.3261.00
82_Q85_A1.3251.00
205_I212_V1.3231.00
52_Y109_A1.3191.00
357_L435_V1.3191.00
372_G391_I1.3111.00
127_Q215_E1.2951.00
373_A386_P1.2851.00
108_G203_E1.2831.00
101_V220_A1.2811.00
44_A99_L1.2791.00
309_T312_F1.2631.00
45_Y99_L1.2621.00
114_A117_V1.2571.00
44_A83_L1.2481.00
96_A230_D1.2481.00
215_E219_W1.2441.00
236_A239_H1.2421.00
396_D400_L1.2321.00
18_G76_K1.2291.00
336_L340_E1.2251.00
199_Y202_G1.2071.00
378_V381_D1.2051.00
344_E347_F1.1781.00
98_L231_G1.1781.00
309_T313_T1.1691.00
28_A89_A1.1671.00
397_E400_L1.1661.00
196_N202_G1.1601.00
21_W73_I1.1561.00
416_H445_K1.1531.00
62_F215_E1.1471.00
305_D312_F1.1411.00
4_P38_M1.1381.00
308_M312_F1.1371.00
306_Y310_Q1.1361.00
103_V234_L1.1241.00
128_I132_I1.1241.00
27_R30_G1.1201.00
115_I122_A1.1181.00
393_E397_E1.1041.00
383_Q386_P1.0881.00
329_A336_L1.0871.00
28_A86_A1.0841.00
214_E217_K1.0751.00
98_L261_F1.0711.00
73_I83_L1.0701.00
130_E133_I1.0681.00
119_R123_D1.0651.00
405_F408_G1.0621.00
25_A82_Q1.0601.00
249_I262_I1.0541.00
99_L229_C1.0461.00
183_G188_D1.0421.00
413_F434_V1.0411.00
88_D91_K1.0381.00
184_E187_N1.0341.00
323_H362_V1.0281.00
377_D381_D1.0261.00
127_Q130_E1.0261.00
306_Y312_F1.0251.00
191_D194_L1.0231.00
55_G77_Y1.0201.00
207_F216_I1.0141.00
29_D89_A1.0141.00
185_G188_D1.0091.00
115_I119_R1.0061.00
21_W83_L1.0051.00
197_F202_G1.0051.00
49_S74_P1.0041.00
425_S428_D1.0031.00
85_A88_D1.0001.00
310_Q314_G0.9981.00
304_R307_D0.9981.00
115_I124_D0.9981.00
327_L330_N0.9961.00
122_A125_R0.9901.00
228_Q257_P0.9901.00
29_D33_D0.9901.00
9_C31_F0.9901.00
83_L229_C0.9881.00
426_G431_P0.9851.00
253_Q285_T0.9801.00
308_M311_I0.9781.00
206_D209_N0.9781.00
111_E114_A0.9701.00
349_P391_I0.9621.00
413_F423_S0.9601.00
133_I137_G0.9601.00
350_L439_N0.9571.00
310_Q313_T0.9531.00
21_W44_A0.9461.00
31_F39_V0.9451.00
383_Q387_I0.9331.00
213_T244_F0.9331.00
377_D380_G0.9321.00
195_G202_G0.9301.00
49_S76_K0.9261.00
219_W222_W0.9181.00
273_K276_T0.9171.00
6_L364_S0.9131.00
405_F433_C0.9111.00
276_T279_D0.9071.00
222_W226_Q0.9051.00
428_D431_P0.9041.00
119_R122_A0.9031.00
123_D211_A0.9021.00
220_A252_V0.8981.00
382_G387_I0.8971.00
125_R130_E0.8971.00
288_F292_L0.8951.00
36_I365_V0.8891.00
120_V124_D0.8881.00
289_D326_T0.8881.00
348_K391_I0.8871.00
12_W76_K0.8851.00
103_V220_A0.8801.00
5_T36_I0.8801.00
32_N94_D0.8791.00
263_V364_S0.8781.00
225_E257_P0.8771.00
418_N442_D0.8711.00
120_V125_R0.8681.00
391_I394_Q0.8651.00
357_L405_F0.8651.00
179_N183_G0.8641.00
357_L398_L0.8641.00
106_K212_V0.8641.00
285_T288_F0.8611.00
356_L363_P0.8561.00
114_A118_Q0.8561.00
316_L320_D0.8511.00
109_A114_A0.8481.00
325_V364_S0.8451.00
197_F200_L0.8441.00
48_A59_Y0.8431.00
123_D128_I0.8411.00
384_T387_I0.8411.00
129_D132_I0.8391.00
343_V346_W0.8391.00
133_I136_E0.8381.00
382_G386_P0.8381.00
86_A97_V0.8371.00
45_Y58_S0.8371.00
300_S354_L0.8351.00
128_I131_E0.8341.00
235_D332_D0.8331.00
246_K250_E0.8321.00
214_E247_E0.8301.00
237_V245_Y0.8291.00
240_I245_Y0.8271.00
123_D127_Q0.8251.00
421_A434_V0.8251.00
365_V395_L0.8211.00
418_N445_K0.8211.00
4_P96_A0.8201.00
221_R255_V0.8201.00
36_I95_I0.8201.00
247_E251_H0.8171.00
380_G383_Q0.8171.00
251_H255_V0.8161.00
8_Q11_H0.8161.00
224_M252_V0.8151.00
292_L296_F0.8141.00
213_T217_K0.8101.00
25_A29_D0.8071.00
195_G198_D0.8061.00
235_D265_E0.8051.00
311_I314_G0.8051.00
267_W333_T0.8041.00
192_D195_G0.8011.00
247_E250_E0.7981.00
182_T186_W0.7971.00
217_K248_W0.7971.00
16_E20_L0.7941.00
11_H24_L0.7931.00
233_R332_D0.7931.00
48_A109_A0.7921.00
196_N199_Y0.7921.00
202_G239_H0.7881.00
101_V234_L0.7881.00
118_Q122_A0.7821.00
237_V240_I0.7811.00
121_N124_D0.7781.00
306_Y309_T0.7751.00
46_K74_P0.7721.00
21_W82_Q0.7721.00
38_M98_L0.7711.00
418_N439_N0.7701.00
349_P390_P0.7701.00
183_G187_N0.7691.00
284_K287_L0.7681.00
242_A246_K0.7621.00
317_V320_D0.7611.00
39_V86_A0.7591.00
87_I229_C0.7571.00
194_L197_F0.7571.00
251_H256_A0.7541.00
196_N200_L0.7511.00
11_H42_P0.7511.00
59_Y109_A0.7491.00
354_L439_N0.7461.00
86_A90_L0.7461.00
354_L358_R0.7461.00
126_T129_D0.7431.00
307_D311_I0.7421.00
238_K266_Y0.7411.00
459_R463_G0.7401.00
356_L398_L0.7381.00
127_Q132_I0.7321.00
440_G445_K0.7301.00
450_G454_G0.7271.00
288_F364_S0.7231.00
328_V336_L0.7221.00
263_V325_V0.7201.00
328_V355_I0.7201.00
31_F95_I0.7191.00
19_K23_E0.7191.00
128_I133_I0.7181.00
90_L93_N0.7171.00
304_R311_I0.7161.00
284_K288_F0.7141.00
265_E332_D0.7121.00
275_Q278_I0.7121.00
115_I123_D0.7111.00
279_D282_E0.7071.00
233_R265_E0.7061.00
249_I285_T0.7061.00
298_E302_M0.7061.00
353_A437_M0.7051.00
101_V232_F0.7051.00
197_F201_M0.7041.00
58_S61_L0.7031.00
91_K96_A0.7031.00
346_W349_P0.7021.00
129_D133_I0.6991.00
235_D331_H0.6981.00
173_G176_K0.6971.00
188_D192_D0.6961.00
234_L284_K0.6951.00
134_E172_D0.6941.00
193_E196_N0.6921.00
38_M261_F0.6901.00
118_Q121_N0.6901.00
132_I137_G0.6891.00
288_F293_Q0.6891.00
252_V260_L0.6891.00
352_Y398_L0.6861.00
182_T185_G0.6851.00
433_C461_F0.6851.00
285_T289_D0.6821.00
11_H41_L0.6821.00
298_E301_R0.6801.00
305_D308_M0.6801.00
307_D312_F0.6771.00
313_T412_L0.6741.00
400_L403_Q0.6741.00
105_H331_H0.6741.00
131_E134_E0.6711.00
264_A284_K0.6701.00
124_D128_I0.6701.00
343_V347_F0.6701.00
375_Y379_G0.6691.00
241_P244_F0.6671.00
389_M393_E0.6661.00
304_R417_P0.6651.00
172_D175_F0.6641.00
220_A232_F0.6631.00
306_Y311_I0.6631.00
192_D196_N0.6611.00
30_G33_D0.6601.00
205_I216_I0.6591.00
293_Q297_H0.6591.00
382_G388_D0.6581.00
203_E206_D0.6571.00
123_D126_T0.6571.00
25_A93_N0.6561.00
218_Y222_W0.6561.00
367_Y385_Y0.6541.00
385_Y388_D0.6531.00
412_L420_I0.6521.00
383_Q388_D0.6521.00
173_G177_I0.6511.00
116_R130_E0.6511.00
304_R308_M0.6511.00
198_D201_M0.6501.00
348_K352_Y0.6501.00
371_Y386_P0.6491.00
356_L365_V0.6491.00
196_N201_M0.6470.99
265_E331_H0.6470.99
211_A215_E0.6470.99
218_Y221_R0.6460.99
131_E135_C0.6460.99
119_R124_D0.6440.99
100_D233_R0.6440.99
22_P79_D0.6430.99
122_A127_Q0.6420.99
306_Y417_P0.6420.99
130_E136_E0.6420.99
126_T130_E0.6420.99
410_Q422_F0.6410.99
290_A327_L0.6400.99
184_E188_D0.6390.99
121_N127_Q0.6380.99
56_Y235_D0.6380.99
17_G384_T0.6380.99
36_I399_I0.6370.99
62_F72_S0.6360.99
277_Y280_Q0.6350.99
289_D293_Q0.6340.99
188_D193_E0.6340.99
291_P295_K0.6340.99
61_L106_K0.6330.99
174_I177_I0.6300.99
375_Y381_D0.6300.99
133_I173_G0.6290.99
134_E137_G0.6290.99
91_K97_V0.6280.99
371_Y392_I0.6250.99
275_Q279_D0.6240.99
83_L86_A0.6220.99
292_L358_R0.6180.99
350_L353_A0.6180.99
341_A347_F0.6180.99
188_D194_L0.6170.99
293_Q296_F0.6160.99
120_V123_D0.6150.99
21_W86_A0.6140.99
234_L237_V0.6120.99
295_K298_E0.6110.99
97_V230_D0.6110.99
357_L437_M0.6110.99
73_I80_K0.6100.99
376_E379_G0.6090.99
257_P260_L0.6080.99
286_M362_V0.6080.99
224_M257_P0.6070.99
116_R119_R0.6060.99
250_E255_V0.6050.99
6_L325_V0.6040.99
130_E135_C0.6040.99
238_K267_W0.6030.99
458_W461_F0.6020.99
127_Q133_I0.6010.99
25_A28_A0.6010.99
375_Y378_V0.6000.99
124_D211_A0.6000.99
120_V132_I0.6000.99
447_I451_E0.5990.99
283_G287_L0.5980.99
294_M298_E0.5980.99
33_D400_L0.5970.99
210_H247_E0.5970.99
125_R128_I0.5960.99
52_Y108_G0.5960.99
447_I450_G0.5960.99
104_N204_N0.5930.99
188_D191_D0.5920.99
193_E197_F0.5910.99
38_M96_A0.5900.99
6_L98_L0.5900.99
410_Q420_I0.5900.99
248_W252_V0.5880.99
378_V382_G0.5870.99
291_P294_M0.5860.99
376_E381_D0.5850.99
445_K448_H0.5840.99
315_T320_D0.5840.99
326_T361_G0.5820.99
214_E221_R0.5810.99
278_I322_F0.5800.99
233_R331_H0.5790.99
263_V288_F0.5780.99
101_V216_I0.5780.99
384_T388_D0.5770.99
220_A234_L0.5770.99
236_A240_I0.5770.99
38_M95_I0.5750.99
261_F362_V0.5750.99
83_L97_V0.5740.99
446_T449_L0.5740.99
448_H451_E0.5720.99
242_A276_T0.5700.99
286_M289_D0.5690.99
208_R244_F0.5690.99
12_W49_S0.5680.99
28_A32_N0.5660.99
320_D359_E0.5640.99
53_S57_D0.5620.99
337_Q340_E0.5600.99
303_G312_F0.5600.99
313_T410_Q0.5590.99
30_G34_I0.5590.99
117_V120_V0.5580.99
194_L198_D0.5580.99
245_Y284_K0.5580.99
182_T187_N0.5570.98
194_L202_G0.5570.98
304_R312_F0.5560.98
122_A130_E0.5550.98
112_K205_I0.5550.98
107_M202_G0.5530.98
442_D445_K0.5530.98
181_Y186_W0.5520.98
320_D409_V0.5500.98
216_I220_A0.5500.98
355_I363_P0.5490.98
12_W18_G0.5480.98
330_N333_T0.5480.98
10_F42_P0.5460.98
49_S54_V0.5460.98
103_V219_W0.5460.98
216_I219_W0.5450.98
296_F300_S0.5440.98
312_F315_T0.5440.98
23_E27_R0.5440.98
284_K292_L0.5430.98
26_E29_D0.5410.98
409_V423_S0.5400.98
293_Q333_T0.5400.98
210_H213_T0.5390.98
423_S426_G0.5390.98
326_T355_I0.5370.98
245_Y249_I0.5370.98
135_C172_D0.5360.98
181_Y184_E0.5360.98
313_T317_V0.5350.98
56_Y233_R0.5350.98
249_I256_A0.5340.98
345_P389_M0.5330.98
74_P77_Y0.5330.98
11_H77_Y0.5330.98
136_E172_D0.5320.98
112_K215_E0.5310.98
179_N182_T0.5310.98
455_N458_W0.5310.98
334_Q338_A0.5300.98
191_D195_G0.5300.98
459_R464_N0.5300.98
284_K289_D0.5290.98
334_Q377_D0.5290.98
121_N125_R0.5280.98
345_P391_I0.5280.98
126_T209_N0.5280.98
118_Q124_D0.5260.98
448_H452_N0.5260.98
335_P338_A0.5260.98
303_G306_Y0.5260.98
419_C445_K0.5240.98
305_D313_T0.5240.98
243_W246_K0.5230.98
224_M258_K0.5220.98
287_L292_L0.5210.98
287_L291_P0.5210.98
125_R191_D0.5200.98
58_S102_V0.5200.98
181_Y187_N0.5200.98
6_L362_V0.5200.98
173_G184_E0.5190.98
252_V262_I0.5170.98
336_L351_A0.5160.98
286_M292_L0.5160.98
116_R194_L0.5160.98
399_I403_Q0.5160.98
275_Q280_Q0.5140.97
354_L420_I0.5140.97
87_I91_K0.5140.97
185_G199_Y0.5140.97
221_R224_M0.5130.97
244_F247_E0.5130.97
413_F421_A0.5120.97
438_S441_D0.5120.97
175_F181_Y0.5110.97
244_F249_I0.5100.97
352_Y356_L0.5100.97
287_L290_A0.5090.97
195_G200_L0.5080.97
237_V266_Y0.5080.97
289_D292_L0.5070.97
289_D294_M0.5070.97
47_G57_D0.5060.97
274_L291_P0.5050.97
352_Y355_I0.5040.97
48_A57_D0.5040.97
119_R194_L0.5030.97
124_D132_I0.5020.97
232_F260_L0.5010.97
379_G384_T0.5000.97
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  
3bh4A 1 0.9636 100 0.243 Contact Map
1wpcA 1 0.9556 100 0.245 Contact Map
4uzuA 1 0.9535 100 0.247 Contact Map
1ud2A 1 0.9515 100 0.248 Contact Map
1wzaA 1 0.8606 100 0.259 Contact Map
4e2oA 1 0.8444 100 0.265 Contact Map
2wc7A 2 0.8263 100 0.268 Contact Map
1ea9C 2 0.8444 100 0.272 Contact Map
4wf7A 2 0.8869 100 0.273 Contact Map
1j0hA 2 0.8465 100 0.273 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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