GREMLIN Database
AAPA - Amino-acid permease AapA
UniProt: O06005 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 462 (427)
Sequences: 24746 (15941)
Seq/√Len: 771.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
144_L348_S4.4261.00
330_L342_N4.2991.00
390_K394_T3.4901.00
382_G417_L3.2981.00
61_G253_L3.2691.00
239_K243_K3.1211.00
333_K342_N3.0851.00
21_K235_E2.9311.00
85_V324_D2.7951.00
234_T240_V2.7751.00
101_G321_L2.7251.00
236_N239_K2.6631.00
322_A332_K2.5611.00
137_L352_L2.5531.00
335_T341_S2.5471.00
176_G262_V2.5331.00
26_Q247_Q2.4751.00
232_G323_K2.4751.00
330_L333_K2.4581.00
22_N247_Q2.4221.00
290_V294_L2.4181.00
174_V178_L2.3571.00
73_E392_R2.3221.00
385_V416_T2.2531.00
22_N240_V2.2381.00
233_E316_R2.2371.00
89_R97_A2.2241.00
145_I149_A2.2121.00
345_F349_I2.2091.00
319_Y323_K2.1611.00
152_K156_E2.1501.00
25_I234_T2.1121.00
141_I352_L2.1101.00
442_V445_V2.0991.00
22_N26_Q2.0901.00
281_Q284_S2.0671.00
144_L344_L2.0651.00
414_Y418_A2.0371.00
148_L341_S2.0281.00
449_I453_V2.0221.00
92_L390_K2.0031.00
243_K247_Q1.9981.00
136_G355_V1.9821.00
70_S385_V1.9721.00
448_I452_K1.9671.00
445_V449_I1.9641.00
137_L355_V1.9461.00
89_R94_N1.9411.00
163_L167_I1.9391.00
105_W347_S1.9331.00
21_K24_H1.9261.00
16_L334_L1.9151.00
62_V66_F1.9061.00
331_L346_F1.8991.00
325_H329_G1.8821.00
281_Q285_A1.8551.00
45_S53_I1.8491.00
335_T339_V1.8361.00
386_I417_L1.7981.00
92_L386_I1.7881.00
411_L415_L1.7831.00
447_L450_L1.7771.00
246_N250_V1.7751.00
236_N240_V1.7711.00
24_H159_F1.7531.00
88_V100_T1.7381.00
438_F442_V1.7341.00
147_N308_N1.7331.00
52_S210_F1.7101.00
56_A213_S1.6931.00
141_I348_S1.6911.00
268_P271_V1.6841.00
29_A248_I1.6821.00
100_T383_I1.6801.00
140_L351_I1.6671.00
26_Q251_R1.6621.00
93_G96_A1.6541.00
112_A351_I1.6511.00
20_L24_H1.6471.00
442_V446_L1.6441.00
418_A422_F1.6421.00
148_L345_F1.6411.00
337_S341_S1.6411.00
167_I171_A1.6271.00
116_L307_A1.6171.00
52_S203_F1.5751.00
390_K393_K1.5611.00
250_V254_L1.5461.00
63_F419_F1.5451.00
444_F448_I1.5361.00
446_L450_L1.5341.00
318_V343_A1.5141.00
236_N243_K1.4951.00
123_T135_P1.4931.00
230_T312_F1.4891.00
60_T217_V1.4821.00
81_Y232_G1.4701.00
342_N346_F1.4671.00
271_V285_A1.4651.00
149_A337_S1.4631.00
66_F415_L1.4601.00
177_I262_V1.4481.00
68_M249_P1.4441.00
137_L141_I1.4431.00
166_V170_L1.4411.00
319_Y334_L1.4321.00
284_S292_A1.4281.00
119_V300_L1.4261.00
314_T347_S1.4261.00
116_L140_L1.4191.00
92_L96_A1.4161.00
88_V383_I1.4161.00
441_P445_V1.4061.00
17_S338_N1.4021.00
168_A298_V1.3901.00
329_G332_K1.3851.00
275_N281_Q1.3831.00
333_K341_S1.3821.00
144_L345_F1.3781.00
386_I390_K1.3761.00
16_L319_Y1.3721.00
62_V415_L1.3711.00
315_S344_L1.3701.00
329_G333_K1.3681.00
192_S196_L1.3611.00
440_T444_F1.3581.00
140_L348_S1.3571.00
24_H155_G1.3451.00
95_M451_Y1.3441.00
438_F449_I1.3181.00
443_W447_L1.3141.00
40_L118_A1.3111.00
22_N243_K1.3081.00
119_V139_A1.3051.00
237_P242_P1.2971.00
240_V243_K1.2961.00
78_N90_D1.2951.00
70_S413_N1.2851.00
408_F412_S1.2821.00
67_I385_V1.2761.00
254_L258_G1.2741.00
68_M245_I1.2741.00
173_I258_G1.2701.00
180_I265_C1.2701.00
91_Y387_C1.2691.00
20_L25_I1.2651.00
382_G421_A1.2541.00
77_S402_N1.2541.00
318_V327_A1.2481.00
86_D90_D1.2461.00
20_L155_G1.2431.00
293_S297_F1.2391.00
115_D306_A1.2381.00
69_R246_N1.2321.00
146_M157_L1.2281.00
284_S289_V1.2231.00
33_A252_I1.2231.00
23_R27_L1.2191.00
192_S195_N1.2161.00
143_L307_A1.2111.00
54_L261_F1.2061.00
389_L414_Y1.1941.00
277_S281_Q1.1911.00
105_W318_V1.1811.00
422_F426_I1.1801.00
88_V96_A1.1691.00
176_G266_I1.1681.00
71_L84_F1.1661.00
181_A184_F1.1631.00
393_K396_Q1.1621.00
158_E308_N1.1601.00
193_L196_L1.1601.00
393_K410_P1.1561.00
133_W137_L1.1451.00
46_I53_I1.1441.00
25_I244_A1.1431.00
98_F102_W1.1421.00
178_L183_G1.1401.00
131_P134_L1.1331.00
206_G209_G1.1331.00
410_P414_Y1.1281.00
177_I181_A1.1271.00
342_N345_F1.1191.00
235_E240_V1.1141.00
80_G86_D1.1121.00
396_Q402_N1.0981.00
171_A175_T1.0981.00
334_L338_N1.0981.00
85_V320_S1.0971.00
323_K332_K1.0951.00
388_H413_N1.0941.00
434_R437_L1.0911.00
19_G235_E1.0881.00
134_L138_L1.0821.00
28_M230_T1.0811.00
123_T127_L1.0781.00
30_I251_R1.0731.00
29_A227_V1.0731.00
75_L87_F1.0731.00
172_L176_G1.0721.00
157_L161_F1.0711.00
421_A425_V1.0711.00
442_V447_L1.0641.00
349_I353_I1.0631.00
170_L174_V1.0571.00
156_E160_W1.0561.00
138_L142_I1.0551.00
287_G291_A1.0541.00
438_F447_L1.0481.00
203_F210_F1.0451.00
434_R438_F1.0411.00
90_D395_R1.0381.00
73_E76_L1.0361.00
151_V312_F1.0351.00
435_I438_F1.0321.00
425_V429_L1.0231.00
120_G135_P1.0211.00
141_I145_I1.0201.00
30_I252_I1.0171.00
411_L414_Y1.0141.00
58_L257_V1.0141.00
409_Y413_N1.0131.00
433_T437_L1.0031.00
77_S400_K1.0021.00
195_N198_S0.9951.00
231_A241_I0.9941.00
130_V134_L0.9871.00
385_V417_L0.9851.00
148_L339_V0.9851.00
211_I422_F0.9761.00
144_L148_L0.9761.00
80_G90_D0.9751.00
417_L421_A0.9711.00
408_F411_L0.9701.00
436_A440_T0.9681.00
268_P285_A0.9621.00
66_F412_S0.9601.00
166_V255_F0.9601.00
435_I442_V0.9571.00
382_G420_L0.9511.00
438_F445_V0.9461.00
275_N278_P0.9431.00
225_E229_L0.9411.00
161_F305_S0.9351.00
222_V377_F0.9321.00
114_A219_F0.9321.00
173_I262_V0.9251.00
165_K302_S0.9171.00
82_H86_D0.9151.00
148_L335_T0.9151.00
123_T300_L0.9141.00
191_A194_N0.9131.00
120_G136_G0.9111.00
178_L182_K0.9111.00
397_H402_N0.9091.00
266_I282_V0.9071.00
16_L316_R0.9031.00
19_G152_K0.9001.00
311_L348_S0.8981.00
424_L427_L0.8971.00
61_G221_F0.8971.00
54_L264_M0.8961.00
117_T369_I0.8881.00
447_L451_Y0.8881.00
172_L283_F0.8871.00
331_L342_N0.8861.00
135_P138_L0.8861.00
143_L308_N0.8831.00
27_L159_F0.8831.00
34_I37_G0.8801.00
400_K403_K0.8801.00
382_G386_I0.8781.00
24_H156_E0.8771.00
247_Q251_R0.8771.00
253_L257_V0.8761.00
422_F425_V0.8751.00
89_R324_D0.8741.00
76_L403_K0.8741.00
335_T338_N0.8721.00
142_I304_A0.8681.00
341_S345_F0.8661.00
173_I177_I0.8651.00
193_L197_W0.8621.00
16_L233_E0.8611.00
102_W327_A0.8571.00
432_D436_A0.8571.00
288_I291_A0.8571.00
416_T420_L0.8521.00
96_A383_I0.8511.00
428_A431_N0.8511.00
114_A370_T0.8511.00
22_N244_A0.8511.00
389_L410_P0.8491.00
120_G132_Q0.8481.00
395_R400_K0.8421.00
82_H85_V0.8391.00
55_F210_F0.8371.00
177_I258_G0.8351.00
58_L62_V0.8331.00
445_V448_I0.8301.00
178_L181_A0.8261.00
348_S352_L0.8261.00
389_L413_N0.8261.00
23_R159_F0.8251.00
261_F265_C0.8241.00
95_M99_I0.8241.00
181_A185_S0.8241.00
88_V387_C0.8201.00
289_V293_S0.8191.00
392_R396_Q0.8181.00
65_F69_R0.8181.00
180_I183_G0.8171.00
450_L453_V0.8171.00
119_V303_A0.8141.00
432_D435_I0.8131.00
327_A331_L0.8091.00
192_S197_W0.8051.00
93_G452_K0.8011.00
140_L355_V0.7991.00
156_E159_F0.7981.00
119_V304_A0.7981.00
226_L313_S0.7971.00
439_V442_V0.7941.00
74_L87_F0.7911.00
133_W355_V0.7881.00
222_V381_W0.7881.00
65_F246_N0.7871.00
449_I452_K0.7831.00
438_F448_I0.7821.00
200_G204_P0.7801.00
145_I148_L0.7721.00
212_L216_M0.7701.00
34_I165_K0.7691.00
432_D437_L0.7671.00
109_I350_A0.7671.00
207_W210_F0.7661.00
437_L441_P0.7601.00
448_I451_Y0.7591.00
66_F70_S0.7581.00
438_F441_P0.7571.00
433_T436_A0.7571.00
104_Y108_W0.7551.00
389_L393_K0.7531.00
388_H392_R0.7521.00
124_Q128_P0.7511.00
180_I184_F0.7491.00
143_L311_L0.7481.00
149_A153_L0.7471.00
273_N278_P0.7451.00
444_F447_L0.7431.00
193_L198_S0.7431.00
446_L452_K0.7421.00
26_Q244_A0.7381.00
74_L388_H0.7371.00
372_V376_C0.7371.00
242_P245_I0.7351.00
438_F443_W0.7351.00
148_L337_S0.7341.00
336_S341_S0.7341.00
55_F58_L0.7311.00
93_G97_A0.7291.00
38_L259_A0.7291.00
33_A248_I0.7281.00
69_R412_S0.7281.00
173_I259_A0.7231.00
330_L346_F0.7231.00
349_I352_L0.7221.00
64_C224_I0.7201.00
443_W450_L0.7191.00
111_L373_S0.7191.00
290_V293_S0.7191.00
143_L304_A0.7181.00
318_V346_F0.7171.00
340_P343_A0.7141.00
110_S372_V0.7121.00
45_S49_A0.7101.00
423_I427_L0.7101.00
442_V449_I0.7081.00
420_L423_I0.7071.00
85_V89_R0.7041.00
409_Y412_S0.7031.00
147_N344_L0.7021.00
278_P283_F0.7011.00
124_Q132_Q0.7001.00
440_T449_I0.7001.00
413_N417_L0.6991.00
16_L19_G0.6991.00
67_I420_L0.6981.00
26_Q29_A0.6971.00
23_R156_E0.6961.00
113_M369_I0.6961.00
55_F59_I0.6951.00
180_I262_V0.6941.00
236_N242_P0.6931.00
123_T139_A0.6921.00
111_L114_A0.6921.00
182_K185_S0.6911.00
387_C391_Y0.6911.00
438_F444_F0.6901.00
91_Y390_K0.6881.00
375_I424_L0.6871.00
147_N312_F0.6861.00
19_G151_V0.6861.00
402_N405_K0.6841.00
111_L115_D0.6821.00
436_A449_I0.6821.00
31_G162_A0.6821.00
437_L447_L0.6821.00
42_S260_L0.6761.00
133_W136_G0.6761.00
407_P411_L0.6751.00
34_I39_F0.6741.00
35_G39_F0.6741.00
251_R255_F0.6711.00
311_L315_S0.6701.00
153_L156_E0.6701.00
107_C377_F0.6691.00
34_I255_F0.6691.00
77_S403_K0.6681.00
155_G159_F0.6681.00
315_S343_A0.6661.00
139_A307_A0.6661.00
228_G245_I0.6661.00
393_K397_H0.6651.00
195_N199_H0.6651.00
294_L298_V0.6651.00
194_N197_W0.6641.00
241_I245_I0.6621.00
443_W446_L0.6621.00
232_G319_Y0.6621.00
439_V443_W0.6621.00
137_L356_S0.6621.00
437_L440_T0.6601.00
71_L384_T0.6591.00
164_I298_V0.6591.00
51_P264_M0.6581.00
41_G370_T0.6571.00
331_L343_A0.6551.00
440_T447_L0.6551.00
120_G123_T0.6541.00
222_V225_E0.6541.00
247_Q250_V0.6511.00
148_L344_L0.6511.00
191_A195_N0.6501.00
57_Y220_A0.6491.00
32_G310_A0.6491.00
68_M224_I0.6481.00
316_R319_Y0.6471.00
19_G23_R0.6471.00
410_P413_N0.6451.00
251_R254_L0.6441.00
397_H401_A0.6431.00
196_L199_H0.6431.00
116_L120_G0.6421.00
406_M409_Y0.6421.00
283_F288_I0.6421.00
54_L58_L0.6411.00
435_I447_L0.6411.00
151_V230_T0.6391.00
376_C380_I0.6391.00
435_I439_V0.6381.00
103_T380_I0.6371.00
150_T153_L0.6361.00
322_A331_L0.6351.00
193_L265_C0.6311.00
278_P286_V0.6311.00
283_F286_V0.6301.00
125_Y296_N0.6291.00
85_V101_G0.6271.00
194_N198_S0.6261.00
395_R402_N0.6251.00
437_L444_F0.6251.00
259_A263_I0.6231.00
262_V265_C0.6211.00
211_I426_I0.6211.00
141_I144_L0.6191.00
81_Y319_Y0.6191.00
401_A405_K0.6181.00
91_Y391_Y0.6171.00
92_L387_C0.6161.00
416_T419_F0.6131.00
72_G76_L0.6121.00
238_Q403_K0.6111.00
302_S305_S0.6101.00
314_T318_V0.6101.00
30_I162_A0.6071.00
414_Y417_L0.6061.00
84_F225_E0.6061.00
445_V451_Y0.6051.00
438_F446_L0.6051.00
274_P278_P0.6041.00
69_R407_P0.6041.00
32_G309_S0.6041.00
125_Y128_P0.6041.00
32_G226_L0.6041.00
53_I260_L0.6031.00
259_A279_F0.6031.00
59_I214_F0.6031.00
140_L352_L0.6021.00
175_T179_L0.6011.00
115_D303_A0.6011.00
258_G262_V0.6011.00
77_S396_Q0.6011.00
406_M412_S0.6001.00
144_L311_L0.5991.00
155_G308_N0.5991.00
391_Y395_R0.5971.00
441_P444_F0.5971.00
75_L228_G0.5941.00
60_T218_V0.5941.00
400_K405_K0.5941.00
201_G204_P0.5931.00
70_S416_T0.5931.00
162_A165_K0.5931.00
66_F416_T0.5911.00
108_W310_A0.5911.00
43_G46_I0.5891.00
115_D307_A0.5871.00
408_F413_N0.5861.00
48_F212_L0.5861.00
446_L449_I0.5851.00
44_K367_T0.5851.00
396_Q400_K0.5831.00
436_A441_P0.5821.00
75_L241_I0.5811.00
277_S280_V0.5801.00
85_V97_A0.5791.00
432_D446_L0.5791.00
113_M354_G0.5791.00
446_L453_V0.5781.00
83_S228_G0.5771.00
126_W297_F0.5771.00
88_V97_A0.5761.00
16_L81_Y0.5741.00
438_F450_L0.5721.00
36_T219_F0.5721.00
60_T221_F0.5711.00
40_L43_G0.5701.00
23_R26_Q0.5691.00
181_A191_A0.5671.00
54_L257_V0.5671.00
100_T380_I0.5661.00
103_T379_F0.5661.00
185_S265_C0.5651.00
29_A33_A0.5651.00
68_M72_G0.5641.00
237_P240_V0.5631.00
227_V241_I0.5631.00
74_L91_Y0.5621.00
122_Y299_V0.5621.00
229_L313_S0.5611.00
233_E334_L0.5611.00
70_S406_M0.5611.00
159_F163_L0.5601.00
142_I146_M0.5601.00
440_T451_Y0.5601.00
234_T241_I0.5591.00
164_I168_A0.5581.00
420_L424_L0.5571.00
297_F301_T0.5561.00
356_S359_Y0.5551.00
84_F229_L0.5551.00
103_T107_C0.5541.00
222_V373_S0.5541.00
397_H400_K0.5521.00
199_H270_N0.5501.00
115_D118_A0.5481.00
30_I33_A0.5481.00
160_W163_L0.5471.00
436_A439_V0.5471.00
318_V322_A0.5471.00
392_R409_Y0.5471.00
67_I225_E0.5461.00
139_A143_L0.5451.00
54_L57_Y0.5431.00
122_Y280_V0.5431.00
435_I446_L0.5421.00
153_L157_L0.5401.00
158_E305_S0.5401.00
129_D132_Q0.5391.00
154_F312_F0.5381.00
45_S217_V0.5371.00
273_N277_S0.5361.00
138_L141_I0.5361.00
433_T446_L0.5361.00
346_F350_A0.5361.00
109_I347_S0.5351.00
316_R334_L0.5351.00
334_L337_S0.5341.00
115_D120_G0.5331.00
207_W211_I0.5331.00
434_R445_V0.5311.00
139_A304_A0.5311.00
434_R448_I0.5301.00
251_R258_G0.5291.00
445_V453_V0.5281.00
316_R340_P0.5281.00
432_D449_I0.5281.00
57_Y260_L0.5281.00
225_E381_W0.5271.00
283_F291_A0.5261.00
418_A421_A0.5261.00
34_I41_G0.5261.00
185_S264_M0.5261.00
167_I170_L0.5241.00
413_N420_L0.5241.00
273_N281_Q0.5231.00
80_G232_G0.5231.00
179_L182_K0.5231.00
444_F449_I0.5221.00
389_L417_L0.5221.00
233_E340_P0.5211.00
126_W296_N0.5201.00
209_G212_L0.5201.00
378_I420_L0.5191.00
367_T370_T0.5191.00
49_A213_S0.5181.00
238_Q401_A0.5181.00
191_A197_W0.5161.00
433_T438_F0.5161.00
180_I266_I0.5161.00
239_K242_P0.5161.00
18_R235_E0.5151.00
426_I430_A0.5151.00
119_V123_T0.5151.00
48_F51_P0.5141.00
65_F250_V0.5131.00
274_P277_S0.5131.00
425_V428_A0.5121.00
377_F380_I0.5111.00
38_L169_I0.5101.00
39_F169_I0.5071.00
21_K152_K0.5051.00
25_I230_T0.5051.00
443_W451_Y0.5031.00
315_S347_S0.5021.00
107_C376_C0.5021.00
179_L184_F0.5021.00
127_L135_P0.5011.00
42_S46_I0.5001.00
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  
3l1lA 2 0.8918 100 0.3 Contact Map
3giaA 1 0.9069 100 0.354 Contact Map
4djkA 2 0.8874 100 0.356 Contact Map
3dh4A 3 0.9113 99.2 0.839 Contact Map
2xq2A 2 0.9177 99.2 0.842 Contact Map
2jlnA 1 0.881 98.8 0.861 Contact Map
4wgvA 2 0.7987 97.8 0.897 Contact Map
2a65A 2 0.9177 97.7 0.899 Contact Map
4us3A 1 0.8442 97.5 0.903 Contact Map
4xp4A 1 0.9286 96.9 0.912 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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