GREMLIN Database
MIAB - tRNA-2-methylthio-N(6)-dimethylallyladenosine synthase
UniProt: P0AEI1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13657
Length: 474 (426)
Sequences: 7238 (4231)
Seq/√Len: 205.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
270_S317_D3.6721.00
270_S320_K3.5771.00
151_V185_I3.5481.00
271_D284_L3.5221.00
189_A231_I3.5061.00
329_N375_A3.2361.00
386_R424_D3.2221.00
384_T424_D3.1181.00
246_D292_K3.1151.00
226_A255_T3.0941.00
426_E438_K3.0251.00
272_R317_D2.9881.00
287_K327_D2.9731.00
389_V412_F2.9691.00
428_T438_K2.9041.00
250_E296_A2.8771.00
360_Q364_I2.7021.00
322_M368_R2.6441.00
224_L227_A2.6181.00
326_A371_Q2.5291.00
323_K327_D2.4461.00
272_R276_L2.4261.00
384_T426_E2.3661.00
185_I196_V2.3541.00
287_K328_V2.2621.00
183_F186_A2.2501.00
262_L300_I2.2441.00
9_T19_S2.2181.00
293_L300_I2.2161.00
223_R254_D2.2081.00
185_I225_V2.2061.00
194_R232_D2.2011.00
357_E360_Q2.1951.00
110_R113_E2.1621.00
288_A291_R2.1171.00
340_A352_D2.0861.00
323_K326_A2.0601.00
318_F364_I2.0511.00
260_S405_E1.9851.00
326_A368_R1.9821.00
250_E254_D1.9791.00
337_I362_L1.9681.00
315_T357_E1.9661.00
354_P357_E1.9581.00
386_R422_F1.9491.00
4_K33_Q1.9481.00
283_A320_K1.9291.00
226_A257_E1.9291.00
186_A190_A1.9171.00
253_R296_A1.9071.00
291_R327_D1.8951.00
418_M421_K1.8781.00
283_A287_K1.8551.00
189_A228_I1.8371.00
226_A256_P1.8361.00
322_M364_I1.8311.00
319_E323_K1.8171.00
381_L430_V1.8031.00
266_V324_L1.7861.00
37_V40_E1.7841.00
178_S224_L1.7841.00
217_S247_D1.7811.00
291_R295_A1.7731.00
268_S321_T1.7551.00
374_M378_R1.7261.00
30_H116_N1.7221.00
90_E94_Q1.7121.00
355_E358_K1.7111.00
386_R405_E1.7011.00
329_N372_Q1.6991.00
340_A347_A1.6911.00
285_E288_A1.6811.00
7_I19_S1.6491.00
217_S220_D1.6421.00
232_D386_R1.6261.00
283_A323_K1.6161.00
319_E364_I1.6151.00
376_W379_R1.6101.00
160_Y172_E1.6091.00
271_D283_A1.6061.00
282_T285_E1.6051.00
387_I402_G1.5981.00
389_V423_V1.5971.00
251_V255_T1.5661.00
380_M385_Q1.5651.00
314_T317_D1.5611.00
223_R255_T1.5501.00
260_S299_D1.5471.00
223_R251_V1.5461.00
5_L34_L1.5451.00
284_L288_A1.5311.00
331_D376_W1.5231.00
70_K100_D1.5131.00
317_D320_K1.5091.00
273_I276_L1.5061.00
315_T319_E1.5031.00
410_V427_I1.5001.00
50_S169_T1.4921.00
79_G101_I1.4801.00
162_T278_G1.4281.00
262_L293_L1.4231.00
249_I293_L1.4101.00
196_V231_I1.3951.00
176_R184_E1.3951.00
226_A251_V1.3871.00
45_L79_G1.3851.00
85_A102_I1.3741.00
162_T310_F1.3671.00
22_M81_G1.3641.00
223_R247_D1.3511.00
183_F187_Q1.3461.00
276_L349_M1.3411.00
425_V437_G1.3371.00
222_L258_L1.3361.00
283_A324_L1.3351.00
320_K323_K1.3291.00
306_F325_I1.3251.00
177_P180_D1.3141.00
219_A251_V1.3121.00
50_S56_Q1.3081.00
252_Y258_L1.2981.00
187_Q191_Q1.2901.00
325_I365_L1.2891.00
276_L317_D1.2851.00
220_D247_D1.2821.00
299_D383_T1.2781.00
160_Y168_Y1.2741.00
329_N376_W1.2731.00
176_R180_D1.2731.00
363_Y367_E1.2631.00
246_D250_E1.2601.00
182_L224_L1.2571.00
359_K363_Y1.2551.00
251_V258_L1.2441.00
107_T110_R1.2341.00
335_S362_L1.2291.00
48_T80_V1.2241.00
427_I435_L1.2161.00
315_T364_I1.2161.00
220_D224_L1.2091.00
378_R381_L1.2071.00
429_D436_R1.2001.00
380_M383_T1.1911.00
182_L186_A1.1861.00
63_L80_V1.1821.00
400_L414_G1.1771.00
355_E359_K1.1761.00
276_L310_F1.1731.00
297_R300_I1.1701.00
86_S104_G1.1671.00
187_Q190_A1.1661.00
165_V169_T1.1641.00
316_E320_K1.1631.00
368_R372_Q1.1601.00
140_P143_R1.1601.00
276_L312_G1.1571.00
345_P348_D1.1571.00
369_I372_Q1.1551.00
57_E61_H1.1501.00
423_V439_V1.1481.00
337_I359_K1.1441.00
352_D358_K1.1411.00
255_T258_L1.1401.00
4_K40_E1.1361.00
225_V234_I1.1341.00
288_A292_K1.1311.00
319_E322_M1.1231.00
103_F114_M1.1211.00
308_V318_F1.1191.00
229_D257_E1.1171.00
226_A258_L1.1161.00
7_I45_L1.1121.00
367_E371_Q1.1101.00
337_I355_E1.1101.00
278_G345_P1.1081.00
101_I118_V1.1011.00
234_I257_E1.0991.00
289_I292_K1.0941.00
53_E57_E1.0871.00
325_I333_S1.0861.00
290_I302_I1.0841.00
227_A255_T1.0831.00
232_D257_E1.0821.00
105_P108_L1.0811.00
385_Q427_I1.0791.00
176_R181_I1.0751.00
385_Q404_T1.0731.00
316_E319_E1.0711.00
117_S122_R1.0671.00
216_G220_D1.0581.00
151_V181_I1.0541.00
26_L115_I1.0511.00
73_N76_L1.0491.00
306_F333_S1.0481.00
189_A230_G1.0471.00
203_V236_F1.0461.00
8_K62_Q1.0451.00
292_K295_A1.0451.00
329_N379_R1.0441.00
304_S330_F1.0411.00
371_Q375_A1.0411.00
162_T345_P1.0371.00
81_G103_F1.0351.00
403_R409_V1.0321.00
335_S366_Q1.0301.00
252_Y297_R1.0301.00
158_N172_E1.0291.00
271_D282_T1.0251.00
165_V168_Y1.0241.00
189_A232_D1.0191.00
378_R430_V1.0171.00
261_F407_N1.0171.00
247_D250_E1.0151.00
249_I296_A1.0131.00
87_Q169_T1.0111.00
88_E91_H1.0111.00
178_S182_L1.0111.00
290_I328_V1.0111.00
312_G351_D1.0101.00
92_I99_V1.0021.00
4_K35_T1.0011.00
271_D320_K0.9961.00
333_S369_I0.9951.00
294_R329_N0.9901.00
381_L429_D0.9881.00
77_I118_V0.9861.00
48_T59_V0.9841.00
322_M326_A0.9841.00
318_F365_L0.9791.00
101_I114_M0.9791.00
44_L76_L0.9721.00
299_D379_R0.9711.00
7_I23_A0.9661.00
218_F248_I0.9651.00
270_S273_I0.9641.00
253_R297_R0.9631.00
377_S408_R0.9610.99
304_S333_S0.9600.99
249_I297_R0.9590.99
410_V437_G0.9550.99
399_E413_E0.9550.99
216_G224_L0.9530.99
180_D183_F0.9530.99
6_H38_A0.9500.99
154_M173_E0.9420.99
186_A229_D0.9420.99
414_G417_D0.9410.99
46_L63_L0.9400.99
368_R371_Q0.9390.99
149_A188_L0.9380.99
194_R422_F0.9350.99
99_V102_I0.9280.99
315_T360_Q0.9280.99
228_I231_I0.9260.99
374_M430_V0.9250.99
392_T400_L0.9250.99
188_L193_V0.9250.99
374_M377_S0.9250.99
308_V362_L0.9230.99
5_L32_Y0.9230.99
77_I119_R0.9220.99
362_L366_Q0.9210.99
222_L255_T0.9200.99
393_S396_S0.9180.99
292_K296_A0.9150.99
151_V196_V0.9120.99
252_Y262_L0.9010.99
14_M201_Q0.9000.99
179_D183_F0.8890.99
62_Q65_R0.8880.99
194_R421_K0.8880.99
325_I330_F0.8800.99
226_A234_I0.8780.99
23_A34_L0.8740.99
367_E370_N0.8710.99
310_F349_M0.8700.99
185_I228_I0.8670.99
186_A224_L0.8640.99
347_A352_D0.8610.99
373_A377_S0.8580.99
9_T47_N0.8570.99
159_K202_N0.8570.99
276_L351_D0.8550.99
389_V402_G0.8520.99
32_Y43_V0.8510.99
10_W59_V0.8510.99
301_Q406_N0.8490.99
369_I373_A0.8450.99
80_V99_V0.8440.99
411_N434_S0.8420.99
306_F365_L0.8410.99
10_W62_Q0.8390.99
273_I317_D0.8380.99
266_V306_F0.8360.99
91_H94_Q0.8340.99
178_S206_W0.8340.99
261_F303_S0.8320.99
5_L23_A0.8310.99
219_A247_D0.8290.99
349_M352_D0.8270.98
207_R211_Y0.8270.98
285_E289_I0.8270.98
117_S121_D0.8270.98
272_R320_K0.8250.98
35_T41_A0.8250.98
427_I437_G0.8250.98
303_S332_M0.8250.98
324_L328_V0.8240.98
175_S209_E0.8240.98
260_S297_R0.8240.98
232_D422_F0.8220.98
391_G401_S0.8200.98
158_N208_G0.8190.98
147_P390_E0.8190.98
219_A245_T0.8170.98
44_L75_D0.8170.98
56_Q88_E0.8150.98
330_F333_S0.8140.98
404_T410_V0.8130.98
308_V358_K0.8130.98
223_R227_A0.8120.98
5_L27_D0.8120.98
364_I368_R0.8120.98
86_S89_G0.8100.98
319_E326_A0.8090.98
244_F289_I0.8060.98
149_A193_V0.8060.98
372_Q376_W0.8060.98
30_H113_E0.8050.98
370_N433_N0.8000.98
173_E205_A0.7990.98
412_F425_V0.7990.98
389_V400_L0.7960.98
69_L76_L0.7950.98
151_V188_L0.7940.98
266_V286_Y0.7920.98
38_A44_L0.7880.98
43_V77_I0.7860.98
113_E117_S0.7860.98
43_V79_G0.7860.98
269_G320_K0.7860.98
178_S216_G0.7820.98
387_I425_V0.7800.98
325_I372_Q0.7770.98
233_R259_V0.7770.98
77_I115_I0.7750.98
301_Q331_D0.7740.98
287_K291_R0.7740.98
413_E438_K0.7720.98
286_Y330_F0.7710.98
137_D141_E0.7700.98
77_I101_I0.7690.98
388_L422_F0.7680.98
326_A372_Q0.7660.97
118_V121_D0.7660.97
340_A358_K0.7650.97
160_Y278_G0.7640.97
284_L287_K0.7610.97
22_M111_L0.7590.97
6_H35_T0.7580.97
269_G286_Y0.7570.97
182_L228_I0.7570.97
44_L69_L0.7570.97
249_I292_K0.7550.97
375_A378_R0.7550.97
431_Y436_R0.7540.97
308_V365_L0.7520.97
414_G418_M0.7520.97
143_R191_Q0.7490.97
26_L45_L0.7480.97
13_Q406_N0.7470.97
189_A229_D0.7460.97
312_G352_D0.7460.97
333_S372_Q0.7460.97
23_A27_D0.7430.97
116_N120_G0.7390.97
222_L248_I0.7380.97
163_Y281_H0.7370.97
380_M406_N0.7360.97
250_E253_R0.7330.97
154_M200_G0.7310.97
262_L302_I0.7310.97
202_N243_E0.7310.97
219_A248_I0.7280.97
318_F322_M0.7280.97
25_L112_P0.7280.97
6_H41_A0.7250.97
387_I410_V0.7240.96
20_S24_D0.7230.96
236_F252_Y0.7220.96
168_Y345_P0.7210.96
182_L225_V0.7190.96
321_T365_L0.7180.96
372_Q375_A0.7170.96
220_D223_R0.7160.96
19_S23_A0.7160.96
159_K205_A0.7160.96
389_V425_V0.7140.96
273_I310_F0.7140.96
9_T16_E0.7110.96
230_G257_E0.7110.96
246_D249_I0.7090.96
376_W380_M0.7070.96
380_M408_R0.7020.96
152_S155_E0.7020.96
205_A242_I0.7000.96
322_M365_L0.6990.96
6_H44_L0.6970.96
392_T416_P0.6970.96
60_F64_G0.6940.96
79_G103_F0.6940.96
17_Y152_S0.6930.96
179_D224_L0.6920.95
231_I257_E0.6910.95
366_Q369_I0.6900.95
18_D155_E0.6870.95
35_T40_E0.6860.95
379_R383_T0.6860.95
13_Q199_L0.6850.95
30_H112_P0.6840.95
331_D408_R0.6840.95
244_F248_I0.6820.95
245_T248_I0.6820.95
242_I280_T0.6810.95
374_M432_P0.6800.95
233_R422_F0.6780.95
393_S411_N0.6750.95
32_Y116_N0.6750.95
27_D33_Q0.6740.95
54_K57_E0.6740.95
428_T437_G0.6730.95
204_N265_P0.6720.95
148_T197_N0.6720.95
380_M384_T0.6720.95
150_F197_N0.6710.95
138_R180_D0.6700.95
206_W216_G0.6690.95
118_V122_R0.6690.95
168_Y343_G0.6650.94
353_V358_K0.6630.94
364_I367_E0.6630.94
222_L226_A0.6630.94
127_D130_F0.6620.94
412_F439_V0.6620.94
412_F423_V0.6610.94
310_F346_A0.6610.94
262_L297_R0.6590.94
205_A243_E0.6580.94
54_K339_S0.6570.94
19_S47_N0.6560.94
213_G216_G0.6550.94
110_R127_D0.6550.94
181_I221_L0.6540.94
342_P347_A0.6540.94
211_Y216_G0.6540.94
287_K324_L0.6540.94
131_P134_E0.6530.94
186_A228_I0.6480.94
269_G321_T0.6470.94
137_D140_P0.6470.94
204_N239_S0.6450.93
387_I437_G0.6450.93
51_I165_V0.6450.93
139_L142_P0.6410.93
321_T325_I0.6410.93
183_F190_A0.6410.93
325_I369_I0.6400.93
70_K76_L0.6390.93
64_G96_A0.6370.93
219_A223_R0.6360.93
27_D34_L0.6350.93
24_D29_T0.6340.93
10_W46_L0.6290.93
50_S87_Q0.6280.93
96_A99_V0.6280.93
151_V198_L0.6270.92
138_R141_E0.6240.92
218_F236_F0.6230.92
111_L115_I0.6210.92
229_D232_D0.6190.92
272_R316_E0.6170.92
259_V405_E0.6150.92
70_K75_D0.6140.92
231_I422_F0.6140.92
153_I221_L0.6130.92
159_K280_T0.6130.92
370_N432_P0.6130.92
162_T276_L0.6120.92
104_G108_L0.6110.91
61_H64_G0.6090.91
396_S399_E0.6080.91
14_M17_Y0.6080.91
246_D296_A0.6070.91
315_T361_R0.6060.91
272_R275_N0.6050.91
319_E360_Q0.6040.91
269_G283_A0.6040.91
48_T63_L0.6020.91
418_M439_V0.6000.91
408_R435_L0.5990.91
269_G324_L0.5980.91
178_S220_D0.5980.91
153_I203_V0.5970.91
189_A234_I0.5970.91
58_K61_H0.5960.90
359_K362_L0.5960.90
272_R314_T0.5950.90
272_R312_G0.5930.90
69_L73_N0.5920.90
91_H95_R0.5910.90
24_D140_P0.5900.90
332_M373_A0.5890.90
222_L225_V0.5880.90
5_L26_L0.5870.90
89_G93_R0.5860.90
376_W408_R0.5850.90
308_V337_I0.5850.90
128_I131_P0.5830.89
218_F222_L0.5830.89
377_S430_V0.5820.89
70_K98_Y0.5820.89
204_N243_E0.5810.89
69_L75_D0.5800.89
318_F325_I0.5800.89
90_E93_R0.5800.89
25_L29_T0.5790.89
335_S365_L0.5780.89
108_L112_P0.5770.89
384_T437_G0.5760.89
151_V176_R0.5750.89
6_H36_D0.5740.89
425_V428_T0.5740.89
325_I329_N0.5720.89
381_L427_I0.5720.89
189_A193_V0.5710.89
356_E360_Q0.5710.89
93_R102_I0.5690.88
325_I368_R0.5680.88
159_K169_T0.5680.88
337_I358_K0.5680.88
178_S221_L0.5670.88
126_V129_S0.5670.88
402_G412_F0.5660.88
136_F140_P0.5650.88
373_A432_P0.5640.88
158_N173_E0.5630.88
138_R143_R0.5630.88
400_L415_T0.5620.88
378_R429_D0.5620.88
147_P388_L0.5620.88
231_I234_I0.5620.88
46_L59_V0.5620.88
254_D257_E0.5600.88
159_K242_I0.5600.88
8_K46_L0.5600.88
400_L419_I0.5590.87
400_L417_D0.5590.87
189_A257_E0.5590.87
27_D31_G0.5560.87
145_E193_V0.5550.87
196_V225_V0.5540.87
139_L143_R0.5520.87
238_T261_F0.5500.87
392_T396_S0.5500.87
228_I232_D0.5500.87
21_K25_L0.5480.86
428_T436_R0.5470.86
306_F321_T0.5470.86
392_T414_G0.5450.86
37_V69_L0.5440.86
246_D289_I0.5440.86
377_S435_L0.5430.86
326_A329_N0.5420.86
335_S369_I0.5420.86
263_H305_D0.5390.86
299_D406_N0.5380.85
202_N218_F0.5380.85
135_K140_P0.5350.85
106_Q109_H0.5350.85
184_E188_L0.5320.85
240_H265_P0.5310.85
417_D421_K0.5300.85
103_F107_T0.5300.85
138_R142_P0.5300.85
381_L384_T0.5290.84
6_H37_V0.5290.84
54_K58_K0.5280.84
125_V128_I0.5280.84
231_I386_R0.5280.84
232_D256_P0.5270.84
251_V254_D0.5270.84
163_Y278_G0.5260.84
92_I102_I0.5250.84
338_F349_M0.5250.84
225_V231_I0.5240.84
35_T38_A0.5240.84
70_K78_I0.5240.84
87_Q342_P0.5240.84
136_F141_E0.5220.84
162_T242_I0.5210.84
233_R386_R0.5210.84
400_L418_M0.5200.83
258_L297_R0.5200.83
9_T15_N0.5200.83
209_E215_T0.5190.83
27_D142_P0.5190.83
198_L225_V0.5180.83
203_V237_T0.5170.83
228_I257_E0.5160.83
401_S409_V0.5160.83
182_L221_L0.5160.83
340_A344_T0.5160.83
360_Q363_Y0.5150.83
116_N119_R0.5150.83
430_V435_L0.5140.83
396_S413_E0.5130.83
239_S264_L0.5130.83
295_A316_E0.5120.83
402_G423_V0.5110.82
250_E292_K0.5110.82
305_D341_R0.5090.82
186_A230_G0.5080.82
159_K243_E0.5080.82
247_D251_V0.5080.82
228_I234_I0.5080.82
16_E20_S0.5070.82
119_R122_R0.5070.82
366_Q373_A0.5060.82
389_V418_M0.5050.82
112_P115_I0.5050.82
54_K61_H0.5050.82
264_L289_I0.5050.82
266_V330_F0.5050.82
135_K138_R0.5030.81
194_R388_L0.5020.81
357_E361_R0.5010.81
105_P169_T0.5000.81
399_E411_N0.5000.81
311_P352_D0.5000.81
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  
4jc0A 1 0.884 100 0.395 Contact Map
2qgqA 1 0.5633 100 0.585 Contact Map
1oltA 1 0.7468 100 0.791 Contact Map
4u0oB 1 0.5612 99.9 0.833 Contact Map
4wcxA 1 0.7658 99.9 0.855 Contact Map
3iixA 1 0.7173 99.9 0.856 Contact Map
2yx0A 1 0.6203 99.9 0.858 Contact Map
3t7vA 1 0.7089 99.8 0.861 Contact Map
4rtbA 2 0.7468 99.8 0.867 Contact Map
4r33A 2 0.7511 99.8 0.867 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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