GREMLIN Database
MIAA - tRNA dimethylallyltransferase
UniProt: O31795 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 314 (289)
Sequences: 4857 (3634)
Seq/√Len: 213.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_K60_G3.4381.00
75_F83_L3.2761.00
215_D266_K3.0671.00
149_A172_L2.8901.00
250_A255_F2.8401.00
223_L248_L2.7701.00
257_T260_D2.7411.00
129_S173_H2.7311.00
133_A145_K2.6951.00
33_E64_H2.6401.00
215_D262_V2.5661.00
218_M262_V2.5521.00
224_P227_K2.5301.00
90_E94_R2.5051.00
133_A137_E2.4251.00
211_N266_K2.2481.00
208_E212_Q2.1581.00
264_Q267_Q2.0861.00
16_A210_I2.0841.00
7_P193_N2.0661.00
44_K70_D2.0541.00
267_Q271_R2.0431.00
268_N271_R1.9891.00
198_G286_V1.9071.00
109_Q113_Y1.8871.00
230_Y249_Y1.8801.00
144_A147_A1.8671.00
145_K148_A1.8661.00
81_Q85_R1.8581.00
100_I111_V1.8351.00
145_K173_H1.8251.00
52_K67_D1.8241.00
54_T57_E1.8241.00
55_E58_M1.8221.00
171_I179_M1.8161.00
248_L261_A1.8061.00
153_A157_I1.7971.00
40_M50_T1.7551.00
247_E268_N1.6811.00
47_D52_K1.6641.00
109_Q283_K1.6631.00
28_K59_E1.6591.00
250_A256_V1.6491.00
37_G100_I1.6181.00
137_E141_F1.6081.00
45_G232_K1.6051.00
91_I94_R1.5851.00
214_V265_L1.5851.00
235_R253_D1.5791.00
31_N96_K1.5751.00
20_T23_S1.5531.00
198_G288_W1.5511.00
33_E94_R1.5481.00
227_K231_D1.5401.00
223_L258_L1.5331.00
132_M136_R1.5311.00
23_S101_V1.5301.00
69_L79_D1.5091.00
178_T181_Q1.5051.00
127_R170_E1.4931.00
251_Y258_L1.4871.00
216_L220_S1.4791.00
87_K90_E1.4741.00
258_L261_A1.4601.00
230_Y253_D1.4591.00
36_S66_I1.4521.00
134_A162_T1.4491.00
64_H87_K1.4461.00
10_I108_I1.4371.00
277_L281_R1.4221.00
140_D144_A1.4061.00
32_A99_M1.3941.00
260_D263_E1.3861.00
263_E267_Q1.3801.00
177_K185_E1.3781.00
260_D264_Q1.3741.00
207_Y270_R1.3681.00
87_K91_I1.3671.00
196_L283_K1.3651.00
258_L262_V1.3581.00
45_G70_D1.3501.00
37_G108_I1.3461.00
248_L252_F1.3451.00
64_H94_R1.3451.00
207_Y271_R1.3391.00
126_F173_H1.3341.00
143_H147_A1.3331.00
218_M258_L1.3301.00
139_A162_T1.3241.00
205_T208_E1.3181.00
12_V108_I1.3111.00
208_E211_N1.3071.00
25_Q29_S1.2971.00
144_A148_A1.2941.00
152_E155_A1.2671.00
84_V111_V1.2621.00
9_V97_L1.2441.00
68_I83_L1.2431.00
126_F130_M1.2411.00
203_R207_Y1.2221.00
212_Q216_L1.2191.00
211_N270_R1.2181.00
73_D79_D1.2161.00
207_Y267_Q1.2131.00
128_E132_M1.2121.00
201_M205_T1.2081.00
269_S272_Y1.2031.00
203_R277_L1.1951.00
79_D82_S1.1931.00
200_T277_L1.1931.00
65_L87_K1.1911.00
40_M242_A1.1901.00
88_I92_A1.1871.00
145_K149_A1.1841.00
12_V198_G1.1801.00
149_A173_H1.1691.00
223_L227_K1.1681.00
17_V199_L1.1671.00
17_V201_M1.1661.00
138_G141_F1.1621.00
49_G245_Y1.1561.00
76_S79_D1.1531.00
85_R191_L1.1481.00
218_M223_L1.1421.00
25_Q28_K1.1381.00
33_E91_I1.1361.00
177_K181_Q1.1271.00
28_K61_V1.1201.00
69_L73_D1.1181.00
149_A169_L1.1171.00
58_M67_D1.1161.00
33_E96_K1.1101.00
226_V252_F1.1081.00
24_I60_G1.1031.00
128_E131_Q1.1021.00
137_E145_K1.0961.00
72_Q234_V1.0781.00
112_L194_A1.0731.00
86_N90_E1.0701.00
158_H161_N1.0671.00
133_A173_H1.0641.00
7_P92_A1.0571.00
129_S133_A1.0501.00
153_A179_M1.0491.00
14_P17_V1.0451.00
197_I289_F1.0431.00
124_P128_E1.0431.00
179_M183_L1.0431.00
113_Y285_Q1.0401.00
256_V264_Q1.0391.00
216_L219_Q1.0351.00
35_I91_I1.0341.00
91_I96_K1.0311.00
30_L97_L1.0271.00
83_L86_N1.0241.00
133_A142_L1.0141.00
207_Y211_N1.0101.00
105_G280_F1.0091.00
46_M50_T1.0091.00
133_A141_F1.0021.00
21_N25_Q1.0021.00
274_K278_T1.0001.00
6_Q92_A0.9931.00
134_A139_A0.9911.00
53_I58_M0.9841.00
79_D83_L0.9821.00
169_L173_H0.9781.00
8_V88_I0.9771.00
223_L252_F0.9761.00
32_A98_P0.9741.00
256_V260_D0.9731.00
218_M261_A0.9721.00
143_H154_A0.9711.00
126_F169_L0.9681.00
215_D219_Q0.9651.00
226_V248_L0.9641.00
41_Q53_I0.9531.00
83_L87_K0.9521.00
131_Q135_E0.9491.00
20_T53_I0.9461.00
228_R232_K0.9461.00
147_A155_A0.9380.99
198_G280_F0.9360.99
243_I272_Y0.9330.99
24_I28_K0.9270.99
11_L26_L0.9240.99
24_I53_I0.9170.99
275_R278_T0.9140.99
214_V266_K0.9110.99
24_I63_H0.9110.99
131_Q166_I0.9080.99
262_V266_K0.9060.99
256_V261_A0.9060.99
6_Q89_S0.9050.99
162_T165_V0.9020.99
250_A264_Q0.8990.99
126_F174_T0.8990.99
223_L251_Y0.8990.99
123_D174_T0.8930.99
77_T81_Q0.8900.99
109_Q282_N0.8890.99
130_M166_I0.8880.99
112_L196_L0.8880.99
222_L248_L0.8850.99
143_H165_V0.8840.99
210_I273_A0.8800.99
54_T58_M0.8800.99
152_E184_K0.8800.99
156_A161_N0.8800.99
202_D205_T0.8780.99
152_E178_T0.8700.99
45_G71_P0.8690.99
207_Y277_L0.8660.99
21_N216_L0.8650.99
21_N57_E0.8590.99
157_I161_N0.8580.99
47_D67_D0.8480.99
207_Y266_K0.8470.99
249_Y253_D0.8410.99
90_E93_N0.8370.99
146_L168_A0.8330.99
218_M248_L0.8330.99
46_M229_L0.8280.99
290_D293_P0.8240.99
71_P239_S0.8240.99
140_D159_P0.8230.99
10_I112_L0.8220.99
54_T220_S0.8150.99
204_D208_E0.8120.99
261_A265_L0.8100.98
130_M173_H0.8070.98
11_L99_M0.8020.98
47_D58_M0.7990.98
37_G80_Y0.7990.98
31_N97_L0.7990.98
132_M135_E0.7920.98
172_L179_M0.7900.98
259_S263_E0.7890.98
32_A97_L0.7870.98
36_S65_L0.7860.98
81_Q114_D0.7860.98
14_P277_L0.7850.98
12_V37_G0.7790.98
146_L165_V0.7760.98
27_A61_V0.7750.98
143_H159_P0.7740.98
139_A143_H0.7690.98
167_R170_E0.7690.98
26_L99_M0.7680.98
9_V195_V0.7670.98
10_I194_A0.7660.98
125_V129_S0.7660.98
264_Q268_N0.7650.98
70_D232_K0.7600.98
123_D126_F0.7590.98
89_S92_A0.7590.98
91_I98_P0.7560.98
156_A183_L0.7550.98
69_L75_F0.7540.98
161_N165_V0.7510.98
248_L265_L0.7510.98
226_V230_Y0.7430.97
139_A165_V0.7430.97
145_K169_L0.7350.97
24_I61_V0.7310.97
181_Q184_K0.7290.97
27_A99_M0.7290.97
263_E266_K0.7260.97
12_V286_V0.7250.97
181_Q185_E0.7250.97
8_V100_I0.7200.97
257_T263_E0.7190.97
153_A156_A0.7160.97
110_S115_Y0.7150.97
24_I34_I0.7140.97
106_L115_Y0.7140.97
142_L145_K0.7130.97
205_T292_T0.7120.97
248_L258_L0.7120.97
247_E265_L0.7120.97
72_Q232_K0.7110.97
199_L291_M0.7100.97
130_M142_L0.7060.96
51_A217_M0.7020.96
201_M291_M0.7010.96
283_K286_V0.7000.96
234_V237_C0.6990.96
143_H157_I0.6980.96
6_Q96_K0.6970.96
58_M61_V0.6960.96
121_A174_T0.6950.96
82_S86_N0.6940.96
92_A192_Y0.6940.96
153_A168_A0.6940.96
84_V88_I0.6910.96
65_L83_L0.6890.96
53_I60_G0.6870.96
11_L23_S0.6860.96
23_S53_I0.6840.96
250_A261_A0.6820.96
211_N214_V0.6790.96
34_I61_V0.6790.96
90_E96_K0.6770.95
230_Y252_F0.6760.95
130_M169_L0.6740.95
141_F144_A0.6740.95
84_V87_K0.6740.95
218_M265_L0.6700.95
125_V128_E0.6690.95
212_Q219_Q0.6670.95
8_V194_A0.6640.95
35_I87_K0.6640.95
118_T182_H0.6610.95
129_S132_M0.6600.95
44_K67_D0.6590.95
130_M145_K0.6580.95
42_I75_F0.6570.95
149_A178_T0.6540.95
46_M239_S0.6540.95
49_G222_L0.6530.94
195_V289_F0.6530.94
68_I75_F0.6480.94
57_E60_G0.6450.94
8_V92_A0.6440.94
134_A142_L0.6420.94
113_Y283_K0.6400.94
58_M62_P0.6340.94
200_T288_W0.6320.93
234_V240_I0.6310.93
151_P155_A0.6300.93
70_D73_D0.6220.93
24_I59_E0.6200.93
168_A179_M0.6150.93
32_A91_I0.6150.93
171_I183_L0.6120.92
88_I100_I0.6110.92
64_H91_I0.6100.92
201_M292_T0.6090.92
205_T209_R0.6060.92
47_D55_E0.6050.92
88_I111_V0.6050.92
177_K182_H0.6020.92
20_T24_I0.6000.92
40_M272_Y0.5990.92
266_K270_R0.5960.91
137_E142_L0.5960.91
143_H158_H0.5940.91
237_C240_I0.5940.91
150_D180_S0.5920.91
142_L165_V0.5910.91
172_L175_S0.5890.91
147_A154_A0.5830.90
8_V111_V0.5800.90
87_K94_R0.5800.90
211_N262_V0.5800.90
211_N263_E0.5790.90
130_M133_A0.5780.90
172_L180_S0.5770.90
40_M241_Q0.5770.90
41_Q272_Y0.5760.90
227_K230_Y0.5760.90
238_Q241_Q0.5760.90
42_I104_T0.5720.90
30_L99_M0.5710.90
118_T121_A0.5710.90
205_T290_D0.5680.89
81_Q111_V0.5660.89
17_V200_T0.5650.89
223_L261_A0.5650.89
69_L83_L0.5640.89
49_G229_L0.5630.89
53_I66_I0.5600.89
45_G228_R0.5590.89
243_I268_N0.5570.88
35_I88_I0.5560.88
12_V280_F0.5540.88
12_V196_L0.5540.88
89_S191_L0.5540.88
195_V287_T0.5530.88
109_Q112_L0.5530.88
48_I220_S0.5500.88
229_L240_I0.5490.88
45_G233_N0.5470.87
196_L285_Q0.5460.87
78_A82_S0.5440.87
84_V100_I0.5420.87
114_D119_E0.5400.87
226_V249_Y0.5370.87
251_Y256_V0.5360.86
135_E162_T0.5350.86
44_K68_I0.5350.86
109_Q196_L0.5340.86
226_V245_Y0.5330.86
75_F79_D0.5330.86
246_K250_A0.5320.86
106_L279_W0.5320.86
238_Q242_A0.5320.86
207_Y274_K0.5310.86
259_S262_V0.5290.86
80_Y272_Y0.5280.86
85_R192_Y0.5280.86
227_K258_L0.5270.85
222_L246_K0.5270.85
34_I101_V0.5260.85
65_L68_I0.5250.85
141_F145_K0.5240.85
228_R231_D0.5230.85
154_A158_H0.5220.85
200_T291_M0.5220.85
95_G98_P0.5200.85
10_I37_G0.5170.84
110_S113_Y0.5170.84
291_M294_P0.5160.84
140_D162_T0.5150.84
126_F129_S0.5150.84
229_L245_Y0.5140.84
9_V30_L0.5130.84
62_P94_R0.5120.84
11_L32_A0.5100.84
55_E59_E0.5100.84
241_Q246_K0.5090.83
39_S42_I0.5090.83
30_L197_I0.5080.83
243_I265_L0.5080.83
146_L150_D0.5070.83
224_P228_R0.5050.83
26_L30_L0.5050.83
248_L251_Y0.5040.83
88_I98_P0.5030.83
138_G162_T0.5030.83
46_M71_P0.5020.83
240_I249_Y0.5010.83
139_A160_N0.5000.82
190_L194_A0.5000.82
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  
3exaA 2 0.9427 100 0.198 Contact Map
3fozA 2 0.9618 100 0.203 Contact Map
3d3qA 1 0.9713 100 0.21 Contact Map
3ephA 2 0.9777 100 0.227 Contact Map
3crmA 1 0.742 100 0.286 Contact Map
3a8tA 1 0.7643 100 0.416 Contact Map
2ze6A 1 0.6592 100 0.579 Contact Map
1ckeA 1 0.6624 99.8 0.804 Contact Map
2qmhA 5 0.5127 99.7 0.834 Contact Map
3tqfA 3 0.4745 99.4 0.859 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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