GREMLIN Database
TRMK - tRNA (adenine(22)-N(1))-methyltransferase
UniProt: P54471 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 238 (224)
Sequences: 1301 (1097)
Seq/√Len: 73.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
147_E192_K5.0591.00
77_G82_V3.9151.00
28_S34_P3.3761.00
63_V74_V3.2651.00
17_I37_A3.1751.00
202_Q232_K3.0671.00
22_V45_G2.8991.00
133_L158_A2.8561.00
140_L156_L2.8551.00
117_R159_E2.6741.00
28_S50_E2.5691.00
117_R157_V2.5501.00
142_D185_E2.4591.00
175_G183_A2.4471.00
43_A46_A2.4211.00
11_Q15_E2.4051.00
23_M43_A2.3861.00
35_C62_Q2.3271.00
34_P46_A2.2241.00
145_I189_V2.1141.00
132_W136_E2.1071.00
89_D116_E2.0961.00
56_F74_V2.0911.00
64_E69_N2.0741.00
91_I115_K2.0451.00
52_T55_P2.0411.00
23_M92_T2.0061.00
53_D57_L1.9891.00
38_V43_A1.9871.00
38_V72_I1.9791.00
14_A37_A1.9721.00
36_Y40_N1.9581.00
198_L228_M1.9291.00
18_P117_R1.9241.00
144_V187_N1.8841.00
56_F60_K1.8131.00
47_I75_R1.7941.00
75_R87_E1.7331.00
57_L60_K1.7301.00
49_G82_V1.7281.00
103_H107_A1.6761.00
16_Y144_V1.6381.00
131_E135_K1.5820.99
134_Y176_M1.5720.99
80_L91_I1.5690.99
14_A36_Y1.5600.99
60_K64_E1.5490.99
161_G165_A1.5340.99
23_M37_A1.5320.99
201_T227_R1.4610.99
53_D76_Q1.4430.99
58_S62_Q1.3740.98
141_I159_E1.3710.98
222_K225_A1.3650.98
112_L115_K1.3640.98
81_E107_A1.3580.98
50_E56_F1.3540.98
220_K223_E1.3240.98
7_S148_E1.2880.97
12_T144_V1.2860.97
106_E109_K1.2850.97
98_G122_P1.2750.97
38_V71_H1.2620.97
18_P21_A1.2570.97
63_V72_I1.2570.97
31_A54_G1.2490.97
16_Y157_V1.2350.97
205_Y221_L1.2310.97
78_D81_E1.2300.97
19_N42_K1.2270.96
78_D103_H1.2260.96
13_V94_A1.2140.96
147_E152_C1.2120.96
39_L66_S1.2110.96
21_A44_S1.2040.96
142_D181_F1.2040.96
127_V131_E1.2000.96
4_L39_L1.1940.96
12_T155_V1.1870.96
24_A83_I1.1850.96
38_V46_A1.1820.96
6_L10_L1.1810.96
120_L133_L1.1780.96
62_Q65_K1.1700.95
48_A72_I1.1630.95
36_Y42_K1.1540.95
96_M100_L1.1500.95
12_T15_E1.1430.95
102_A129_I1.1420.95
190_F194_W1.1400.95
18_P157_V1.1190.94
180_P184_K1.1110.94
141_I157_V1.1070.94
68_L72_I1.1050.94
120_L158_A1.0940.93
33_L92_T1.0920.93
23_M46_A1.0840.93
106_E132_W1.0830.93
83_I88_A1.0760.93
90_A117_R1.0750.93
109_K136_E1.0740.93
16_Y142_D1.0660.92
51_I76_Q1.0590.92
58_S61_R1.0450.92
22_V89_D1.0380.91
49_G77_G1.0310.91
17_I92_T1.0260.91
205_Y225_A1.0250.91
20_G44_S1.0200.91
229_E232_K1.0030.90
118_L158_A0.9920.89
152_C189_V0.9870.89
201_T228_M0.9860.89
198_L232_K0.9840.89
181_F184_K0.9810.89
105_L132_W0.9740.89
191_L195_T0.9680.88
14_A33_L0.9670.88
32_Y62_Q0.9620.88
52_T56_F0.9620.88
226_D230_L0.9590.88
218_K221_L0.9470.87
34_P43_A0.9290.86
201_T231_L0.9240.86
13_V155_V0.9230.86
26_I49_G0.9190.86
80_L83_I0.9060.85
219_Q226_D0.9040.85
204_I208_I0.9040.85
116_E138_Y0.8960.84
223_E227_R0.8920.84
8_K11_Q0.8920.84
12_T146_L0.8840.83
126_A193_K0.8780.83
49_G83_I0.8780.83
55_P58_S0.8760.83
20_G90_A0.8680.82
34_P92_T0.8620.82
39_L68_L0.8620.82
218_K222_K0.8560.81
145_I154_E0.8540.81
198_L202_Q0.8530.81
45_G73_S0.8520.81
168_D175_G0.8500.81
28_S49_G0.8500.81
154_E193_K0.8490.81
195_T198_L0.8450.80
102_A128_H0.8440.80
221_L225_A0.8330.79
205_Y228_M0.8310.79
201_T224_L0.8300.79
222_K229_E0.8230.79
63_V68_L0.8220.79
39_L65_K0.8150.78
15_E144_V0.8080.77
106_E136_E0.8060.77
26_I83_I0.8050.77
220_K224_L0.8050.77
78_D107_A0.8000.77
214_T217_N0.7960.76
15_E42_K0.7790.75
7_S152_C0.7740.74
130_R143_E0.7740.74
118_L133_L0.7730.74
93_I104_I0.7720.74
60_K74_V0.7710.74
21_A89_D0.7700.74
26_I80_L0.7690.74
37_A43_A0.7690.74
11_Q40_N0.7640.73
6_L36_Y0.7610.73
202_Q206_E0.7540.72
52_T76_Q0.7520.72
139_A163_R0.7480.72
219_Q222_K0.7480.72
151_K189_V0.7470.72
178_V231_L0.7470.72
178_V183_A0.7460.72
75_R82_V0.7440.71
193_K197_E0.7410.71
225_A229_E0.7390.71
28_S48_A0.7380.71
46_A49_G0.7350.70
22_V88_A0.7340.70
35_C39_L0.7260.69
163_R166_A0.7250.69
17_I90_A0.7210.69
47_I73_S0.7210.69
123_N193_K0.7200.69
47_I88_A0.7190.69
206_E209_S0.7170.68
81_E111_K0.7170.68
94_A121_Q0.7170.68
123_N154_E0.7150.68
62_Q66_S0.7150.68
181_F185_E0.7140.68
144_V185_E0.7130.68
91_I118_L0.7030.67
174_A230_L0.6980.66
209_S225_A0.6950.66
174_A177_L0.6940.66
219_Q223_E0.6910.66
198_L231_L0.6910.66
13_V32_Y0.6820.65
217_N221_L0.6800.64
98_G133_L0.6790.64
113_T160_A0.6770.64
161_G168_D0.6740.64
145_I182_L0.6740.64
38_V63_V0.6730.64
35_C63_V0.6720.63
101_I129_I0.6720.63
11_Q36_Y0.6690.63
38_V42_K0.6650.63
78_D104_I0.6620.62
10_L33_L0.6610.62
173_S226_D0.6610.62
35_C72_I0.6600.62
190_F193_K0.6590.62
10_L34_P0.6540.61
154_E194_W0.6530.61
161_G167_Y0.6520.61
131_E176_M0.6510.61
108_G111_K0.6480.61
31_A34_P0.6480.61
77_G87_E0.6460.60
187_N190_F0.6460.60
65_K150_G0.6430.60
105_L118_L0.6420.60
196_Q200_H0.6370.59
202_Q228_M0.6340.59
126_A129_I0.6310.59
50_E92_T0.6300.59
98_G129_I0.6290.58
145_I190_F0.6280.58
215_E221_L0.6250.58
115_K138_Y0.6230.58
55_P153_Y0.6220.58
147_E150_G0.6200.57
45_G88_A0.6180.57
197_E201_T0.6140.57
218_K225_A0.6140.57
121_Q129_I0.6130.56
145_I152_C0.6130.56
63_V69_N0.6100.56
177_L230_L0.6100.56
99_A128_H0.6090.56
152_C193_K0.6030.55
83_I91_I0.6010.55
27_G79_G0.6000.55
27_G96_M0.5990.55
100_L145_I0.5960.54
5_K93_I0.5950.54
75_R86_G0.5940.54
116_E160_A0.5920.54
24_A91_I0.5920.54
77_G88_A0.5920.54
93_I101_I0.5910.54
111_K123_N0.5910.54
90_A119_I0.5870.53
31_A74_V0.5850.53
117_R141_I0.5840.53
22_V44_S0.5820.53
13_V93_I0.5820.53
24_A88_A0.5810.53
215_E218_K0.5800.52
178_V190_F0.5780.52
142_D219_Q0.5760.52
189_V192_K0.5750.52
17_I119_I0.5740.52
100_L124_I0.5730.52
47_I121_Q0.5720.51
73_S82_V0.5710.51
47_I77_G0.5710.51
46_A54_G0.5700.51
6_L155_V0.5680.51
125_H128_H0.5680.51
73_S77_G0.5680.51
204_I217_N0.5680.51
85_K111_K0.5660.51
57_L61_R0.5640.50
18_P90_A0.5630.50
223_E232_K0.5620.50
228_M232_K0.5620.50
13_V92_T0.5610.50
77_G125_H0.5580.50
50_E101_I0.5580.50
81_E108_G0.5570.50
108_G112_L0.5550.49
48_A55_P0.5550.49
100_L122_P0.5530.49
55_P76_Q0.5510.49
224_L228_M0.5470.48
28_S56_F0.5460.48
142_D157_V0.5460.48
121_Q155_V0.5440.48
31_A49_G0.5440.48
51_I92_T0.5420.48
33_L94_A0.5420.48
203_S206_E0.5410.48
126_A156_L0.5410.48
107_A188_A0.5410.48
123_N194_W0.5400.47
56_F63_V0.5400.47
52_T58_S0.5400.47
164_D226_D0.5390.47
125_H200_H0.5380.47
226_D229_E0.5360.47
154_E178_V0.5360.47
17_I20_G0.5340.47
163_R167_Y0.5330.47
131_E173_S0.5330.47
37_A92_T0.5320.46
153_Y179_G0.5290.46
137_R162_D0.5280.46
175_G179_G0.5280.46
201_T205_Y0.5250.46
122_P149_D0.5220.45
140_L181_F0.5220.45
105_L136_E0.5210.45
16_Y155_V0.5200.45
8_K144_V0.5140.44
43_A71_H0.5140.44
91_I111_K0.5130.44
8_K12_T0.5120.44
203_S207_Q0.5110.44
110_D135_K0.5090.44
182_L190_F0.5090.44
119_I157_V0.5090.44
123_N180_P0.5050.43
207_Q210_Q0.5050.43
54_G100_L0.5040.43
134_Y164_D0.5020.43
99_A125_H0.5010.43
177_L227_R0.5010.43
35_C68_L0.5000.43
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  
3gnlA 1 0.9748 100 0.385 Contact Map
3lecA 2 0.937 100 0.429 Contact Map
3kr9A 1 0.9286 100 0.431 Contact Map
2nxcA 1 0.6345 99.2 0.817 Contact Map
3ocjA 1 0.6681 99.1 0.819 Contact Map
2r3sA 4 0.6513 99 0.826 Contact Map
3evzA 1 0.6597 99 0.828 Contact Map
3k6rA 1 0.6639 99 0.828 Contact Map
4kriA 1 0.8571 99 0.829 Contact Map
2b3tA 1 0.6639 99 0.829 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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