GREMLIN Database
TYW3 - tRNA(Phe) 7-((3-amino-3-carboxypropyl)-4-demethylwyosine(37)-N(4))-methyltransferase
UniProt: Q9UX16 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 209 (191)
Sequences: 382 (275)
Seq/√Len: 19.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
11_A43_Y3.2661.00
34_A186_K3.1570.99
85_L151_L3.1470.99
41_D107_K3.1370.99
15_I24_L3.0920.99
60_P63_R3.0760.99
177_R180_Q2.9770.99
27_D179_K2.9480.99
124_F181_K2.9390.99
103_H116_L2.8290.99
27_D49_S2.7160.98
159_V163_K2.6420.98
106_A112_G2.4300.97
149_H167_L2.4260.97
9_E13_N2.3020.96
95_L171_C2.2570.95
116_L127_S2.1970.94
100_P174_V2.1830.94
18_D141_L2.1300.93
34_A185_L2.1160.93
106_A115_I2.1070.93
66_S126_H2.0370.91
68_I163_K2.0350.91
4_W8_R1.9980.91
185_L189_L1.9870.90
42_V115_I1.8480.87
98_Q178_G1.8010.85
17_H21_I1.7570.84
19_K178_G1.7560.84
5_E107_K1.7540.84
64_K174_V1.7260.83
17_H22_G1.6900.81
5_E9_E1.6820.81
17_H178_G1.6790.81
168_V172_N1.6580.80
104_I115_I1.6570.80
41_D129_I1.6430.79
53_T152_R1.6290.79
184_L189_L1.6110.78
49_S150_L1.5660.76
126_H144_G1.5450.75
68_I142_R1.5380.75
97_V113_W1.5000.73
20_E68_I1.4620.71
28_I31_F1.4510.70
96_I103_H1.4460.70
71_K125_K1.4310.69
19_K98_Q1.3750.66
97_V178_G1.3690.66
96_I136_G1.3680.66
21_I140_E1.3570.65
68_I125_K1.3370.64
142_R178_G1.3160.62
75_R179_K1.3160.62
100_P140_E1.3050.62
118_I122_A1.2970.61
45_Q159_V1.2520.58
76_I171_C1.2480.58
4_W178_G1.2400.58
74_L80_D1.2380.58
71_K140_E1.2070.56
19_K22_G1.2060.56
76_I172_N1.2060.56
43_Y175_L1.2050.55
81_L168_V1.1650.53
169_N187_D1.1650.53
41_D111_T1.1620.53
79_Q83_D1.1600.53
42_V111_T1.1480.52
48_C51_R1.1420.51
100_P106_A1.1320.51
128_G142_R1.1310.51
59_M63_R1.1220.50
175_L178_G1.1200.50
11_A14_K1.1180.50
103_H143_T1.1040.49
140_E178_G1.0850.48
47_S181_K1.0770.47
55_V99_G1.0750.47
94_W120_R1.0750.47
94_W130_L1.0710.47
38_N110_E1.0600.46
78_E164_I1.0590.46
28_I32_L1.0580.46
20_E125_K1.0540.46
165_K169_N1.0520.46
6_E10_K1.0510.46
95_L168_V1.0120.43
108_N111_T1.0100.43
53_T66_S1.0000.42
49_S185_L0.9760.41
122_A135_K0.9610.40
118_I154_S0.9610.40
46_S50_G0.9550.40
46_S51_R0.9550.40
69_I152_R0.9540.39
4_W68_I0.9520.39
96_I130_L0.9510.39
126_H145_I0.9510.39
71_K178_G0.9460.39
187_D191_S0.9380.38
88_N108_N0.9350.38
96_I105_Y0.9220.37
17_H71_K0.9180.37
8_R37_R0.9150.37
119_A127_S0.9130.37
106_A137_V0.9100.37
18_D61_W0.8990.36
30_G102_I0.8990.36
17_H142_R0.8910.36
101_I134_Q0.8750.35
44_T47_S0.8750.35
61_W99_G0.8680.34
96_I120_R0.8670.34
84_V155_N0.8640.34
56_D125_K0.8620.34
17_H98_Q0.8610.34
19_K142_R0.8610.34
116_L130_L0.8600.34
9_E160_D0.8590.34
53_T68_I0.8580.34
3_V6_E0.8580.34
3_V193_S0.8570.34
17_H66_S0.8570.34
20_E126_H0.8430.33
117_K164_I0.8430.33
147_M170_V0.8400.33
98_Q174_V0.8310.32
13_N40_N0.8300.32
71_K175_L0.8280.32
86_S184_L0.8180.31
6_E31_F0.8110.31
19_K97_V0.8070.31
165_K190_S0.8070.31
24_L32_L0.8070.31
124_F139_V0.8050.31
52_I171_C0.8040.31
96_I178_G0.8000.30
43_Y53_T0.7980.30
31_F35_F0.7940.30
19_K128_G0.7940.30
72_N97_V0.7900.30
112_G131_A0.7900.30
17_H20_E0.7890.30
85_L168_V0.7840.30
9_E186_K0.7780.29
188_L191_S0.7730.29
42_V189_L0.7700.29
77_T165_K0.7690.29
124_F138_L0.7680.29
40_N95_L0.7630.28
96_I146_R0.7620.28
130_L141_L0.7580.28
176_A180_Q0.7550.28
18_D99_G0.7550.28
190_S194_N0.7550.28
55_V96_I0.7530.28
53_T126_H0.7520.28
72_N115_I0.7450.28
79_Q165_K0.7450.28
28_I124_F0.7380.27
92_R170_V0.7310.27
9_E169_N0.7300.27
97_V126_H0.7300.27
98_Q128_G0.7290.27
101_I131_A0.7290.27
109_I117_K0.7290.27
35_F59_M0.7210.26
19_K71_K0.7160.26
22_G26_P0.7090.26
150_L177_R0.7050.26
93_L146_R0.7050.26
17_H68_I0.7010.25
116_L143_T0.6960.25
11_A175_L0.6950.25
58_E75_R0.6940.25
34_A106_A0.6900.25
165_K171_C0.6860.25
113_W181_K0.6850.25
21_I142_R0.6820.24
80_D83_D0.6800.24
83_D187_D0.6760.24
20_E32_L0.6740.24
21_I98_Q0.6690.24
139_V152_R0.6680.24
10_K193_S0.6650.24
31_F57_A0.6640.24
66_S125_K0.6600.23
154_S169_N0.6550.23
162_D169_N0.6540.23
156_T191_S0.6530.23
143_T146_R0.6520.23
55_V108_N0.6520.23
100_P178_G0.6500.23
42_V106_A0.6490.23
79_Q156_T0.6480.23
34_A147_M0.6470.23
19_K140_E0.6460.23
190_S193_S0.6460.23
173_E187_D0.6440.23
71_K126_H0.6430.23
82_E155_N0.6430.23
136_G151_L0.6420.23
12_L122_A0.6420.23
99_G104_I0.6410.22
72_N178_G0.6390.22
92_R153_E0.6360.22
35_F188_L0.6340.22
183_N186_K0.6300.22
120_R136_G0.6290.22
106_A150_L0.6290.22
126_H143_T0.6230.22
97_V140_E0.6220.22
7_L11_A0.6210.22
156_T162_D0.6180.21
5_E191_S0.6170.21
28_I95_L0.6140.21
84_V184_L0.6120.21
67_T170_V0.6120.21
24_L135_K0.6120.21
148_V174_V0.6110.21
17_H97_V0.6110.21
86_S134_Q0.6080.21
20_E178_G0.6020.21
53_T93_L0.6020.21
109_I168_V0.6010.21
34_A150_L0.6000.21
57_A152_R0.5970.21
183_N187_D0.5960.21
66_S140_E0.5960.21
85_L157_E0.5950.20
162_D189_L0.5880.20
22_G65_N0.5880.20
4_W98_Q0.5870.20
17_H140_E0.5850.20
37_R68_I0.5830.20
4_W19_K0.5830.20
88_N173_E0.5810.20
15_I41_D0.5810.20
54_I152_R0.5810.20
88_N109_I0.5790.20
40_N138_L0.5750.20
70_F148_V0.5750.20
154_S177_R0.5730.20
107_K133_N0.5660.19
4_W37_R0.5660.19
19_K23_Y0.5630.19
31_F65_N0.5620.19
23_Y140_E0.5620.19
108_N136_G0.5600.19
107_K129_I0.5600.19
9_E86_S0.5590.19
10_K187_D0.5580.19
4_W148_V0.5570.19
126_H175_L0.5550.19
102_I131_A0.5550.19
151_L159_V0.5530.19
9_E85_L0.5530.19
45_Q102_I0.5510.19
75_R181_K0.5500.19
23_Y142_R0.5500.19
77_T191_S0.5460.18
108_N129_I0.5370.18
66_S71_K0.5360.18
9_E79_Q0.5350.18
8_R102_I0.5330.18
181_K185_L0.5330.18
154_S173_E0.5310.18
128_G178_G0.5290.18
41_D108_N0.5290.18
39_R111_T0.5280.18
98_Q142_R0.5260.18
94_W174_V0.5250.18
148_V171_C0.5220.18
85_L187_D0.5180.17
16_Y74_L0.5170.17
3_V160_D0.5170.17
47_S51_R0.5130.17
47_S50_G0.5130.17
77_T83_D0.5100.17
89_Q93_L0.5080.17
21_I178_G0.5070.17
52_I153_E0.5040.17
21_I63_R0.5030.17
116_L120_R0.5020.17
45_Q138_L0.5000.17
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  
1tljA 2 0.8995 100 0.076 Contact Map
2it2A 2 0.9139 100 0.105 Contact Map
2qg3A 2 0.933 100 0.121 Contact Map
2dvkA 2 0.7895 100 0.141 Contact Map
4idhA 1 0.3971 41.8 0.953 Contact Map
3mv2A 1 0.555 20.5 0.96 Contact Map
2vxzA 1 0.7177 14.8 0.962 Contact Map
1r29A 2 0.5694 8.5 0.966 Contact Map
4qgeA 2 0 6.9 0.967 Contact Map
1qwzA 1 0.2536 6.8 0.968 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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