GREMLIN Database
TRUB - Probable tRNA pseudouridine synthase B
UniProt: Q980C3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 251 (203)
Sequences: 3219 (2394)
Seq/√Len: 168.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
50_Y65_I4.0241.00
48_E65_I3.7781.00
24_V84_R2.8991.00
48_E67_R2.8141.00
36_E98_H2.8001.00
22_E84_R2.7871.00
44_S103_I2.6851.00
175_A180_A2.5601.00
28_Q80_L2.5391.00
22_E86_N2.5171.00
28_Q111_R2.2021.00
70_D86_N2.1671.00
74_L84_R2.1591.00
41_I100_I2.1481.00
27_M97_C2.1091.00
55_V61_R2.1071.00
59_V64_R2.1041.00
97_C110_M2.0791.00
52_R63_L1.9571.00
29_V81_V1.9521.00
27_M81_V1.9201.00
42_I71_I1.9131.00
32_E102_I1.9091.00
45_F103_I1.8861.00
5_G13_M1.8801.00
169_E172_A1.8721.00
24_V82_L1.8711.00
72_E84_R1.8591.00
27_M83_L1.8511.00
26_V82_L1.8061.00
49_I66_R1.7881.00
36_E95_K1.7391.00
43_S46_K1.7261.00
20_G86_N1.7081.00
85_V96_L1.7051.00
25_C83_L1.7021.00
101_G108_A1.6861.00
26_V80_L1.6631.00
101_G107_G1.6051.00
101_G106_C1.5781.00
42_I73_I1.5291.00
25_C110_M1.5161.00
39_A73_I1.5091.00
129_K132_E1.5071.00
76_M81_V1.5051.00
75_D82_L1.4871.00
32_E107_G1.4781.00
154_I158_F1.4691.00
134_S138_Y1.4611.00
86_N117_R1.4471.00
176_L201_V1.4471.00
168_I176_L1.4451.00
50_Y63_L1.4361.00
33_Y109_H1.4191.00
46_K71_I1.4151.00
13_M17_S1.4141.00
95_K98_H1.4081.00
22_E117_R1.4051.00
80_L111_R1.4041.00
123_E127_L1.4001.00
148_E151_R1.3921.00
38_L81_V1.3781.00
26_V112_E1.3511.00
8_N11_K1.3411.00
24_V74_L1.3371.00
34_N56_R1.3321.00
26_V111_R1.3301.00
27_M108_A1.3271.00
163_I211_T1.3211.00
42_I83_L1.3161.00
39_A46_K1.3071.00
131_H134_S1.3041.00
176_L210_A1.2871.00
20_G69_Y1.2701.00
157_E202_L1.2691.00
70_D84_R1.2681.00
174_N178_Y1.2641.00
28_Q31_C1.2561.00
114_R123_E1.2491.00
41_I44_S1.2481.00
122_T126_N1.2351.00
73_I81_V1.2121.00
85_V93_M1.2101.00
69_Y86_N1.2051.00
77_D82_L1.1981.00
121_F158_F1.1851.00
98_H102_I1.1801.00
45_F99_D1.1801.00
41_I103_I1.1781.00
200_A208_L1.1591.00
18_K89_S1.1541.00
22_E116_T1.1521.00
132_E135_E1.1351.00
31_C109_H1.1351.00
117_R122_T1.1271.00
68_I96_L1.1001.00
203_T207_E1.0871.00
175_A178_Y1.0480.99
29_V104_Y1.0350.99
128_V133_L1.0350.99
136_A152_V1.0280.99
67_R88_D1.0240.99
177_A207_E1.0100.99
19_G119_G1.0080.99
61_R95_K1.0010.99
46_K70_D0.9970.99
1_M127_L0.9830.99
35_K56_R0.9790.99
168_I172_A0.9710.99
137_I149_L0.9670.99
82_L112_E0.9580.99
27_M110_M0.9560.99
54_P95_K0.9550.99
25_C97_C0.9540.99
128_V132_E0.9520.99
128_V152_V0.9520.99
201_V212_G0.9510.99
28_Q79_K0.9500.99
71_I83_L0.9480.99
87_C91_T0.9470.99
160_T163_I0.9400.99
11_K14_N0.9310.99
50_Y62_R0.9260.99
45_F96_L0.9250.99
173_V203_T0.9170.98
36_E54_P0.9080.98
29_V106_C0.8990.98
172_A175_A0.8980.98
25_C71_I0.8920.98
32_E98_H0.8890.98
160_T208_L0.8800.98
38_L76_M0.8730.98
155_P158_F0.8660.98
73_I76_M0.8640.98
171_S174_N0.8590.98
164_P197_D0.8590.98
71_I96_L0.8520.98
42_I100_I0.8490.98
157_E200_A0.8290.97
32_E106_C0.8280.97
12_I159_A0.8280.97
3_P118_S0.8270.97
121_F159_A0.8270.97
40_K43_S0.8260.97
99_D102_I0.8200.97
19_G118_S0.8170.97
158_F161_C0.8130.97
136_A148_E0.8090.97
55_V95_K0.8030.97
77_D80_L0.8010.96
14_N17_S0.7910.96
1_M123_E0.7860.96
6_I153_L0.7840.96
76_M79_K0.7790.96
49_I68_I0.7770.96
25_C93_M0.7750.96
84_R116_T0.7730.96
68_I87_C0.7690.96
69_Y88_D0.7690.96
29_V108_A0.7660.95
46_K49_I0.7620.95
61_R98_H0.7600.95
71_I100_I0.7580.95
39_A72_E0.7560.95
157_E208_L0.7540.95
171_S175_A0.7530.95
165_K200_A0.7500.95
24_V116_T0.7490.95
96_L100_I0.7480.95
17_S59_V0.7480.95
12_I156_M0.7460.95
1_M118_S0.7380.94
101_G104_Y0.7280.94
137_I148_E0.7240.94
176_L212_G0.7190.94
83_L93_M0.7190.94
172_A180_A0.7180.94
16_I19_G0.7160.94
173_V204_L0.7160.94
173_V177_A0.7080.93
14_N18_K0.7060.93
12_I160_T0.7020.93
33_Y37_E0.6870.92
52_R55_V0.6870.92
28_Q109_H0.6860.92
156_M159_A0.6850.92
170_D205_K0.6830.92
170_D204_L0.6800.92
68_I91_T0.6790.92
176_L209_V0.6710.91
165_K206_G0.6710.91
166_I172_A0.6690.91
42_I46_K0.6620.91
53_P61_R0.6610.90
71_I85_V0.6610.90
39_A43_S0.6590.90
126_N154_I0.6590.90
184_V187_V0.6560.90
182_L212_G0.6530.90
40_K44_S0.6520.90
147_T150_R0.6520.90
149_L152_V0.6490.90
173_V209_V0.6490.90
9_A156_M0.6460.89
133_L152_V0.6430.89
74_L82_L0.6430.89
52_R61_R0.6430.89
53_P63_L0.6410.89
160_T165_K0.6410.89
170_D173_V0.6380.89
167_V203_T0.6380.89
117_R120_I0.6370.89
121_F127_L0.6360.89
68_I85_V0.6320.88
54_P160_T0.6310.88
17_S20_G0.6260.88
15_Y211_T0.6190.87
97_C108_A0.6120.87
62_R66_R0.6120.87
167_V204_L0.6010.86
176_L180_A0.5970.85
183_A186_G0.5950.85
174_N177_A0.5950.85
89_S118_S0.5930.85
30_H37_E0.5920.85
32_E36_E0.5850.84
168_I201_V0.5810.84
128_V136_A0.5790.84
110_M212_G0.5780.84
41_I104_Y0.5780.84
165_K202_L0.5760.83
71_I93_M0.5760.83
30_H33_Y0.5750.83
131_H135_E0.5750.83
172_A182_L0.5750.83
5_G12_I0.5740.83
199_V212_G0.5720.83
32_E109_H0.5710.83
36_E101_G0.5700.83
5_G16_I0.5700.83
39_A76_M0.5680.83
198_T211_T0.5670.82
53_P64_R0.5650.82
97_C101_G0.5650.82
81_V100_I0.5640.82
137_I147_T0.5630.82
29_V107_G0.5630.82
168_I173_V0.5630.82
49_I67_R0.5620.82
24_V114_R0.5620.82
38_L104_Y0.5550.81
175_A186_G0.5550.81
5_G9_A0.5550.81
52_R62_R0.5550.81
51_Q99_D0.5520.81
12_I210_A0.5510.81
202_L208_L0.5480.80
36_E55_V0.5480.80
26_V81_V0.5470.80
166_I184_V0.5470.80
98_H101_G0.5460.80
129_K134_S0.5460.80
168_I182_L0.5450.80
27_M101_G0.5440.80
5_G89_S0.5430.80
199_V202_L0.5410.79
83_L97_C0.5410.79
22_E70_D0.5400.79
198_T213_N0.5390.79
195_K198_T0.5380.79
118_S127_L0.5350.79
97_C111_R0.5330.78
12_I16_I0.5330.78
11_K80_L0.5330.78
66_R91_T0.5300.78
12_I15_Y0.5270.78
11_K121_F0.5250.77
42_I81_V0.5230.77
194_K197_D0.5210.77
27_M100_I0.5200.77
147_T151_R0.5150.76
25_C112_E0.5150.76
208_L212_G0.5150.76
66_R88_D0.5140.76
27_M109_H0.5140.76
203_T206_G0.5140.76
87_C93_M0.5130.76
203_T209_V0.5120.76
4_I9_A0.5120.76
13_M60_K0.5110.76
38_L78_K0.5110.76
91_T96_L0.5100.75
132_E136_A0.5090.75
3_P19_G0.5090.75
46_K72_E0.5090.75
40_K206_G0.5090.75
109_H120_I0.5090.75
36_E110_M0.5090.75
102_I106_C0.5080.75
9_A155_P0.5080.75
4_I212_G0.5070.75
56_R89_S0.5070.75
197_D213_N0.5010.74
3_P7_E0.5000.74
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  
2apoA 1 0.9283 100 0.175 Contact Map
2ausC 1 0.9283 100 0.192 Contact Map
3u28A 1 0.9562 100 0.201 Contact Map
1sgvA 1 0.757 100 0.253 Contact Map
1r3eA 1 0.8924 100 0.264 Contact Map
1k8wA 1 0.8845 100 0.285 Contact Map
2v9kA 1 0.502 100 0.627 Contact Map
3zv0C 2 0.5339 99.3 0.833 Contact Map
1kskA 1 0.4781 98.6 0.873 Contact Map
3r90A 5 0.6494 97.1 0.91 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.

Page generated in 0.0082 seconds.