GREMLIN Database
TRUA - tRNA pseudouridine synthase A
UniProt: P07649 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10454
Length: 270 (244)
Sequences: 5647 (3998)
Seq/√Len: 255.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
162_T174_P2.9711.00
115_A251_D2.9411.00
11_K73_E2.8921.00
117_R195_K2.7221.00
154_C225_A2.5471.00
137_T212_M2.3311.00
38_K41_K2.2741.00
163_S230_A2.2561.00
115_A195_K2.2041.00
24_Y32_V2.1781.00
11_K71_H2.1621.00
158_E177_N2.1491.00
28_R40_E2.1351.00
149_H153_Q2.1071.00
225_A229_A2.1011.00
37_E41_K2.0661.00
219_Q223_W2.0311.00
117_R193_D2.0261.00
33_R38_K2.0111.00
22_K94_D1.9501.00
119_R248_V1.8991.00
223_W226_E1.8741.00
210_S224_I1.8711.00
119_R191_V1.8691.00
150_R221_E1.8601.00
119_R193_D1.8471.00
148_M215_G1.8341.00
84_T100_V1.8191.00
192_V208_V1.8011.00
121_I246_Y1.7741.00
36_Q40_E1.7611.00
153_Q156_L1.7511.00
181_I192_V1.7491.00
203_M207_I1.7251.00
194_I207_I1.7171.00
13_A101_K1.7121.00
247_L250_V1.7101.00
66_T248_V1.6791.00
184_T193_D1.6411.00
71_H109_A1.6281.00
181_I194_I1.6251.00
154_C221_E1.5941.00
220_P223_W1.5891.00
14_L70_V1.5791.00
26_W70_V1.5681.00
180_H195_K1.5671.00
45_Q90_N1.5641.00
96_A128_R1.5641.00
178_V194_I1.5221.00
23_Y33_R1.5181.00
23_Y94_D1.5131.00
152_A181_I1.5081.00
115_A179_M1.5021.00
117_R251_D1.4981.00
19_D135_G1.4941.00
141_E216_A1.4941.00
13_A69_V1.4871.00
44_S50_P1.4711.00
33_R94_D1.4651.00
152_A211_L1.4541.00
28_R37_E1.4431.00
124_N185_R1.4381.00
17_E98_R1.4321.00
213_E218_N1.4271.00
121_I189_Y1.4261.00
16_I70_V1.4261.00
144_D217_H1.4111.00
21_S134_K1.4011.00
12_I74_T1.3751.00
144_D147_R1.3661.00
155_L207_I1.3441.00
12_I100_V1.3371.00
39_L97_V1.3331.00
19_D134_K1.3171.00
53_V70_V1.3121.00
146_E149_H1.3111.00
179_M197_N1.3071.00
121_I191_V1.2791.00
210_S237_A1.2771.00
49_E75_T1.2731.00
213_E219_Q1.2671.00
15_G69_V1.2671.00
38_K95_I1.2591.00
176_R198_A1.2591.00
149_H182_N1.2571.00
149_H183_V1.2371.00
152_A183_V1.2291.00
158_E197_N1.2261.00
28_R52_T1.2201.00
22_K134_K1.2161.00
26_W55_C1.2151.00
24_Y61_A1.2151.00
122_I192_V1.2091.00
21_S64_H1.1831.00
15_G99_W1.1771.00
202_H206_N1.1731.00
129_P132_L1.1661.00
39_L70_V1.1571.00
114_T253_P1.1561.00
129_P136_V1.1531.00
117_R248_V1.1461.00
179_M195_K1.1441.00
147_R217_H1.1411.00
150_R153_Q1.1351.00
18_Y68_Q1.1301.00
151_A214_V1.1291.00
19_D133_S1.1281.00
195_K251_D1.1281.00
194_I208_V1.1101.00
56_A68_Q1.0991.00
156_L180_H1.0891.00
232_D235_L1.0881.00
143_L148_M1.0861.00
165_R174_P1.0751.00
214_V224_I1.0741.00
15_G67_G1.0721.00
137_T241_K1.0711.00
220_P224_I1.0701.00
41_K45_Q1.0641.00
230_A235_L1.0621.00
183_V192_V1.0571.00
123_Y136_V1.0541.00
158_E175_W1.0481.00
137_T240_A1.0451.00
117_R249_A1.0411.00
40_E53_V1.0391.00
147_R150_R1.0281.00
147_R221_E1.0271.00
125_H188_P1.0231.00
227_L230_A1.0201.00
132_L189_Y1.0201.00
33_R37_E1.0191.00
154_C222_S1.0171.00
108_H111_F1.0121.00
17_E130_A1.0101.00
163_S231_K1.0091.00
150_R222_S1.0081.00
145_A190_V1.0081.00
16_I39_L1.0051.00
17_E129_P1.0031.00
202_H239_T1.0001.00
160_D174_P0.9991.00
57_G68_Q0.9991.00
24_Y34_S0.9981.00
67_G249_A0.9961.00
151_A221_E0.9901.00
124_N190_V0.9891.00
14_L72_F0.9881.00
139_F216_A0.9811.00
14_L100_V0.9781.00
13_A103_V0.9751.00
145_A185_R0.9671.00
184_T191_V0.9671.00
151_A215_G0.9661.00
103_V106_D0.9531.00
23_Y95_I0.9521.00
137_T243_E0.9511.00
206_N239_T0.9471.00
80_D100_V0.9441.00
122_I212_M0.9411.00
166_A202_H0.9361.00
181_I211_L0.9361.00
147_R220_P0.9251.00
23_Y35_V0.9231.00
82_A86_G0.9231.00
164_F227_L0.9201.00
148_M211_L0.9111.00
212_M240_A0.9111.00
181_I207_I0.9081.00
46_V90_N0.9041.00
183_V190_V0.8941.00
135_G246_Y0.8931.00
194_I204_V0.8911.00
82_A85_L0.8911.00
13_A107_F0.8891.00
87_V97_V0.8871.00
182_N193_D0.8861.00
54_F71_H0.8861.00
46_V83_W0.8861.00
56_A250_V0.8781.00
102_T105_D0.8741.00
80_D102_T0.8731.00
145_A149_H0.8701.00
136_V189_Y0.8651.00
15_G101_K0.8631.00
34_S37_E0.8601.00
47_A50_P0.8590.99
123_Y129_P0.8590.99
219_Q227_L0.8590.99
193_D248_V0.8560.99
43_L72_F0.8480.99
113_A250_V0.8480.99
35_V95_I0.8470.99
132_L136_V0.8400.99
213_E216_A0.8380.99
226_E235_L0.8320.99
71_H108_H0.8280.99
165_R168_Q0.8220.99
62_G242_A0.8200.99
180_H193_D0.8080.99
183_V211_L0.8030.99
116_R198_A0.8020.99
213_E238_A0.8000.99
209_G237_A0.8000.99
165_R169_C0.7990.99
155_L181_I0.7920.99
51_I72_F0.7920.99
222_S226_E0.7910.99
132_L135_G0.7900.99
49_E74_T0.7900.99
221_E224_I0.7890.99
46_V86_G0.7860.99
55_C70_V0.7800.99
139_F212_M0.7770.99
47_A74_T0.7750.99
143_L212_M0.7710.99
185_R188_P0.7680.99
166_A201_H0.7680.99
168_Q201_H0.7680.99
155_L224_I0.7650.99
56_A252_Y0.7640.99
160_D231_K0.7620.99
210_S236_A0.7590.99
16_I26_W0.7470.99
42_A90_N0.7420.99
146_E150_R0.7420.99
44_S47_A0.7410.99
88_N96_A0.7400.99
122_I208_V0.7360.98
162_T165_R0.7350.98
24_Y31_E0.7310.98
116_R247_L0.7300.98
148_M183_V0.7260.98
74_T83_W0.7210.98
43_L87_V0.7140.98
177_N197_N0.7140.98
66_T246_Y0.7120.98
178_V196_A0.7120.98
131_V135_G0.7040.98
121_I132_L0.7030.98
39_L53_V0.7030.98
211_L215_G0.6980.98
222_S225_A0.6970.98
40_E52_T0.6930.98
166_A239_T0.6910.98
212_M216_A0.6880.98
227_L236_A0.6880.98
149_H181_I0.6850.98
122_I190_V0.6840.98
56_A113_A0.6830.97
151_A211_L0.6830.97
23_Y38_K0.6830.97
84_T99_W0.6810.97
223_W227_L0.6800.97
85_L89_A0.6790.97
57_G247_L0.6760.97
186_H191_V0.6760.97
38_K42_A0.6740.97
148_M152_A0.6660.97
54_F108_H0.6650.97
26_W53_V0.6610.97
178_V181_I0.6600.97
206_N233_R0.6590.97
69_V252_Y0.6580.97
120_Y240_A0.6570.97
47_A83_W0.6570.97
36_Q53_V0.6530.97
70_V97_V0.6520.97
233_R237_A0.6520.97
163_S232_D0.6480.97
226_E229_A0.6450.96
109_A112_S0.6450.96
67_G98_R0.6430.96
145_A183_V0.6410.96
227_L237_A0.6380.96
64_H244_G0.6350.96
183_V194_I0.6350.96
81_A85_L0.6330.96
12_I102_T0.6310.96
154_C224_I0.6300.96
155_L178_V0.6290.96
15_G98_R0.6260.96
206_N236_A0.6240.96
57_G250_V0.6240.96
165_R171_S0.6230.96
213_E237_A0.6230.96
79_K82_A0.6220.96
17_E131_V0.6210.96
226_E230_A0.6170.95
155_L228_L0.6170.95
124_N139_F0.6170.95
124_N188_P0.6150.95
220_P226_E0.6140.95
163_S235_L0.6130.95
159_N175_W0.6070.95
122_I143_L0.6050.95
42_A87_V0.6040.95
123_Y132_L0.5990.95
154_C220_P0.5980.95
113_A116_R0.5980.95
150_R154_C0.5970.95
163_S236_A0.5950.94
185_R190_V0.5940.94
221_E225_A0.5930.94
47_A51_I0.5920.94
44_S48_N0.5910.94
154_C214_V0.5900.94
49_E76_A0.5890.94
121_I248_V0.5880.94
78_R82_A0.5880.94
149_H185_R0.5870.94
208_V240_A0.5840.94
171_S174_P0.5810.94
80_D84_T0.5780.94
32_V37_E0.5760.93
143_L215_G0.5740.93
43_L47_A0.5740.93
134_K243_E0.5730.93
66_T121_I0.5730.93
57_G112_S0.5690.93
160_D175_W0.5620.93
248_V251_D0.5580.92
147_R214_V0.5570.92
83_W100_V0.5560.92
176_R197_N0.5560.92
214_V223_W0.5560.92
162_T231_K0.5540.92
54_F109_A0.5530.92
16_I68_Q0.5510.92
236_A239_T0.5510.92
224_I228_L0.5480.92
24_Y33_R0.5480.92
84_T127_L0.5460.92
116_R196_A0.5440.91
233_R236_A0.5440.91
116_R202_H0.5440.91
196_A206_N0.5410.91
114_T251_D0.5360.91
23_Y91_L0.5320.91
57_G109_A0.5300.90
163_S227_L0.5280.90
12_I76_A0.5250.90
96_A127_L0.5240.90
92_P95_I0.5240.90
28_R41_K0.5240.90
134_K246_Y0.5240.90
39_L43_L0.5210.90
165_R200_V0.5210.90
209_G238_A0.5200.90
135_G138_H0.5200.90
22_K33_R0.5200.90
19_D94_D0.5200.90
159_N228_L0.5190.89
14_L43_L0.5180.89
206_N237_A0.5180.89
76_A83_W0.5150.89
43_L83_W0.5140.89
29_Q34_S0.5120.89
196_A199_F0.5110.89
44_S51_I0.5090.89
46_V87_V0.5070.88
139_F143_L0.5050.88
210_S214_V0.5040.88
192_V211_L0.5040.88
179_M196_A0.5010.88
175_W198_A0.5000.88
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  
1dj0A 2 0.9778 100 0.051 Contact Map
1vs3A 2 0.9074 100 0.064 Contact Map
4j37A 1 0.8963 100 0.103 Contact Map
2v9kA 1 0.8074 79.2 0.945 Contact Map
4qanA 1 0.2296 15.8 0.965 Contact Map
2x31A 2 0.3407 8.8 0.969 Contact Map
3da5A 2 0.2222 7.9 0.969 Contact Map
1z2zA 1 0.9296 7.8 0.969 Contact Map
3jywP 1 0.263 5.4 0.972 Contact Map
4kw3A 1 0.4741 4.9 0.972 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 0.0091 seconds.