GREMLIN Database
TRUC - tRNA pseudouridine synthase C
UniProt: P0AA41 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13171
Length: 260 (211)
Sequences: 11736 (7578)
Seq/√Len: 521.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
128_H157_K3.2301.00
85_R153_E3.1381.00
205_Q218_T2.8681.00
7_Q65_L2.7581.00
87_H204_S2.7131.00
99_V128_H2.7001.00
154_L168_L2.5931.00
207_S218_T2.5781.00
5_L60_V2.5771.00
98_A129_Y2.5541.00
10_W66_S2.4571.00
130_R153_E2.4551.00
99_V126_V2.4431.00
87_H151_L2.4311.00
3_E15_N2.2731.00
66_S69_A2.2491.00
207_S216_P2.2481.00
102_Y170_H2.2371.00
10_W212_F2.1861.00
101_D126_V2.1831.00
13_A219_I2.1601.00
85_R205_Q2.0881.00
209_T216_P2.0871.00
97_E130_R2.0861.00
83_Q155_E1.9871.00
15_N221_A1.9661.00
154_L164_L1.9651.00
126_V157_K1.9471.00
83_Q207_S1.9461.00
96_E134_T1.9331.00
101_D124_P1.9121.00
90_V152_V1.8961.00
58_S202_H1.8941.00
85_R155_E1.8671.00
131_G150_G1.8571.00
198_R226_T1.8521.00
205_Q220_H1.8121.00
75_Q79_Q1.8021.00
132_L153_E1.6791.00
88_A154_L1.6781.00
76_Q81_Q1.6191.00
22_V61_L1.5801.00
128_H155_E1.5641.00
8_D210_H1.5541.00
94_L150_G1.5251.00
127_T154_L1.4981.00
204_S220_H1.4911.00
93_W134_T1.4581.00
92_G150_G1.4521.00
35_V38_T1.4401.00
53_L61_L1.4341.00
13_A62_L1.4081.00
152_V168_L1.4011.00
100_L171_L1.3971.00
131_G134_T1.3821.00
90_V168_L1.3681.00
87_H153_E1.3481.00
56_P199_L1.3401.00
196_L200_M1.3261.00
72_L76_Q1.3181.00
75_Q78_E1.3061.00
76_Q209_T1.2841.00
200_M227_W1.2471.00
77_F82_I1.2471.00
123_Q160_R1.2371.00
5_L219_I1.2201.00
70_G74_A1.2171.00
13_A60_V1.2161.00
87_H223_L1.2121.00
18_S58_S1.2091.00
37_Q40_R1.2021.00
134_T150_G1.1861.00
91_R183_D1.1831.00
89_I149_Y1.1791.00
104_L166_R1.1761.00
35_V40_R1.1751.00
225_D229_Q1.1631.00
94_L173_H1.1501.00
72_L75_Q1.1451.00
118_E122_P1.1401.00
71_R75_Q1.1401.00
8_D11_L1.1331.00
210_H217_L1.1281.00
92_G173_H1.1231.00
50_A73_L1.1081.00
209_T214_G1.1021.00
83_Q216_P1.0911.00
60_V219_I1.0811.00
149_Y176_I1.0711.00
93_W148_R1.0701.00
156_P164_L1.0661.00
99_V157_K1.0591.00
135_V147_T1.0591.00
153_E204_S1.0491.00
10_W210_H1.0421.00
10_W69_A1.0351.00
35_V39_V1.0321.00
87_H132_L1.0271.00
118_E121_G1.0201.00
94_L131_G1.0151.00
84_K156_P1.0151.00
102_Y171_L1.0141.00
110_K113_D1.0141.00
91_R149_Y1.0101.00
17_P20_W1.0081.00
50_A64_G1.0071.00
21_L28_D1.0041.00
107_E113_D1.0041.00
36_M39_V1.0021.00
208_L219_I0.9991.00
18_S198_R0.9931.00
67_S71_R0.9921.00
127_T167_H0.9911.00
107_E110_K0.9861.00
105_V119_D0.9861.00
88_A175_I0.9781.00
64_G70_G0.9721.00
106_E161_K0.9711.00
11_L210_H0.9681.00
105_V121_G0.9591.00
202_H221_A0.9351.00
168_L175_I0.9351.00
68_E212_F0.9181.00
47_V63_M0.9141.00
60_V221_A0.9121.00
96_E131_G0.8941.00
31_E34_V0.8921.00
94_L152_V0.8821.00
129_Y168_L0.8791.00
151_L231_L0.8761.00
56_P179_S0.8741.00
40_R43_I0.8581.00
133_A151_L0.8581.00
225_D228_M0.8571.00
49_T63_M0.8541.00
89_I231_L0.8501.00
200_M230_A0.8501.00
74_A78_E0.8471.00
107_E115_F0.8461.00
97_E128_H0.8421.00
36_M40_R0.8401.00
100_L167_H0.8391.00
223_L227_W0.8311.00
90_V94_L0.8311.00
73_L76_Q0.8301.00
68_E72_L0.8281.00
67_S70_G0.8281.00
85_R204_S0.8251.00
37_Q41_D0.8241.00
32_K61_L0.8241.00
91_R176_I0.8211.00
11_L208_L0.8211.00
11_L69_A0.8191.00
22_V53_L0.8181.00
64_G69_A0.8141.00
77_F156_P0.8141.00
100_L168_L0.8131.00
88_A152_V0.8131.00
33_V61_L0.8061.00
203_A206_L0.8041.00
89_I151_L0.8011.00
81_Q209_T0.7991.00
89_I200_M0.7991.00
90_V150_G0.7961.00
39_V43_I0.7911.00
89_I230_A0.7911.00
94_L134_T0.7851.00
90_V175_I0.7841.00
72_L212_F0.7791.00
135_V148_R0.7711.00
210_H213_T0.7701.00
103_P124_P0.7701.00
11_L73_L0.7681.00
25_S28_D0.7671.00
95_M173_H0.7641.00
183_D186_Q0.7591.00
6_Y11_L0.7571.00
15_N202_H0.7571.00
12_V63_M0.7561.00
103_P167_H0.7561.00
93_W150_G0.7541.00
127_T156_P0.7501.00
62_L206_L0.7501.00
222_G228_M0.7451.00
97_E131_G0.7441.00
77_F84_K0.7441.00
3_E17_P0.7311.00
103_P122_P0.7301.00
93_W147_T0.7221.00
64_G73_L0.7201.00
18_S226_T0.7201.00
38_T42_Q0.7161.00
48_F67_S0.7111.00
84_K157_K0.7111.00
164_L175_I0.7101.00
6_Y219_I0.7091.00
127_T164_L0.7041.00
5_L221_A0.7041.00
104_L114_K0.6961.00
102_Y167_H0.6941.00
51_H61_L0.6941.00
15_N58_S0.6931.00
72_L214_G0.6931.00
98_A154_L0.6911.00
12_V65_L0.6891.00
196_L227_W0.6851.00
22_V49_T0.6771.00
28_D31_E0.6761.00
14_V63_M0.6741.00
57_T199_L0.6721.00
41_D44_G0.6701.00
23_H49_T0.6681.00
112_A180_K0.6641.00
48_F70_G0.6631.00
90_V173_H0.6611.00
115_F119_D0.6551.00
14_V61_L0.6541.00
198_R202_H0.6531.00
208_L217_L0.6521.00
68_E71_R0.6521.00
130_R155_E0.6501.00
21_L25_S0.6501.00
116_A170_H0.6491.00
69_A212_F0.6481.00
89_I227_W0.6481.00
125_A160_R0.6451.00
107_E111_I0.6421.00
198_R227_W0.6391.00
19_G58_S0.6371.00
135_V151_L0.6321.00
179_S183_D0.6321.00
150_G173_H0.6281.00
105_V115_F0.6271.00
51_H77_F0.6261.00
106_E111_I0.6251.00
89_I135_V0.6191.00
200_M226_T0.6181.00
91_R184_L0.6171.00
71_R74_A0.6161.00
114_K123_Q0.6151.00
209_T213_T0.6141.00
98_A171_L0.6131.00
24_R32_K0.6101.00
85_R207_S0.6101.00
36_M63_M0.6101.00
69_A72_L0.6101.00
50_A77_F0.6091.00
110_K114_K0.6071.00
83_Q205_Q0.6011.00
5_L15_N0.6011.00
88_A168_L0.6001.00
24_R34_V0.5991.00
135_V231_L0.5950.99
5_L222_G0.5900.99
91_R182_G0.5890.99
98_A131_G0.5890.99
196_L230_A0.5880.99
134_T148_R0.5850.99
91_R186_Q0.5840.99
62_L208_L0.5830.99
10_W213_T0.5820.99
34_V47_V0.5820.99
109_D113_D0.5820.99
196_L199_L0.5810.99
91_R187_N0.5790.99
187_N195_G0.5780.99
177_G200_M0.5760.99
153_E205_Q0.5730.99
131_G152_V0.5720.99
132_L151_L0.5710.99
14_V33_V0.5690.99
82_I208_L0.5690.99
50_A70_G0.5680.99
80_H157_K0.5660.99
227_W231_L0.5650.99
21_L55_R0.5640.99
51_H206_L0.5610.99
91_R148_R0.5600.99
76_Q82_I0.5600.99
84_K162_H0.5590.99
51_H203_A0.5530.99
12_V39_V0.5520.99
18_S197_Q0.5500.99
19_G56_P0.5500.99
129_Y154_L0.5500.99
109_D112_A0.5480.99
199_L226_T0.5440.99
21_L27_L0.5430.99
115_F118_E0.5430.99
135_V149_Y0.5430.99
166_R170_H0.5410.99
176_I196_L0.5370.99
52_R159_G0.5360.99
100_L129_Y0.5350.99
23_H70_G0.5330.99
183_D187_N0.5280.99
11_L217_L0.5240.99
103_P116_A0.5210.99
202_H224_D0.5200.99
6_Y217_L0.5200.99
61_L203_A0.5180.99
60_V206_L0.5120.98
4_I7_Q0.5120.98
12_V15_N0.5110.98
2_L14_V0.5100.98
21_L49_T0.5100.98
77_F80_H0.5100.98
94_L129_Y0.5090.98
76_Q208_L0.5080.98
196_L226_T0.5070.98
26_W29_R0.5040.98
6_Y210_H0.5030.98
15_N222_G0.5020.98
105_V122_P0.5010.98
3_E222_G0.5000.98
7_Q39_V0.5000.98
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  
1v9fA 1 0.9038 100 0.223 Contact Map
1v9kA 1 0.8654 100 0.233 Contact Map
2i82A 1 0.7846 100 0.272 Contact Map
2olwA 1 0.6692 100 0.448 Contact Map
2omlA 1 0.6808 100 0.452 Contact Map
4lgtA 1 0.7346 100 0.479 Contact Map
1vioA 2 0.6846 100 0.49 Contact Map
3dh3A 1 0.7115 100 0.49 Contact Map
1kskA 1 0.6808 100 0.512 Contact Map
2gmlA 1 0.6731 100 0.52 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.