GREMLIN Database
RLUC - Ribosomal large subunit pseudouridine synthase C
UniProt: P0AA39 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11118
Length: 319 (280)
Sequences: 9099 (6419)
Seq/√Len: 383.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
96_L150_V3.6741.00
175_D233_R3.4511.00
50_N64_D3.4511.00
219_R237_V3.3541.00
221_K233_R2.9031.00
98_E155_K2.8371.00
286_A299_R2.8071.00
189_K220_F2.7791.00
94_V106_N2.7751.00
177_L231_L2.7731.00
190_S219_R2.7621.00
177_L285_A2.7551.00
288_K299_R2.7431.00
101_H293_G2.6971.00
101_H156_K2.6371.00
193_A250_Y2.4991.00
106_N302_A2.4261.00
190_S217_E2.3091.00
192_Q217_E2.2421.00
173_Q235_S2.2281.00
192_Q215_P2.2131.00
234_C248_T2.1651.00
104_V300_I2.1571.00
288_K297_V2.1441.00
89_A121_F2.0691.00
290_T297_V2.0521.00
175_D286_A2.0491.00
156_K159_A2.0401.00
286_A301_E2.0041.00
187_H225_R2.0031.00
279_R307_G1.9881.00
188_V221_K1.9721.00
178_A234_C1.9261.00
217_E237_V1.9021.00
22_I54_I1.9011.00
222_V230_T1.8991.00
175_D235_S1.8991.00
173_Q288_K1.8691.00
223_E233_R1.8571.00
54_I58_Y1.8341.00
14_T17_E1.8201.00
166_Q171_G1.8131.00
184_W230_T1.7901.00
148_S283_H1.7821.00
89_A122_G1.7781.00
218_T234_C1.7551.00
180_V232_V1.6781.00
165_E169_E1.6681.00
49_V58_Y1.6521.00
234_C244_I1.5871.00
285_A301_E1.5781.00
277_L281_F1.5701.00
143_L151_L1.5691.00
306_E310_R1.5421.00
96_L300_I1.5401.00
113_V151_L1.5361.00
25_F29_Q1.5221.00
127_L131_R1.5091.00
104_V150_V1.4891.00
225_R230_T1.4871.00
104_V152_L1.4871.00
20_Q28_T1.4861.00
182_G230_T1.4761.00
191_V251_A1.4701.00
99_D291_H1.4691.00
232_V248_T1.4661.00
281_F308_L1.4401.00
219_R235_S1.4181.00
146_D280_L1.3931.00
162_S166_Q1.3671.00
183_Q225_R1.3671.00
48_R67_R1.3661.00
109_S148_S1.3591.00
127_L132_P1.3401.00
18_A62_A1.3161.00
49_V54_I1.3101.00
174_K236_P1.3051.00
177_L233_R1.3031.00
184_W253_H1.2861.00
177_L304_M1.2821.00
198_N204_E1.2761.00
90_A129_A1.2711.00
180_V248_T1.2641.00
124_I151_L1.2591.00
17_E29_Q1.2521.00
158_S293_G1.2511.00
127_L130_L1.2441.00
112_A119_L1.2421.00
222_V225_R1.2411.00
229_A256_A1.2221.00
291_H298_M1.2181.00
108_P111_T1.2121.00
195_L246_V1.2091.00
177_L223_E1.2081.00
123_V126_G1.2051.00
40_R44_K1.2031.00
39_Y43_R1.2031.00
15_A62_A1.2021.00
129_A132_P1.1811.00
214_K240_R1.1811.00
207_V250_Y1.1771.00
99_D102_I1.1751.00
281_F311_C1.1741.00
184_W232_V1.1721.00
167_L172_M1.1661.00
49_V66_V1.1611.00
160_L164_H1.1611.00
220_F248_T1.1551.00
109_S279_R1.1511.00
179_L229_A1.1481.00
146_D259_D1.1451.00
196_L210_S1.1431.00
179_L231_L1.1391.00
186_S222_V1.1391.00
20_Q24_N1.1301.00
25_F60_L1.1291.00
101_H159_A1.1111.00
182_G253_H1.1111.00
178_A232_V1.1101.00
37_M41_I1.1091.00
51_K67_R1.1091.00
165_E168_R1.1081.00
218_T236_P1.1071.00
236_P244_I1.0941.00
201_Q204_E1.0941.00
43_R56_P1.0831.00
178_A255_I1.0811.00
181_R263_D1.0781.00
27_R35_K1.0551.00
102_I159_A1.0531.00
304_M308_L1.0491.00
162_S165_E1.0491.00
231_L312_L1.0471.00
179_L312_L1.0451.00
116_G119_L1.0401.00
306_E309_K1.0401.00
190_S237_V1.0401.00
109_S307_G1.0401.00
183_Q227_A1.0391.00
123_V151_L1.0321.00
128_R132_P1.0281.00
180_V184_W1.0211.00
173_Q297_V1.0211.00
218_T247_H1.0181.00
150_V300_I1.0171.00
179_L311_C1.0101.00
183_Q228_F1.0091.00
101_H291_H1.0061.00
181_R256_A1.0051.00
102_I289_F1.0011.00
139_L153_V0.9981.00
290_T295_G0.9931.00
248_T255_I0.9871.00
303_P309_K0.9861.00
140_V163_L0.9811.00
110_G148_S0.9801.00
158_S162_S0.9761.00
180_V230_T0.9731.00
127_L153_V0.9621.00
37_M40_R0.9581.00
198_N201_Q0.9531.00
140_V154_A0.9521.00
26_L38_I0.9451.00
105_L124_I0.9441.00
161_R165_E0.9441.00
58_Y64_D0.9381.00
184_W222_V0.9341.00
180_V255_I0.9311.00
48_R69_P0.9301.00
17_E25_F0.9291.00
76_R79_E0.9201.00
196_L212_E0.9111.00
39_Y56_P0.9081.00
195_L205_R0.9021.00
154_A160_L0.8961.00
113_V143_L0.8931.00
289_F300_I0.8911.00
103_L153_V0.8881.00
179_L308_L0.8831.00
181_R229_A0.8801.00
18_A61_E0.8731.00
55_K58_Y0.8711.00
184_W225_R0.8701.00
102_I291_H0.8661.00
42_L56_P0.8661.00
233_R285_A0.8651.00
41_I46_E0.8621.00
191_V248_T0.8621.00
157_R160_L0.8601.00
36_S39_Y0.8601.00
42_L47_V0.8591.00
166_Q290_T0.8531.00
186_S189_K0.8501.00
162_S295_G0.8501.00
20_Q25_F0.8471.00
122_G126_G0.8461.00
206_I210_S0.8461.00
167_L174_K0.8451.00
35_K39_Y0.8431.00
77_E80_A0.8431.00
33_V41_I0.8411.00
26_L47_V0.8381.00
47_V68_I0.8311.00
60_L66_V0.8311.00
244_I255_I0.8301.00
97_Y300_I0.8301.00
150_V302_A0.8301.00
277_L308_L0.8301.00
61_E64_D0.8261.00
180_V253_H0.8221.00
224_E231_L0.8221.00
46_E69_P0.8211.00
203_G260_R0.8191.00
283_H302_A0.8151.00
187_H222_V0.8151.00
22_I42_L0.8121.00
78_E81_V0.8071.00
48_R53_R0.8061.00
154_A159_A0.7981.00
185_Q253_H0.7971.00
277_L311_C0.7971.00
281_F307_G0.7931.00
45_G53_R0.7931.00
175_D285_A0.7881.00
105_L151_L0.7851.00
96_L303_P0.7821.00
102_I298_M0.7781.00
183_Q230_T0.7771.00
279_R308_L0.7711.00
58_Y61_E0.7701.00
33_V38_I0.7601.00
157_R161_R0.7581.00
174_K237_V0.7581.00
291_H294_T0.7571.00
167_L236_P0.7561.00
194_P215_P0.7511.00
187_H221_K0.7501.00
289_F298_M0.7501.00
179_L226_Y0.7501.00
290_T294_T0.7481.00
113_V139_L0.7441.00
93_D105_L0.7441.00
193_A251_A0.7441.00
279_R283_H0.7421.00
17_E20_Q0.7381.00
162_S293_G0.7361.00
198_N206_I0.7321.00
277_L307_G0.7291.00
21_R24_N0.7281.00
17_E28_T0.7201.00
156_K293_G0.7191.00
164_H168_R0.7191.00
141_H167_L0.7181.00
151_L284_A0.7161.00
91_L111_T0.7101.00
77_E82_S0.7081.00
277_L280_L0.6950.99
125_E137_L0.6950.99
128_R131_R0.6920.99
194_P247_H0.6910.99
196_L206_I0.6910.99
97_Y102_I0.6870.99
121_F126_G0.6860.99
161_R164_H0.6840.99
308_L312_L0.6840.99
22_I66_V0.6750.99
96_L302_A0.6680.99
112_A118_G0.6680.99
280_L307_G0.6670.99
79_E82_S0.6660.99
194_P213_G0.6650.99
189_K222_V0.6630.99
79_E134_A0.6620.99
30_L33_V0.6610.99
186_S220_F0.6610.99
191_V220_F0.6590.99
77_E81_V0.6590.99
112_A116_G0.6590.99
33_V37_M0.6560.99
189_K248_T0.6560.99
98_E131_R0.6560.99
103_L155_K0.6550.99
210_S213_G0.6520.99
49_V60_L0.6510.99
218_T244_I0.6490.99
30_L38_I0.6460.99
197_K202_S0.6460.99
41_I68_I0.6450.99
188_V219_R0.6450.99
230_T253_H0.6440.99
191_V247_H0.6430.99
207_V213_G0.6400.99
41_I70_P0.6390.99
137_L153_V0.6380.99
220_F234_C0.6370.99
19_G62_A0.6320.99
221_K235_S0.6310.99
263_D266_F0.6300.99
304_M312_L0.6280.99
124_I153_V0.6240.99
197_K241_T0.6240.99
15_A18_A0.6240.99
179_L256_A0.6240.99
207_V246_V0.6230.99
94_V108_P0.6200.99
226_Y231_L0.6190.99
266_F276_G0.6190.99
138_E160_L0.6180.99
259_D263_D0.6150.99
204_E260_R0.6150.99
226_Y312_L0.6130.99
216_S240_R0.6120.99
284_A287_L0.6110.99
122_G125_E0.6110.99
91_L127_L0.6110.99
131_R155_K0.6100.99
256_A277_L0.6080.99
141_H284_A0.6080.99
24_N28_T0.6060.99
166_Q172_M0.6050.99
175_D288_K0.6010.98
154_A163_L0.6010.98
49_V64_D0.6010.98
173_Q286_A0.6000.98
152_L167_L0.6000.98
101_H158_S0.5990.98
111_T124_I0.5990.98
113_V124_I0.5980.98
22_I58_Y0.5960.98
200_L204_E0.5950.98
51_K65_E0.5950.98
256_A281_F0.5940.98
198_N202_S0.5930.98
256_A266_F0.5880.98
152_L287_L0.5860.98
204_E249_Q0.5850.98
95_I103_L0.5830.98
150_V287_L0.5770.98
285_A303_P0.5760.98
103_L131_R0.5750.98
200_L203_G0.5730.98
170_K173_Q0.5700.98
223_E231_L0.5680.98
109_S278_N0.5680.98
25_F66_V0.5680.98
123_V128_R0.5670.98
194_P212_E0.5660.98
31_K38_I0.5660.98
98_E103_L0.5650.98
141_H151_L0.5640.98
22_I49_V0.5640.98
42_L54_I0.5630.98
181_R228_F0.5620.98
226_Y229_A0.5610.98
129_A133_E0.5610.98
181_R264_R0.5600.98
184_W189_K0.5580.98
140_V160_L0.5580.98
100_D155_K0.5530.97
183_Q187_H0.5520.97
179_L281_F0.5520.97
181_R266_F0.5510.97
94_V97_Y0.5490.97
193_A247_H0.5490.97
106_N148_S0.5480.97
189_K251_A0.5470.97
181_R262_G0.5470.97
48_R52_K0.5470.97
189_K234_C0.5460.97
229_A311_C0.5430.97
166_Q293_G0.5430.97
246_V250_Y0.5430.97
36_S40_R0.5410.97
46_E71_V0.5410.97
115_G123_V0.5400.97
143_L170_K0.5400.97
127_L133_E0.5390.97
41_I47_V0.5390.97
184_W248_T0.5390.97
34_P37_M0.5370.97
93_D111_T0.5360.97
116_G203_G0.5350.97
257_F281_F0.5330.97
225_R228_F0.5310.97
95_I98_E0.5310.97
202_S205_R0.5300.97
140_V167_L0.5280.97
27_R38_I0.5280.97
304_M309_K0.5280.97
171_G290_T0.5270.97
170_K237_V0.5270.97
114_H123_V0.5260.97
138_E157_R0.5260.97
307_G311_C0.5230.96
19_G59_K0.5210.96
199_I206_I0.5200.96
101_H294_T0.5200.96
159_A293_G0.5200.96
76_R80_A0.5190.96
24_N35_K0.5180.96
163_L166_Q0.5170.96
21_R57_E0.5150.96
236_P255_I0.5140.96
266_F275_T0.5140.96
39_Y42_L0.5140.96
50_N54_I0.5140.96
217_E238_T0.5130.96
174_K216_S0.5130.96
186_S225_R0.5120.96
97_Y298_M0.5120.96
40_R43_R0.5110.96
231_L308_L0.5100.96
60_L64_D0.5060.96
184_W220_F0.5060.96
122_G127_L0.5040.96
30_L68_I0.5030.96
134_A137_L0.5030.96
72_R77_E0.5010.95
292_P298_M0.5010.95
143_L150_V0.5000.95
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 0.7241 100 0.191 Contact Map
1v9kA 1 0.7085 100 0.313 Contact Map
2i82A 1 0.674 100 0.363 Contact Map
4lgtA 1 0.7555 100 0.452 Contact Map
3dh3A 1 0.7461 100 0.46 Contact Map
1vioA 2 0.7147 100 0.464 Contact Map
1kskA 1 0.7241 100 0.473 Contact Map
2olwA 1 0.5517 100 0.512 Contact Map
2omlA 1 0.5204 100 0.519 Contact Map
2gmlA 1 0.5361 100 0.58 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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