GREMLIN Database
RLMI - Ribosomal RNA large subunit methyltransferase I
UniProt: P75876 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13725
Length: 396 (375)
Sequences: 2470 (1585)
Seq/√Len: 81.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
219_V296_V4.0301.00
51_A65_V4.0131.00
297_I329_L4.0031.00
53_G63_A3.7121.00
190_M240_M3.4041.00
80_S146_T3.2981.00
223_R245_Q3.1541.00
253_Q257_D3.0851.00
247_V294_F3.0651.00
193_L261_Q3.0161.00
123_F152_S2.9811.00
83_L105_I2.8001.00
245_Q274_E2.7541.00
235_A248_S2.6981.00
247_V276_V2.6831.00
223_R330_N2.6231.00
36_L57_P2.5311.00
223_R292_E2.4501.00
192_L237_S2.4161.00
145_Q175_T2.4071.00
184_P191_K2.4051.00
186_E191_K2.3901.00
229_S248_S2.2881.00
287_Y294_F2.1671.00
293_K330_N2.1581.00
182_L261_Q2.1451.00
100_D121_G2.1371.00
278_D283_L2.1231.00
305_V314_A2.1101.00
119_R122_N2.1061.00
184_P193_L2.1041.00
283_L287_Y2.0921.00
41_D52_R2.0781.00
117_I124_L2.0771.00
295_D330_N2.0261.00
223_R244_S2.0211.00
338_F390_G2.0091.00
49_W52_R1.9961.00
353_I391_F1.9921.00
249_V283_L1.9891.00
224_V298_V1.9851.00
76_I142_S1.9551.00
122_N151_C1.9321.00
187_E212_R1.8891.00
41_D70_P1.8721.00
259_A275_F1.8561.00
52_R67_T1.8471.00
227_C280_V1.8441.00
261_Q264_E1.8331.00
253_Q277_R1.8271.00
44_D48_K1.8061.00
102_Y119_R1.7991.00
72_E81_R1.7881.00
322_N337_T1.7881.00
214_A368_E1.7751.00
232_G259_A1.7701.00
190_M237_S1.7501.00
319_K359_D1.7181.00
184_P265_L1.7161.00
191_K265_L1.7151.00
80_S84_Q1.6961.00
382_Y385_G1.6791.00
240_M268_L1.6771.00
256_L277_R1.6671.00
54_A130_S1.6611.00
188_H213_L1.6501.00
83_L147_L1.6311.00
27_V62_R1.6201.00
239_L268_L1.6121.00
323_M359_D1.6121.00
257_D260_R1.6041.00
315_C352_I1.5961.00
92_W222_K1.5931.00
285_R320_D1.5741.00
143_A147_L1.5721.00
12_E16_L1.5721.00
283_L294_F1.5721.00
278_D286_T1.5691.00
260_R264_E1.5381.00
297_I325_A1.5300.99
195_D198_H1.5260.99
43_V47_G1.5130.99
219_V241_G1.5090.99
192_L236_V1.4990.99
115_I133_A1.4770.99
105_I112_L1.4740.99
18_R68_F1.4630.99
370_F390_G1.4480.99
185_I204_Y1.4400.99
215_T296_V1.4390.99
119_R124_L1.4230.99
216_R240_M1.4140.99
185_I194_V1.4130.99
30_M34_A1.4010.99
162_R167_M1.3910.99
326_I357_A1.3850.99
235_A263_V1.3820.99
221_N244_S1.3750.99
346_S369_Q1.3720.99
299_M325_A1.3650.99
260_R275_F1.3600.99
329_L333_G1.3580.99
287_Y328_L1.3570.99
101_S206_L1.3560.99
216_R241_G1.3490.99
76_I146_T1.3470.99
263_V268_L1.3450.99
336_L390_G1.3420.99
357_A364_V1.3420.99
315_C348_L1.3350.99
224_V246_V1.3280.99
101_S185_I1.3280.99
248_S273_A1.3270.99
115_I147_L1.3150.98
84_Q88_K1.3120.98
123_F196_I1.3090.98
277_R309_S1.2850.98
123_F183_L1.2850.98
315_C344_M1.2820.98
286_T290_R1.2740.98
35_S38_E1.2590.98
274_E292_E1.2550.98
224_V238_A1.2520.98
336_L392_A1.2470.98
210_D373_A1.2380.98
182_L193_L1.2370.98
74_I78_F1.2350.98
366_F393_C1.2320.98
134_E162_R1.2300.98
83_L117_I1.2300.98
76_I80_S1.2170.97
82_R111_G1.2130.97
214_A217_R1.2060.97
87_Q148_Y1.2030.97
285_R324_L1.1990.97
107_G116_T1.1980.97
303_K306_E1.1940.97
192_L204_Y1.1860.97
87_Q102_Y1.1840.97
224_V243_C1.1820.97
226_N248_S1.1690.97
41_D49_W1.1600.96
49_W70_P1.1510.96
89_W377_P1.1500.96
276_V283_L1.1490.96
334_I367_I1.1440.96
56_S131_A1.1400.96
222_K296_V1.1400.96
136_Q139_A1.1400.96
303_K341_S1.1390.96
213_L217_R1.1380.96
311_L344_M1.1350.96
218_Y334_I1.1320.96
66_W74_I1.1300.96
154_Y197_Q1.1300.96
190_M236_V1.1300.96
214_A218_Y1.1270.96
173_P178_L1.1270.96
218_Y368_E1.1240.96
186_E189_G1.1240.96
76_I139_A1.1210.96
247_V292_E1.1200.96
138_A142_S1.1180.96
51_A68_F1.1090.95
350_Q391_F1.1080.95
67_T72_E1.1040.95
12_E45_H1.1020.95
239_L263_V1.0970.95
241_G296_V1.0970.95
326_I335_L1.0920.95
264_E269_D1.0880.95
210_D374_A1.0840.95
323_M327_Q1.0680.94
364_V393_C1.0640.94
282_K285_R1.0630.94
299_M335_L1.0620.94
334_I392_A1.0540.94
24_S62_R1.0540.94
87_Q91_D1.0490.94
163_K169_L1.0490.94
279_D282_K1.0450.94
44_D50_L1.0440.94
42_I65_V1.0320.93
305_V344_M1.0180.93
42_I53_G1.0130.93
247_V274_E1.0120.93
39_T52_R1.0090.93
38_E135_Y1.0080.93
235_A275_F1.0050.92
322_N326_I1.0050.92
208_Q338_F0.9990.92
34_A55_Y0.9940.92
80_S147_L0.9910.92
128_L137_R0.9900.92
201_K340_C0.9900.92
81_R85_Q0.9870.92
124_L148_Y0.9730.91
345_T348_L0.9720.91
322_N335_L0.9690.91
346_S386_L0.9670.91
299_M322_N0.9560.90
88_K91_D0.9540.90
304_F317_G0.9520.90
227_C249_V0.9510.90
205_Y303_K0.9460.90
366_F384_E0.9460.90
329_L335_L0.9460.90
208_Q211_S0.9440.90
182_L195_D0.9350.89
299_M337_T0.9340.89
319_K323_M0.9310.89
208_Q234_F0.9310.89
152_S178_L0.9310.89
14_S26_A0.9310.89
117_I126_L0.9290.89
236_V240_M0.9290.89
288_R324_L0.9250.89
106_A109_S0.9230.89
21_W61_I0.9220.89
80_S143_A0.9110.88
239_L246_V0.9100.88
20_P382_Y0.9060.88
257_D261_Q0.9040.88
322_N325_A0.9020.88
137_R155_D0.9020.88
84_Q147_L0.9010.88
256_L275_F0.9010.88
126_L144_L0.8980.87
105_I117_I0.8910.87
12_E44_D0.8890.87
188_H237_S0.8880.87
120_F202_T0.8880.87
365_Q387_Y0.8810.86
235_A246_V0.8810.86
379_I382_Y0.8810.86
227_C299_M0.8740.86
139_A142_S0.8730.86
142_S146_T0.8730.86
218_Y336_L0.8720.86
258_I261_Q0.8710.86
263_V275_F0.8710.86
87_Q104_L0.8700.86
11_R25_G0.8700.86
189_G213_L0.8680.86
14_S19_H0.8640.85
337_T349_F0.8640.85
350_Q366_F0.8640.85
129_L159_V0.8590.85
67_T74_I0.8580.85
75_D78_F0.8560.85
150_E153_I0.8560.85
115_I140_L0.8540.85
228_F321_I0.8520.84
42_I63_A0.8510.84
123_F151_C0.8480.84
246_V275_F0.8450.84
54_A133_A0.8440.84
305_V311_L0.8380.84
319_K356_A0.8300.83
253_Q260_R0.8270.83
137_R172_G0.8270.83
78_F82_R0.8230.82
340_C376_H0.8190.82
16_L48_K0.8180.82
117_I144_L0.8150.82
154_Y157_S0.8150.82
15_L22_V0.8140.82
211_S336_L0.8130.82
24_S60_Q0.8100.81
151_C177_E0.8070.81
288_R328_L0.8060.81
326_I362_R0.8050.81
215_T218_Y0.8040.81
235_A273_A0.8040.81
77_A80_S0.7990.80
86_A90_R0.7980.80
218_Y387_Y0.7970.80
31_E38_E0.7950.80
320_D324_L0.7930.80
99_L186_E0.7930.80
303_K342_G0.7910.80
34_A38_E0.7880.80
128_L133_A0.7880.80
288_R327_Q0.7880.80
145_Q153_I0.7870.79
248_S275_F0.7870.79
104_L148_Y0.7820.79
189_G216_R0.7810.79
236_V268_L0.7770.79
344_M352_I0.7740.78
355_D358_I0.7740.78
234_F298_V0.7730.78
215_T298_V0.7720.78
232_G248_S0.7710.78
366_F380_A0.7690.78
216_R237_S0.7680.78
263_V273_A0.7650.78
152_S180_P0.7640.77
15_L50_L0.7640.77
287_Y292_E0.7610.77
11_R26_A0.7600.77
229_S232_G0.7580.77
79_F115_I0.7570.77
371_R386_L0.7570.77
246_V273_A0.7500.76
11_R23_F0.7500.76
143_A146_T0.7480.76
28_A31_E0.7480.76
322_N357_A0.7470.76
350_Q369_Q0.7450.76
100_D186_E0.7450.76
226_N235_A0.7450.76
314_A319_K0.7450.76
101_S121_G0.7430.75
317_G320_D0.7420.75
128_L134_E0.7380.75
223_R295_D0.7380.75
16_L44_D0.7380.75
154_Y172_G0.7380.75
248_S259_A0.7370.75
40_I63_A0.7340.75
28_A45_H0.7340.75
65_V68_F0.7330.74
247_V283_L0.7290.74
316_R359_D0.7290.74
66_W136_Q0.7280.74
173_P179_P0.7250.74
322_N339_S0.7240.74
145_Q150_E0.7230.73
325_A329_L0.7230.73
320_D359_D0.7220.73
81_R84_Q0.7200.73
98_G186_E0.7200.73
39_T66_W0.7180.73
19_H23_F0.7170.73
213_L216_R0.7170.73
347_D351_K0.7160.73
31_E34_A0.7160.73
22_V42_I0.7120.72
338_F370_F0.7100.72
76_I143_A0.7100.72
337_T353_I0.7100.72
230_Y305_V0.7090.72
22_V63_A0.7080.72
262_N265_L0.7080.72
346_S391_F0.7070.72
215_T334_I0.7070.72
40_I53_G0.7060.72
157_S170_T0.7060.72
351_K354_A0.7050.72
155_D172_G0.7050.72
209_R233_G0.7040.71
140_L143_A0.7040.71
238_A243_C0.7030.71
152_S179_P0.7020.71
139_A143_A0.7000.71
304_F321_I0.7000.71
227_C325_A0.6990.71
249_V276_V0.6970.71
204_Y237_S0.6960.71
223_R247_V0.6950.71
55_Y63_A0.6940.70
11_R20_P0.6920.70
228_F281_F0.6910.70
222_K295_D0.6860.70
278_D282_K0.6850.69
200_H340_C0.6840.69
89_W365_Q0.6810.69
226_N237_S0.6800.69
224_V296_V0.6790.69
142_S175_T0.6770.69
78_F113_P0.6760.68
37_G132_G0.6750.68
256_L259_A0.6730.68
215_T219_V0.6710.68
227_C321_I0.6680.67
215_T238_A0.6670.67
29_R43_V0.6630.67
352_I356_A0.6620.67
19_H384_E0.6610.67
211_S234_F0.6610.67
232_G275_F0.6600.67
77_A81_R0.6570.66
141_I174_V0.6570.66
212_R231_T0.6570.66
124_L150_E0.6540.66
279_D320_D0.6530.66
316_R319_K0.6490.65
47_G50_L0.6480.65
348_L351_K0.6470.65
123_F180_P0.6470.65
207_D300_D0.6470.65
208_Q388_L0.6460.65
183_L196_I0.6450.65
284_L328_L0.6440.65
193_L265_L0.6410.64
85_Q88_K0.6400.64
187_E262_N0.6380.64
200_H255_A0.6370.64
249_V278_D0.6370.64
39_T74_I0.6350.64
201_K376_H0.6330.63
324_L327_Q0.6330.63
214_A392_A0.6310.63
378_V386_L0.6310.63
112_L133_A0.6280.63
134_E167_M0.6270.63
214_A370_F0.6270.63
366_F378_V0.6260.62
160_A306_E0.6250.62
69_D72_E0.6240.62
239_L273_A0.6210.62
123_F178_L0.6180.61
190_M216_R0.6170.61
160_A169_L0.6170.61
137_R170_T0.6160.61
303_K343_L0.6150.61
244_S274_E0.6150.61
353_I393_C0.6150.61
226_N273_A0.6150.61
229_S235_A0.6140.61
231_T258_I0.6130.61
318_Y341_S0.6110.61
350_Q354_A0.6100.60
205_Y390_G0.6090.60
311_L343_L0.6090.60
25_G60_Q0.6080.60
366_F391_F0.6070.60
200_H306_E0.6070.60
156_R160_A0.6060.60
244_S330_N0.6050.60
11_R14_S0.6030.60
121_G183_L0.6010.59
177_E180_P0.5990.59
326_I364_V0.5970.59
36_L58_A0.5940.58
20_P385_G0.5940.58
259_A263_V0.5930.58
342_G382_Y0.5930.58
284_L321_I0.5920.58
206_L373_A0.5900.58
104_L124_L0.5900.58
23_F26_A0.5890.58
348_L352_I0.5880.58
369_Q391_F0.5880.58
49_W72_E0.5870.58
291_G328_L0.5860.57
213_L237_S0.5850.57
171_Q197_Q0.5850.57
336_L387_Y0.5850.57
79_F83_L0.5810.57
53_G67_T0.5810.57
155_D170_T0.5800.57
285_R323_M0.5780.56
124_L152_S0.5750.56
130_S165_E0.5740.56
327_Q360_A0.5710.56
281_F304_F0.5710.56
367_I371_R0.5700.55
79_F136_Q0.5700.55
52_R70_P0.5680.55
341_S384_E0.5680.55
211_S373_A0.5680.55
205_Y306_E0.5660.55
24_S279_D0.5640.55
109_S385_G0.5640.55
67_T78_F0.5640.55
324_L359_D0.5620.54
320_D323_M0.5600.54
281_F311_L0.5600.54
259_A273_A0.5580.54
184_P194_V0.5570.54
319_K355_D0.5560.54
136_Q140_L0.5540.53
126_L141_I0.5530.53
200_H376_H0.5510.53
86_A112_L0.5510.53
204_Y212_R0.5500.53
87_Q147_L0.5490.53
83_L138_A0.5490.53
251_T279_D0.5470.52
104_L119_R0.5460.52
260_R269_D0.5460.52
98_G189_G0.5450.52
161_V164_K0.5450.52
54_A132_G0.5440.52
311_L345_T0.5430.52
140_L144_L0.5420.52
34_A57_P0.5420.52
242_G250_D0.5420.52
256_L260_R0.5410.52
141_I145_Q0.5410.52
357_A388_L0.5410.52
250_D256_L0.5380.51
222_K244_S0.5380.51
187_E266_N0.5370.51
306_E317_G0.5370.51
36_L131_A0.5370.51
374_A377_P0.5370.51
205_Y338_F0.5360.51
200_H303_K0.5350.51
157_S172_G0.5350.51
115_I126_L0.5340.51
193_L262_N0.5340.51
113_P377_P0.5320.50
253_Q309_S0.5320.50
198_H308_K0.5320.50
322_N356_A0.5310.50
284_L354_A0.5310.50
94_A102_Y0.5310.50
326_I356_A0.5300.50
12_E24_S0.5300.50
22_V27_V0.5290.50
20_P66_W0.5290.50
220_E330_N0.5290.50
23_F61_I0.5280.50
369_Q386_L0.5280.50
226_N263_V0.5270.50
211_S387_Y0.5270.50
79_F143_A0.5270.50
187_E226_N0.5270.50
214_A387_Y0.5260.50
27_V321_I0.5260.50
344_M348_L0.5250.49
123_F179_P0.5240.49
201_K255_A0.5240.49
77_A186_E0.5230.49
157_S169_L0.5230.49
83_L143_A0.5230.49
244_S247_V0.5230.49
27_V31_E0.5210.49
87_Q94_A0.5210.49
188_H210_D0.5200.49
178_L197_Q0.5190.49
129_L185_I0.5190.49
79_F139_A0.5180.49
219_V222_K0.5170.48
158_D162_R0.5160.48
83_L140_L0.5160.48
339_S384_E0.5160.48
355_D359_D0.5150.48
156_R356_A0.5140.48
167_M170_T0.5140.48
35_S135_Y0.5130.48
117_I133_A0.5120.48
21_W252_S0.5110.48
384_E388_L0.5110.48
127_Q325_A0.5110.48
27_V30_M0.5090.47
226_N231_T0.5090.47
107_G130_S0.5090.47
106_A306_E0.5080.47
84_Q142_S0.5080.47
31_E35_S0.5080.47
49_W65_V0.5060.47
49_W67_T0.5060.47
159_V169_L0.5030.47
346_S350_Q0.5030.47
210_D213_L0.5010.46
61_I64_R0.5010.46
205_Y251_T0.5000.46
237_S241_G0.5000.46
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  
3c0kA 2 0.9975 100 0.331 Contact Map
2b78A 1 0.9444 100 0.333 Contact Map
3vseA 1 0.9798 100 0.355 Contact Map
1wxxA 2 0.9646 100 0.366 Contact Map
2as0A 2 0.9848 100 0.418 Contact Map
4dmgA 2 0.9545 100 0.44 Contact Map
3v97A 1 0.8813 100 0.558 Contact Map
2igtA 4 0.7601 100 0.688 Contact Map
3k6rA 1 0.6439 100 0.689 Contact Map
3a27A 1 0.5404 100 0.708 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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