GREMLIN Database
RSMI - Ribosomal RNA small subunit methyltransferase I
UniProt: P37544 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 292 (269)
Sequences: 3908 (2649)
Seq/√Len: 161.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
52_T93_V4.3491.00
28_E36_D3.8271.00
83_W88_K3.5571.00
193_E233_E3.1481.00
85_K115_I3.1051.00
21_P122_L2.6741.00
32_F35_I2.6741.00
36_D40_S2.6701.00
155_K184_A2.6121.00
194_I215_V2.5031.00
194_I212_I2.4261.00
113_T209_R2.4181.00
134_A207_F2.1951.00
185_M212_I2.1881.00
53_K57_H2.1671.00
30_M35_I2.0961.00
35_I59_Y1.9731.00
111_D114_D1.9491.00
42_D89_N1.9121.00
85_K117_G1.8641.00
148_L158_E1.8621.00
198_R206_E1.8591.00
148_L159_L1.8501.00
149_N158_E1.8151.00
127_A172_Y1.8141.00
16_I120_V1.7941.00
16_I118_Y1.7941.00
20_V34_A1.7771.00
191_D213_S1.7621.00
143_F167_E1.7431.00
112_F117_G1.6871.00
20_V91_A1.6851.00
21_P98_L1.6811.00
121_P207_F1.6361.00
43_A90_I1.6271.00
197_T207_F1.6041.00
210_G214_E1.6031.00
255_H276_D1.5971.00
255_H277_R1.5861.00
183_S220_N1.5861.00
45_A80_I1.5771.00
69_H72_N1.5661.00
76_S79_K1.5661.00
77_G111_D1.5631.00
259_Y276_D1.5511.00
41_V91_A1.5421.00
41_V89_N1.5241.00
128_A172_Y1.5121.00
265_T268_E1.5121.00
82_E86_S1.5021.00
195_A207_F1.4991.00
181_T230_L1.4951.00
185_M232_V1.4901.00
111_D115_I1.4891.00
145_Y158_E1.4891.00
43_A83_W1.4881.00
145_Y167_E1.4801.00
98_L133_I1.4741.00
156_K184_A1.4721.00
253_K287_A1.4711.00
264_A272_K1.4441.00
121_P134_A1.4401.00
84_L117_G1.4391.00
19_L109_V1.4351.00
46_A65_L1.4321.00
45_A90_I1.4301.00
270_I274_A1.4141.00
257_E261_S1.4131.00
81_I85_K1.4121.00
141_P145_Y1.4101.00
102_S144_F1.4061.00
279_V284_V1.4051.00
171_F232_V1.3921.00
153_K157_K1.3891.00
210_G215_V1.3741.00
266_S270_I1.3621.00
126_N129_L1.3601.00
173_E177_R1.3581.00
158_E161_A1.3531.00
42_D88_K1.3511.00
143_F165_R1.3481.00
20_V37_T1.3411.00
121_P133_I1.3231.00
66_V76_S1.3191.00
160_E163_K1.3171.00
17_L84_L1.3081.00
68_Y77_G1.3011.00
45_A66_V1.2931.00
156_K160_E1.2931.00
30_M59_Y1.2911.00
35_I39_K1.2831.00
44_I63_T1.2771.00
159_L185_M1.2741.00
152_K184_A1.2691.00
208_I215_V1.2671.00
266_S288_Y1.2621.00
73_K107_E1.2581.00
83_W86_S1.2541.00
67_S76_S1.2461.00
251_T254_E1.2361.00
178_L228_F1.2241.00
211_T214_E1.2151.00
156_K187_E1.2131.00
259_Y272_K1.2111.00
30_M34_A1.2091.00
120_V205_E1.2091.00
272_K276_D1.2011.00
192_R234_G1.1941.00
161_A166_Q1.1871.00
218_W222_D1.1821.00
208_I218_W1.1811.00
186_A213_S1.1811.00
195_A231_V1.1781.00
186_A212_I1.1681.00
196_V219_A1.1681.00
106_A138_V1.1541.00
98_L121_P1.1521.00
217_G221_E1.1501.00
78_H111_D1.1501.00
186_A216_I1.1431.00
185_M189_L1.1431.00
252_A284_V1.1411.00
82_E85_K1.1341.00
217_G220_N1.1261.00
16_I84_L1.1241.00
219_A224_I1.1181.00
18_Y37_T1.1141.00
64_P83_W1.1141.00
68_Y73_K1.1091.00
260_I266_S1.1011.00
110_K193_E1.0951.00
270_I288_Y1.0810.99
271_K281_K1.0760.99
128_A170_I1.0750.99
196_V228_F1.0750.99
190_G212_I1.0710.99
183_S216_I1.0670.99
253_K257_E1.0550.99
27_L58_V1.0510.99
21_P130_T1.0490.99
106_A110_K1.0430.99
36_D39_K1.0400.99
110_K114_D1.0180.99
126_N172_Y1.0140.99
18_Y41_V0.9990.99
43_A66_V0.9970.99
16_I89_N0.9950.99
216_I220_N0.9900.99
195_A209_R0.9870.99
54_K57_H0.9840.99
198_R228_F0.9800.99
44_I56_C0.9800.99
32_F39_K0.9790.99
169_I189_L0.9740.99
193_E211_T0.9740.99
179_K183_S0.9710.99
120_V134_A0.9710.99
267_K271_K0.9620.99
185_M188_I0.9570.99
51_Q54_K0.9570.99
32_F59_Y0.9560.99
162_L165_R0.9500.99
273_A284_V0.9480.99
130_T134_A0.9400.99
256_V288_Y0.9400.99
208_I219_A0.9370.99
143_F169_I0.9370.99
17_L92_L0.9270.98
121_P130_T0.9270.98
178_L219_A0.9270.98
269_A273_A0.9250.98
37_T91_A0.9250.98
73_K77_G0.9210.98
179_K216_I0.9200.98
252_A255_H0.9180.98
168_T231_V0.9090.98
81_I112_F0.9090.98
165_R169_I0.9070.98
79_K83_W0.9050.98
31_T125_A0.9040.98
29_D123_P0.8990.98
66_V80_I0.8890.98
67_S72_N0.8870.98
152_K156_K0.8820.98
37_T122_L0.8790.98
179_K220_N0.8770.98
145_Y162_L0.8760.98
196_V215_V0.8750.98
31_T122_L0.8750.98
80_I90_I0.8710.98
170_I231_V0.8700.98
156_K188_I0.8700.98
51_Q95_D0.8690.98
137_I231_V0.8680.98
68_Y76_S0.8640.97
224_I228_F0.8600.97
270_I289_H0.8560.97
70_E73_K0.8530.97
171_F181_T0.8420.97
181_T185_M0.8420.97
54_K58_V0.8390.97
43_A88_K0.8380.97
233_E236_N0.8350.97
19_L133_I0.8340.97
150_R177_R0.8310.97
214_E217_G0.8280.97
255_H259_Y0.8220.97
256_V273_A0.8220.97
254_E258_H0.8160.96
28_E32_F0.8140.96
72_N78_H0.8130.96
53_K65_L0.8100.96
131_A231_V0.8040.96
257_E288_Y0.8040.96
259_Y263_G0.8020.96
106_A140_Q0.8010.96
178_L230_L0.7940.96
32_F36_D0.7920.96
277_R284_V0.7910.96
259_Y264_A0.7910.96
122_L130_T0.7790.95
42_D63_T0.7770.95
257_E260_I0.7760.95
159_L188_I0.7720.95
182_L216_I0.7720.95
78_H82_E0.7700.95
178_L224_I0.7680.95
100_T106_A0.7670.95
94_S100_T0.7660.95
68_Y108_I0.7640.95
169_I232_V0.7640.95
279_V283_E0.7590.95
266_S289_H0.7590.95
267_K282_R0.7570.95
139_P168_T0.7560.95
182_L219_A0.7550.95
98_L129_L0.7520.94
157_K160_E0.7510.94
100_T109_V0.7500.94
130_T200_L0.7500.94
56_C63_T0.7490.94
251_T255_H0.7450.94
18_Y120_V0.7420.94
258_H262_K0.7410.94
21_P134_A0.7400.94
273_A276_D0.7390.94
77_G81_I0.7380.94
132_L168_T0.7380.94
268_E272_K0.7360.94
77_G107_E0.7360.94
286_D289_H0.7310.94
100_T133_I0.7300.93
53_K62_E0.7260.93
162_L189_L0.7250.93
176_H225_R0.7190.93
184_A187_E0.7130.93
81_I115_I0.7130.93
138_V168_T0.7130.93
43_A64_P0.7110.93
222_D225_R0.7100.93
212_I216_I0.7090.92
253_K284_V0.7050.92
267_K281_K0.7000.92
130_T201_T0.7000.92
52_T65_L0.6990.92
178_L196_V0.6980.92
18_Y89_N0.6980.92
256_V260_I0.6980.92
57_H62_E0.6950.92
17_L112_F0.6950.92
270_I280_P0.6940.92
28_E59_Y0.6920.92
134_A195_A0.6900.91
70_E106_A0.6880.91
181_T184_A0.6870.91
40_S89_N0.6860.91
81_I117_G0.6840.91
258_H261_S0.6840.91
14_M118_Y0.6830.91
139_P170_I0.6810.91
162_L169_I0.6790.91
262_K272_K0.6770.91
39_K60_E0.6750.91
283_E286_D0.6750.91
79_K82_E0.6730.90
21_P125_A0.6730.90
155_K181_T0.6730.90
123_P130_T0.6700.90
218_W224_I0.6690.90
109_V113_T0.6690.90
206_E224_I0.6680.90
46_A52_T0.6640.90
164_K235_S0.6630.90
253_K256_V0.6600.90
131_A197_T0.6580.89
255_H258_H0.6550.89
282_R286_D0.6540.89
280_P283_E0.6520.89
149_N154_E0.6480.89
66_V83_W0.6460.89
196_V218_W0.6460.89
28_E40_S0.6450.88
122_L201_T0.6420.88
84_L90_I0.6420.88
92_L108_I0.6420.88
179_K224_I0.6420.88
134_A197_T0.6380.88
178_L218_W0.6340.88
206_E222_D0.6330.88
197_T231_V0.6320.87
21_P126_N0.6290.87
163_K189_L0.6290.87
145_Y169_I0.6280.87
70_E107_E0.6270.87
160_E188_I0.6270.87
283_E287_A0.6250.87
171_F189_L0.6240.87
270_I284_V0.6170.86
192_R232_V0.6150.86
219_A228_F0.6090.85
200_L207_F0.6070.85
182_L196_V0.6070.85
37_T40_S0.6040.85
129_L133_I0.6020.85
273_A277_R0.6020.85
21_P201_T0.6010.85
212_I232_V0.6000.85
163_K188_I0.5980.84
263_G268_E0.5920.84
266_S282_R0.5910.84
197_T200_L0.5890.84
275_V282_R0.5890.84
137_I168_T0.5860.83
208_I223_Q0.5830.83
255_H273_A0.5820.83
74_E107_E0.5810.83
186_A191_D0.5810.83
213_S217_G0.5780.82
132_L139_P0.5760.82
137_I195_A0.5750.82
53_K63_T0.5750.82
264_A269_A0.5710.82
15_G84_L0.5710.82
162_L171_F0.5700.81
141_P168_T0.5690.81
100_T139_P0.5680.81
251_T277_R0.5670.81
53_K56_C0.5670.81
151_Q154_E0.5650.81
150_R154_E0.5650.81
59_Y63_T0.5620.81
256_V269_A0.5580.80
219_A223_Q0.5560.80
145_Y165_R0.5560.80
20_V44_I0.5550.80
22_T27_L0.5530.80
159_L189_L0.5530.80
260_I270_I0.5500.79
141_P167_E0.5480.79
180_E184_A0.5460.79
267_K275_V0.5430.78
98_L130_T0.5420.78
98_L126_N0.5420.78
18_Y91_A0.5420.78
270_I273_A0.5420.78
129_L172_Y0.5410.78
128_A142_F0.5400.78
110_K113_T0.5390.78
166_Q237_N0.5370.78
265_T270_I0.5370.78
178_L198_R0.5370.78
182_L212_I0.5340.77
113_T136_G0.5330.77
81_I111_D0.5300.77
106_A139_P0.5300.77
252_A287_A0.5290.76
196_V208_I0.5290.76
70_E100_T0.5280.76
172_Y229_C0.5280.76
72_N76_S0.5270.76
122_L134_A0.5260.76
212_I215_V0.5260.76
75_S79_K0.5230.76
107_E111_D0.5210.75
254_E287_A0.5190.75
254_E257_E0.5180.75
185_M230_L0.5180.75
191_D211_T0.5180.75
75_S78_H0.5170.75
257_E284_V0.5160.75
196_V212_I0.5140.74
20_V122_L0.5130.74
262_K275_V0.5130.74
199_E204_Y0.5120.74
49_T67_S0.5110.74
260_I269_A0.5100.74
164_K238_E0.5100.74
256_V270_I0.5080.74
184_A188_I0.5040.73
225_R228_F0.5040.73
165_R234_G0.5020.73
92_L112_F0.5010.73
154_E157_K0.5010.73
192_R233_E0.5000.72
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  
3kwpA 2 0.7774 100 0.351 Contact Map
1wyzA 2 0.7329 100 0.601 Contact Map
1cbfA 2 0.7877 100 0.616 Contact Map
4e16A 2 0.7568 100 0.625 Contact Map
1s4dA 4 0.8664 100 0.632 Contact Map
2yboA 2 0.8151 100 0.633 Contact Map
3ndcA 2 0.7911 100 0.634 Contact Map
1pjqA 2 0.8253 100 0.647 Contact Map
1va0A 2 0.75 100 0.65 Contact Map
1ve2A 2 0.75 100 0.652 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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