GREMLIN Database
RSME - Ribosomal RNA small subunit methyltransferase E
UniProt: P0AGL7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12366
Length: 243 (228)
Sequences: 4634 (3582)
Seq/√Len: 237.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
106_L151_R3.4681.00
135_A150_I3.4631.00
53_E67_L3.2091.00
113_E200_S3.0631.00
53_E65_K2.8721.00
81_H108_T2.8531.00
113_E202_D2.7821.00
55_T65_K2.6661.00
52_A64_V2.5251.00
96_I135_A2.4561.00
51_D68_E2.4451.00
79_H188_R2.4221.00
106_L149_E2.4031.00
168_K212_F2.3921.00
99_S107_I2.3921.00
83_G159_W2.3791.00
48_Q69_G2.2561.00
26_N30_R2.2511.00
87_S224_T2.2471.00
83_G190_R2.2401.00
39_A51_D2.1651.00
170_N204_I2.0931.00
39_A53_E2.0321.00
155_D158_A2.0171.00
114_R200_S2.0161.00
205_A209_R1.9801.00
191_L231_A1.9121.00
85_V112_S1.8871.00
17_H63_E1.8631.00
56_S63_E1.8501.00
157_E206_M1.8281.00
109_P152_P1.8031.00
108_T151_R1.7571.00
25_A62_V1.7321.00
156_L207_T1.7211.00
24_A140_E1.6891.00
172_H204_I1.6641.00
81_H106_L1.6421.00
17_H65_K1.6421.00
82_L99_S1.6421.00
84_Q228_A1.6321.00
79_H105_S1.5991.00
112_S115_C1.5971.00
87_S95_T1.5691.00
93_E130_Q1.5651.00
79_H106_L1.5641.00
75_E146_R1.5551.00
128_L132_Q1.5341.00
19_A63_E1.5291.00
80_I232_I1.5041.00
208_A214_D1.4781.00
28_I34_M1.4671.00
19_A61_S1.4531.00
94_F229_L1.4391.00
201_A205_A1.4181.00
34_M38_Q1.4181.00
96_I131_W1.4141.00
94_F98_K1.3941.00
111_F153_A1.3751.00
192_L212_F1.3731.00
166_G188_R1.3721.00
49_V145_N1.3681.00
40_L64_V1.3651.00
41_Q49_V1.3311.00
234_A237_V1.3191.00
92_M109_P1.3141.00
39_A67_L1.3111.00
29_G62_V1.3071.00
110_L159_W1.3001.00
91_K95_T1.2931.00
34_M54_I1.2881.00
104_V107_I1.2881.00
83_G110_L1.2731.00
82_L104_V1.2651.00
205_A208_A1.2591.00
130_Q134_I1.2511.00
54_I62_V1.2341.00
139_C147_V1.2311.00
230_T233_T1.2281.00
25_A29_G1.2171.00
92_M131_W1.2151.00
54_I64_V1.2131.00
17_H55_T1.1951.00
22_E25_A1.1751.00
23_D133_K1.1741.00
192_L207_T1.1731.00
54_I57_A1.1691.00
28_I62_V1.1641.00
52_A66_V1.1631.00
165_E190_R1.1621.00
88_R116_G1.1621.00
84_Q95_T1.1581.00
102_L230_T1.1541.00
51_D67_L1.1511.00
94_F97_Q1.1351.00
75_E144_R1.1341.00
169_L215_I1.1321.00
97_Q101_E1.1311.00
125_N129_Q1.1241.00
166_G190_R1.1061.00
170_N207_T1.1041.00
97_Q134_I1.1011.00
58_S61_S1.0941.00
104_V232_I1.0901.00
37_G53_E1.0901.00
84_Q224_T1.0891.00
6_I28_I1.0821.00
76_S236_Q1.0821.00
156_L160_C1.0791.00
28_I40_L1.0781.00
99_S232_I1.0751.00
160_C206_M1.0731.00
206_M210_Y1.0621.00
44_D47_N1.0451.00
170_N199_L1.0381.00
192_L199_L1.0321.00
202_D205_A1.0241.00
51_D70_Q1.0171.00
101_E226_T1.0141.00
18_I64_V1.0081.00
178_S181_T1.0071.00
133_K137_A0.9991.00
98_K225_E0.9991.00
206_M209_R0.9961.00
13_T16_S0.9931.00
29_G57_A0.9931.00
84_Q193_I0.9921.00
26_N31_V0.9891.00
159_W190_R0.9891.00
167_L213_T0.9601.00
50_F69_G0.9501.00
43_F49_V0.9431.00
82_L95_T0.9231.00
94_F225_E0.9191.00
165_E188_R0.9131.00
157_E202_D0.9111.00
86_M111_F0.9021.00
97_Q137_A0.9011.00
179_I182_L0.8991.00
24_A136_I0.8991.00
25_A57_A0.8971.00
107_I148_P0.8951.00
100_I148_P0.8910.99
91_K97_Q0.8890.99
193_I228_A0.8880.99
98_K101_E0.8850.99
5_R41_Q0.8840.99
166_G187_E0.8840.99
154_M162_E0.8820.99
20_L28_I0.8780.99
91_K225_E0.8760.99
16_S65_K0.8750.99
171_L231_A0.8740.99
43_F145_N0.8690.99
151_R162_E0.8660.99
158_A161_A0.8640.99
173_P221_V0.8640.99
36_P56_S0.8620.99
96_I107_I0.8580.99
74_R145_N0.8570.99
35_G38_Q0.8540.99
41_Q51_D0.8530.99
102_L233_T0.8530.99
128_L150_I0.8480.99
189_V235_L0.8480.99
230_T236_Q0.8440.99
98_K229_L0.8400.99
27_H140_E0.8390.99
230_T234_A0.8340.99
193_I224_T0.8330.99
83_G108_T0.8300.99
42_L64_V0.8270.99
21_C25_A0.8190.99
132_Q149_E0.8110.99
168_K190_R0.8110.99
154_M158_A0.8100.99
6_I32_L0.8060.99
100_I135_A0.7930.99
159_W192_L0.7880.99
42_L52_A0.7870.99
167_L189_V0.7840.99
49_V74_R0.7840.99
154_M159_W0.7780.99
40_L52_A0.7740.99
81_H190_R0.7680.98
157_E161_A0.7670.98
55_T63_E0.7620.98
44_D48_Q0.7570.98
169_L182_L0.7560.98
132_Q136_I0.7550.98
102_L226_T0.7540.98
20_L25_A0.7500.98
87_S92_M0.7420.98
5_R43_F0.7400.98
57_A62_V0.7390.98
199_L204_I0.7350.98
108_T154_M0.7350.98
89_G117_V0.7340.98
49_V70_Q0.7310.98
180_N238_R0.7300.98
93_E134_I0.7280.98
109_P154_M0.7250.98
21_C24_A0.7190.98
84_Q107_I0.7170.98
112_S199_L0.7150.98
139_C148_P0.7130.98
110_L192_L0.7060.97
159_W207_T0.7060.97
136_I140_E0.7060.97
28_I54_I0.7050.97
92_M96_I0.6980.97
141_Q223_R0.6950.97
109_P153_A0.6900.97
99_S104_V0.6810.97
126_K131_W0.6810.97
29_G54_I0.6790.97
85_V199_L0.6770.97
172_H201_A0.6760.97
75_E220_R0.6750.97
96_I150_I0.6710.96
73_D146_R0.6680.96
49_V72_D0.6650.96
6_I27_H0.6630.96
84_Q92_M0.6610.96
91_K94_F0.6600.96
144_R220_R0.6570.96
82_L232_I0.6550.96
81_H151_R0.6510.96
48_Q72_D0.6500.96
125_N128_L0.6480.96
160_C207_T0.6470.96
167_L187_E0.6450.96
5_R49_V0.6420.95
10_E46_S0.6410.95
36_P57_A0.6390.95
161_A210_Y0.6360.95
127_K134_I0.6360.95
73_D145_N0.6330.95
52_A67_L0.6310.95
190_R212_F0.6290.95
50_F66_V0.6280.95
114_R197_G0.6280.95
125_N152_P0.6270.95
134_I137_A0.6240.95
81_H165_E0.6230.95
8_H42_L0.6220.95
173_P198_G0.6220.95
87_S91_K0.6210.95
158_A162_E0.6200.95
83_G192_L0.6200.95
41_Q143_G0.6200.95
160_C210_Y0.6180.94
87_S117_V0.6120.94
111_F124_L0.6090.94
41_Q70_Q0.6060.94
18_I42_L0.6030.94
6_I140_E0.6030.94
85_V115_C0.6020.94
199_L207_T0.5940.93
124_L128_L0.5930.93
37_G55_T0.5920.93
167_L186_V0.5900.93
174_R201_A0.5900.93
138_A142_C0.5890.93
20_L64_V0.5880.93
98_K226_T0.5880.93
132_Q150_I0.5870.93
99_S229_L0.5860.93
199_L203_E0.5840.93
102_L229_L0.5830.93
58_S63_E0.5820.92
56_S61_S0.5820.92
128_L152_P0.5810.92
132_Q147_V0.5780.92
178_S182_L0.5780.92
76_S105_S0.5770.92
232_I236_Q0.5760.92
109_P131_W0.5710.92
108_T159_W0.5700.92
6_I24_A0.5700.92
81_H105_S0.5690.92
207_T212_F0.5690.92
222_L227_T0.5670.92
101_E138_A0.5640.91
88_R115_C0.5620.91
115_C195_P0.5610.91
86_M109_P0.5590.91
224_T228_A0.5570.91
139_C144_R0.5560.91
6_I42_L0.5560.91
111_F155_D0.5540.91
172_H175_A0.5540.91
95_T99_S0.5530.90
175_A216_L0.5520.90
100_I138_A0.5520.90
7_Y136_I0.5490.90
24_A42_L0.5490.90
80_I189_V0.5460.90
82_L193_I0.5460.90
20_L62_V0.5450.90
91_K98_K0.5430.90
171_L230_T0.5410.90
97_Q226_T0.5400.89
193_I231_A0.5400.89
135_A139_C0.5380.89
130_Q137_A0.5360.89
10_E44_D0.5360.89
83_G165_E0.5350.89
142_C145_N0.5330.89
163_Q166_G0.5330.89
170_N214_D0.5320.89
73_D219_P0.5310.89
131_W153_A0.5310.89
27_H31_V0.5280.88
172_H216_L0.5270.88
129_Q133_K0.5270.88
72_D145_N0.5260.88
128_L135_A0.5250.88
174_R204_I0.5250.88
89_G131_W0.5230.88
26_N29_G0.5230.88
85_V224_T0.5230.88
17_H66_V0.5210.88
32_L221_V0.5200.88
111_F115_C0.5190.88
13_T18_I0.5190.88
86_M153_A0.5180.87
82_L228_A0.5160.87
126_K129_Q0.5150.87
225_E229_L0.5150.87
129_Q132_Q0.5150.87
164_D188_R0.5140.87
136_I147_V0.5140.87
234_A238_R0.5130.87
217_L222_L0.5120.87
157_E209_R0.5090.87
24_A27_H0.5060.86
170_N208_A0.5060.86
118_K127_K0.5030.86
171_L235_L0.5000.86
133_K136_I0.5000.86
80_I235_L0.5000.86
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  
1vhyA 2 0.9835 100 0.036 Contact Map
4e8bA 2 0.9918 100 0.052 Contact Map
1vhkA 3 0.9835 100 0.053 Contact Map
4l69A 2 0.9794 100 0.064 Contact Map
3kw2A 2 0.9547 100 0.095 Contact Map
1v6zA 2 0.9342 100 0.104 Contact Map
4j3cA 2 0.9547 100 0.106 Contact Map
2egvA 2 0.9342 100 0.118 Contact Map
1z85A 2 0.8848 100 0.157 Contact Map
2qmmA 2 0.786 99.9 0.678 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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