GREMLIN Database
RNH3 - Ribonuclease HIII
UniProt: P94541 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 313 (265)
Sequences: 633 (517)
Seq/√Len: 31.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
259_S267_P4.2561.00
258_L293_F3.8661.00
107_Y301_T3.6801.00
102_V269_G3.4891.00
132_K136_D3.4171.00
141_Q144_E3.4071.00
116_A243_A3.0691.00
156_S193_K2.8461.00
233_A240_V2.8001.00
230_S236_I2.5841.00
263_G285_K2.5631.00
104_T111_M2.5241.00
119_D122_M2.4590.99
263_G280_K2.3240.99
157_L250_S2.3050.99
150_I246_I2.2790.99
156_S189_H2.2470.99
230_S237_H2.2160.99
113_V182_L2.1890.99
106_D268_K2.1430.98
145_I245_I2.1190.98
208_A212_V2.0880.98
265_T276_E2.0620.98
299_A303_K2.0190.98
281_L293_F2.0060.98
31_G47_Q1.9990.98
281_L289_A1.9780.97
262_A281_L1.9730.97
99_S202_I1.9310.97
171_K207_F1.9280.97
299_A302_Q1.8940.97
212_V215_N1.8920.97
146_A245_I1.8870.96
36_A40_G1.8810.96
58_A62_S1.8470.96
150_I155_Y1.8440.96
55_G58_A1.8280.96
45_A51_V1.8180.96
46_Y50_K1.7940.95
29_P32_A1.7670.95
118_V239_A1.7530.95
107_Y294_T1.7470.95
158_L182_L1.7300.94
216_H233_A1.7080.94
278_A304_A1.7050.94
53_F58_A1.6630.93
261_A292_T1.6620.93
254_E257_K1.6500.93
207_F229_F1.6490.93
114_V247_A1.5940.91
163_E292_T1.5890.91
61_E65_W1.5880.91
114_V157_L1.5670.91
215_N218_K1.5580.90
262_A266_L1.5570.90
125_L152_T1.5380.90
104_T176_G1.5270.89
132_K141_Q1.5170.89
155_Y246_I1.5150.89
262_A293_F1.5040.89
141_Q155_Y1.5000.89
169_Q178_M1.4990.89
201_A228_Y1.4600.87
264_M277_A1.4570.87
174_S216_H1.4420.87
106_D274_V1.4400.86
273_H276_E1.4290.86
104_T179_K1.4150.85
46_Y49_G1.3840.84
143_I249_Y1.3530.83
142_I249_Y1.3360.82
206_Q231_T1.2990.80
267_P277_A1.2950.80
185_Q189_H1.2940.80
160_L168_M1.2880.80
79_K145_I1.2840.79
32_A44_T1.2830.79
51_V62_S1.2820.79
105_G135_K1.2590.78
33_V36_A1.2570.78
143_I253_M1.2550.78
139_D256_D1.2350.77
140_P144_E1.2290.76
164_K167_S1.2240.76
135_K205_D1.2130.75
107_Y296_L1.2080.75
150_I253_M1.2040.75
85_Y92_A1.2010.74
121_T124_P1.1900.74
100_D135_K1.1870.74
104_T175_Q1.1810.73
100_D105_G1.1790.73
88_P91_I1.1790.73
179_K183_H1.1750.73
96_V203_L1.1750.73
258_L266_L1.1730.73
150_I249_Y1.1730.73
160_L185_Q1.1710.73
43_I51_V1.1590.72
262_A289_A1.1530.71
248_R295_K1.1470.71
37_K42_T1.1460.71
149_L238_L1.1450.71
180_A207_F1.1400.71
112_T250_S1.1400.71
117_Y218_K1.1360.70
279_A304_A1.1330.70
249_Y253_M1.1300.70
105_G205_D1.1290.70
177_K180_A1.1130.69
46_Y54_Q1.1060.68
112_T157_L1.0980.68
209_E212_V1.0830.67
106_D251_F1.0830.67
285_K289_A1.0820.66
43_I114_V1.0810.66
100_D205_D1.0740.66
90_D94_M1.0600.65
296_L301_T1.0590.65
40_G57_N1.0590.65
139_D270_A1.0550.64
50_K54_Q1.0450.64
105_G134_S1.0070.61
281_L291_R0.9990.60
233_A289_A0.9960.60
190_L215_N0.9910.60
165_Y297_H0.9850.59
143_I147_R0.9850.59
137_L141_Q0.9810.59
153_I238_L0.9650.57
37_K40_G0.9590.57
48_S52_L0.9580.57
96_V237_H0.9580.57
175_Q212_V0.9520.56
203_L237_H0.9500.56
173_M237_H0.9460.56
209_E215_N0.9440.56
135_K244_S0.9420.56
264_M280_K0.9390.55
100_D134_S0.9360.55
105_G244_S0.9340.55
142_I145_I0.9330.55
273_H277_A0.9320.55
87_P91_I0.9280.54
210_P227_T0.9260.54
203_L240_V0.9240.54
126_M149_L0.9210.54
100_D244_S0.9200.54
255_M268_K0.9120.53
123_L129_L0.9100.53
87_P90_D0.9090.53
212_V216_H0.9050.53
183_H207_F0.9020.52
32_A35_Q0.8980.52
160_L182_L0.8970.52
169_Q173_M0.8950.52
96_V230_S0.8940.52
38_P41_C0.8880.51
164_K168_M0.8840.51
181_L184_N0.8810.51
111_M162_N0.8800.51
31_G190_L0.8780.50
111_M179_K0.8780.50
147_R253_M0.8780.50
55_G61_E0.8770.50
202_I227_T0.8770.50
80_P83_P0.8760.50
215_N289_A0.8700.50
46_Y162_N0.8650.49
143_I252_L0.8590.49
158_L186_A0.8590.49
89_A120_K0.8540.48
130_G304_A0.8500.48
134_S205_D0.8500.48
97_I238_L0.8480.48
281_L284_K0.8480.48
50_K53_F0.8450.48
57_N61_E0.8430.48
158_L164_K0.8430.48
46_Y52_L0.8430.48
183_H234_E0.8390.47
33_V47_Q0.8380.47
205_D244_S0.8350.47
57_N265_T0.8330.47
97_I187_I0.8330.47
125_L145_I0.8320.47
40_G43_I0.8310.47
203_L230_S0.8300.46
271_G277_A0.8270.46
167_S284_K0.8190.46
158_L185_Q0.8170.45
211_G215_N0.8150.45
141_Q148_N0.8130.45
56_K70_P0.8130.45
125_L128_E0.8120.45
99_S129_L0.8120.45
128_E145_I0.8080.45
281_L301_T0.8010.44
79_K82_D0.8000.44
256_D259_S0.7950.44
38_P149_L0.7920.43
156_S190_L0.7910.43
116_A153_I0.7870.43
42_T54_Q0.7850.43
185_Q188_T0.7840.43
102_V173_M0.7840.43
244_S247_A0.7810.43
190_L249_Y0.7790.42
153_I157_L0.7790.42
96_V201_A0.7780.42
40_G60_A0.7770.42
164_K185_Q0.7770.42
162_N268_K0.7730.42
45_A48_S0.7720.42
137_L149_L0.7700.42
78_K82_D0.7650.41
148_N151_K0.7610.41
122_M152_T0.7610.41
159_V250_S0.7580.41
301_T304_A0.7580.41
167_S260_R0.7570.41
88_P203_L0.7540.40
261_A293_F0.7520.40
234_E271_G0.7480.40
95_S200_E0.7440.40
269_G290_L0.7440.40
91_I96_V0.7440.40
30_Q189_H0.7440.40
102_V184_N0.7420.39
248_R252_L0.7420.39
207_F270_A0.7400.39
165_Y295_K0.7390.39
63_A66_G0.7390.39
33_V57_N0.7380.39
302_Q305_Q0.7380.39
289_A293_F0.7330.39
71_Q260_R0.7260.38
63_A67_T0.7240.38
104_T251_F0.7200.38
43_I48_S0.7180.38
121_T265_T0.7170.38
146_A246_I0.7170.38
61_E64_R0.7130.37
115_C186_A0.7080.37
82_D86_A0.7070.37
268_K274_V0.7060.37
112_T215_N0.7050.37
106_D248_R0.7040.37
113_V251_F0.7040.37
121_T266_L0.7020.36
281_L290_L0.6990.36
99_S115_C0.6980.36
258_L262_A0.6970.36
204_I228_Y0.6950.36
138_K147_R0.6940.36
278_A300_N0.6930.36
78_K81_A0.6900.35
256_D260_R0.6890.35
86_A92_A0.6890.35
248_R251_F0.6850.35
252_L295_K0.6830.35
97_I115_C0.6830.35
264_M289_A0.6830.35
102_V271_G0.6810.35
131_V174_S0.6810.35
234_E295_K0.6780.35
206_Q229_F0.6780.35
174_S209_E0.6770.34
134_S244_S0.6720.34
70_P74_K0.6710.34
173_M176_G0.6710.34
85_Y210_P0.6710.34
53_F64_R0.6700.34
148_N152_T0.6690.34
93_G201_A0.6650.34
256_D270_A0.6610.33
53_F61_E0.6600.33
106_D255_M0.6590.33
151_K189_H0.6580.33
111_M267_P0.6580.33
111_M233_A0.6550.33
85_Y88_P0.6530.33
234_E248_R0.6490.32
40_G45_A0.6480.32
106_D180_A0.6480.32
31_G52_L0.6470.32
251_F295_K0.6470.32
37_K44_T0.6450.32
62_S72_E0.6420.32
135_K247_A0.6420.32
233_A237_H0.6390.32
181_L189_H0.6370.32
71_Q74_K0.6370.32
156_S250_S0.6370.32
166_N183_H0.6360.32
44_T52_L0.6360.32
102_V214_F0.6340.31
105_G247_A0.6330.31
213_Y220_R0.6320.31
88_P228_Y0.6310.31
165_Y248_R0.6290.31
108_F183_H0.6290.31
145_I148_N0.6280.31
178_M183_H0.6270.31
146_A253_M0.6240.31
32_A45_A0.6220.31
59_A62_S0.6210.30
278_A294_T0.6200.30
41_C138_K0.6160.30
183_H206_Q0.6160.30
106_D173_M0.6160.30
40_G48_S0.6150.30
118_V126_M0.6140.30
182_L251_F0.6120.30
38_P63_A0.6110.30
169_Q206_Q0.6100.30
56_K60_A0.6070.30
250_S254_E0.6070.30
81_A85_Y0.6050.29
212_V273_H0.6040.29
32_A36_A0.5960.29
55_G59_A0.5940.29
100_D247_A0.5940.29
205_D247_A0.5940.29
148_N161_K0.5930.29
291_R294_T0.5930.29
275_D300_N0.5920.29
96_V138_K0.5900.28
106_D295_K0.5900.28
102_V250_S0.5890.28
202_I225_E0.5860.28
161_K254_E0.5820.28
45_A49_G0.5810.28
32_A150_I0.5800.28
50_K267_P0.5790.28
179_K300_N0.5780.28
111_M169_Q0.5770.28
102_V246_I0.5750.27
213_Y217_L0.5750.27
180_A270_A0.5720.27
204_I300_N0.5700.27
106_D162_N0.5700.27
203_L236_I0.5690.27
164_K181_L0.5690.27
147_R252_L0.5670.27
250_S253_M0.5670.27
69_E185_Q0.5660.27
31_G175_Q0.5660.27
35_Q187_I0.5650.27
30_Q264_M0.5640.27
124_P215_N0.5610.26
299_A304_A0.5610.26
179_K206_Q0.5600.26
171_K215_N0.5600.26
140_P260_R0.5600.26
204_I299_A0.5570.26
275_D279_A0.5560.26
45_A69_E0.5540.26
156_S182_L0.5540.26
261_A284_K0.5520.26
160_L268_K0.5510.26
82_D238_L0.5510.26
116_A157_L0.5500.26
83_P86_A0.5490.26
176_G222_I0.5490.26
233_A276_E0.5490.26
163_E291_R0.5490.26
142_I295_K0.5490.26
113_V246_I0.5480.26
44_T132_K0.5470.26
91_I94_M0.5390.25
55_G290_L0.5380.25
57_N272_P0.5360.25
166_N295_K0.5350.25
265_T280_K0.5350.25
92_A299_A0.5340.25
186_A298_F0.5310.25
227_T239_A0.5300.25
142_I252_L0.5280.24
65_W149_L0.5250.24
110_P242_A0.5250.24
122_M125_L0.5220.24
97_I117_Y0.5210.24
234_E251_F0.5210.24
37_K43_I0.5200.24
166_N248_R0.5200.24
106_D289_A0.5130.24
237_H255_M0.5110.23
142_I248_R0.5100.23
44_T65_W0.5100.23
67_T153_I0.5100.23
47_Q73_K0.5070.23
190_L199_P0.5050.23
49_G54_Q0.5040.23
262_A285_K0.5040.23
241_A298_F0.5020.23
159_V254_E0.5010.23
102_V237_H0.5000.23
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  
2d0bA 1 0.9808 100 0.205 Contact Map
4py5A 1 0.8403 100 0.281 Contact Map
3vn5A 1 0.8115 100 0.329 Contact Map
1ekeA 2 0.6741 100 0.405 Contact Map
1io2A 1 0.6677 100 0.405 Contact Map
1uaxA 1 0.655 100 0.414 Contact Map
1i39A 1 0.6326 100 0.431 Contact Map
3kioA 1 0.7668 100 0.448 Contact Map
2etjA 1 0.6038 100 0.461 Contact Map
3eikA 2 0.2428 54.7 0.959 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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