GREMLIN Database
RNH2 - Ribonuclease HII
UniProt: Q97W56 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 212 (181)
Sequences: 4954 (3304)
Seq/√Len: 245.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
154_K163_G4.8141.00
159_D182_P3.4771.00
99_I123_N2.6181.00
38_K130_V2.5521.00
153_L187_I2.5011.00
52_F56_A2.4701.00
62_F141_I2.4491.00
161_G172_K2.3181.00
73_D191_S2.2991.00
18_I66_K2.2661.00
38_K42_Q2.2541.00
63_T91_S2.2151.00
128_A135_A2.1651.00
49_E148_N2.0671.00
19_V84_A2.0551.00
47_R50_K2.0521.00
56_A62_F1.9251.00
162_S165_P1.9031.00
193_K197_S1.8911.00
175_K181_N1.8911.00
54_I58_T1.7911.00
52_F148_N1.7701.00
52_F144_V1.7491.00
45_R151_D1.7401.00
78_N105_V1.7121.00
125_V131_L1.6881.00
66_K149_Y1.6731.00
164_Y172_K1.6401.00
21_G88_I1.6171.00
52_F145_I1.6101.00
71_E83_D1.5861.00
45_R166_A1.5521.00
14_I162_S1.5361.00
42_Q130_V1.5341.00
75_Y83_D1.5311.00
101_T135_A1.5211.00
127_K130_V1.4911.00
71_E87_K1.4801.00
67_V87_K1.4661.00
172_K176_S1.4311.00
171_I175_K1.4011.00
83_D87_K1.3921.00
161_G176_S1.3841.00
154_K159_D1.3821.00
64_V145_I1.3791.00
79_D82_Y1.3791.00
13_L174_L1.3611.00
115_I122_S1.3591.00
55_V59_V1.3571.00
25_S28_K1.3191.00
66_K145_I1.3001.00
152_E155_Q1.2901.00
177_F184_P1.2811.00
99_I121_K1.2681.00
45_R49_E1.2561.00
18_I145_I1.2451.00
3_V23_V1.2431.00
72_I77_L1.2311.00
68_F71_E1.2291.00
19_V81_T1.2231.00
37_V136_S1.2171.00
86_S90_L1.2161.00
37_V140_I1.2001.00
49_E144_V1.1981.00
16_P66_K1.1931.00
105_V114_L1.1921.00
3_V21_G1.1711.00
89_I100_V1.1511.00
149_Y153_L1.1391.00
16_P149_Y1.1361.00
100_V120_Y1.1341.00
61_A93_S1.1271.00
5_I81_T1.1261.00
161_G164_Y1.1251.00
174_L178_Y1.1141.00
28_K34_G1.1061.00
65_V88_I1.1001.00
28_K58_T1.1001.00
67_V84_A1.0941.00
86_S117_K1.0901.00
43_L140_I1.0751.00
184_P190_R1.0741.00
105_V124_V1.0661.00
8_A144_V1.0621.00
162_S187_I1.0581.00
156_V187_I1.0531.00
115_I118_L1.0421.00
71_E74_N1.0391.00
157_Y187_I1.0361.00
5_I100_V1.0341.00
44_T47_R1.0301.00
43_L47_R1.0271.00
165_P176_S1.0251.00
161_G165_P1.0231.00
13_L169_R1.0171.00
3_V97_P1.0061.00
50_K54_I1.0041.00
20_A64_V0.9971.00
37_V137_A0.9951.00
75_Y79_D0.9941.00
82_Y105_V0.9841.00
69_P73_D0.9801.00
76_N79_D0.9801.00
125_V132_F0.9781.00
53_D56_A0.9671.00
53_D148_N0.9661.00
54_I57_N0.9601.00
193_K196_R0.9571.00
36_G47_R0.9561.00
175_K178_Y0.9551.00
151_D155_Q0.9531.00
56_A141_I0.9521.00
132_F136_S0.9511.00
14_I187_I0.9441.00
65_V84_A0.9411.00
71_E75_Y0.9401.00
67_V71_E0.9381.00
125_V135_A0.9331.00
5_I89_I0.9301.00
101_T132_F0.9291.00
43_L51_L0.9261.00
149_Y152_E0.9171.00
76_N81_T0.9121.00
21_G92_L0.9091.00
171_I174_L0.9061.00
3_V89_I0.9051.00
10_R81_T0.9041.00
174_L194_I0.8991.00
159_D176_S0.8931.00
151_D166_A0.8841.00
56_A145_I0.8811.00
49_E151_D0.8730.99
18_I149_Y0.8710.99
92_L97_P0.8640.99
67_V83_D0.8640.99
14_I150_I0.8610.99
53_D57_N0.8560.99
86_S118_L0.8420.99
70_Y74_N0.8400.99
3_V100_V0.8400.99
115_I124_V0.8390.99
145_I149_Y0.8380.99
172_K175_K0.8360.99
19_V65_V0.8340.99
127_K131_L0.8300.99
37_V133_V0.8290.99
100_V118_L0.8180.99
60_E95_F0.8160.99
17_M77_L0.8140.99
64_V141_I0.8100.99
13_L195_L0.8000.99
178_Y197_S0.7970.99
125_V128_A0.7970.99
145_I148_N0.7950.99
144_V148_N0.7880.99
63_T88_I0.7850.99
24_I37_V0.7760.99
25_S33_K0.7730.99
78_N114_L0.7690.99
104_K124_V0.7680.99
23_V61_A0.7620.99
104_K126_H0.7590.99
83_D86_S0.7530.98
162_S185_P0.7440.98
5_I102_V0.7430.98
8_A52_F0.7420.98
5_I85_V0.7420.98
78_N82_Y0.7350.98
47_R51_L0.7340.98
100_V122_S0.7320.98
3_V92_L0.7250.98
133_V136_S0.7210.98
178_Y181_N0.7190.98
34_G58_T0.7170.98
13_L194_I0.7140.98
82_Y114_L0.7110.98
51_L140_I0.7100.98
63_T92_L0.7060.98
70_Y190_R0.7060.98
23_V92_L0.7060.98
70_Y186_P0.7030.98
8_A19_V0.7010.98
164_Y170_T0.6960.97
65_V87_K0.6960.97
16_P68_F0.6940.97
36_G51_L0.6940.97
81_T85_V0.6920.97
148_N152_E0.6910.97
69_P187_I0.6880.97
8_A141_I0.6810.97
184_P195_L0.6800.97
38_K136_S0.6780.97
22_V137_A0.6760.97
78_N81_T0.6640.97
19_V63_T0.6630.97
24_I59_V0.6600.96
129_D136_S0.6580.96
52_F141_I0.6530.96
73_D190_R0.6520.96
24_I133_V0.6510.96
46_E50_K0.6490.96
177_F195_L0.6440.96
165_P170_T0.6410.96
61_A95_F0.6400.96
55_V60_E0.6360.96
126_H135_A0.6360.96
184_P194_I0.6330.96
17_M81_T0.6280.95
169_R174_L0.6280.95
33_K133_V0.6220.95
82_Y104_K0.6120.95
82_Y86_S0.6110.95
86_S115_I0.6050.94
50_K53_D0.6050.94
114_L117_K0.6030.94
26_D33_K0.6000.94
157_Y186_P0.5970.94
165_P172_K0.5970.94
90_L118_L0.5960.94
118_L122_S0.5960.94
22_V59_V0.5950.94
82_Y116_N0.5920.94
51_L55_V0.5910.94
148_N151_D0.5910.94
173_W183_N0.5890.94
14_I188_I0.5830.93
8_A166_A0.5830.93
65_V91_S0.5820.93
156_V186_P0.5810.93
28_K33_K0.5770.93
185_P188_I0.5750.93
16_P69_P0.5740.93
105_V126_H0.5710.92
22_V138_A0.5710.92
89_I118_L0.5700.92
14_I185_P0.5700.92
42_Q127_K0.5600.92
150_I162_S0.5590.92
23_V97_P0.5580.92
24_I134_E0.5580.92
82_Y124_V0.5570.92
154_K166_A0.5540.91
49_E52_F0.5520.91
162_S188_I0.5520.91
51_L54_I0.5510.91
24_I28_K0.5470.91
5_I21_G0.5460.91
24_I137_A0.5440.91
88_I92_L0.5440.91
162_S167_D0.5370.90
165_P168_P0.5370.90
52_F64_V0.5360.90
131_L134_E0.5330.90
101_T134_E0.5310.89
177_F194_I0.5300.89
8_A20_A0.5300.89
2_R98_E0.5280.89
157_Y185_P0.5270.89
27_T35_I0.5260.89
159_D163_G0.5250.89
101_T125_V0.5240.89
114_L118_L0.5240.89
159_D185_P0.5240.89
34_G51_L0.5150.88
123_N132_F0.5150.88
22_V55_V0.5100.88
76_N80_L0.5080.87
76_N85_V0.5070.87
56_A148_N0.5050.87
177_F183_N0.5040.87
114_L122_S0.5010.87
23_V60_E0.5000.87
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  
1io2A 1 0.967 100 0.137 Contact Map
1ekeA 2 0.9575 100 0.142 Contact Map
1uaxA 1 0.9575 100 0.144 Contact Map
1i39A 1 0.9057 100 0.168 Contact Map
3kioA 1 0.9717 100 0.176 Contact Map
2etjA 1 0.8396 100 0.18 Contact Map
2d0bA 1 0.9387 100 0.221 Contact Map
4py5A 1 0.8726 100 0.237 Contact Map
3vn5A 1 0.8443 100 0.276 Contact Map
4lhsA 2 0.6698 12 0.958 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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