GREMLIN Database
RNH2 - Ribonuclease HII
UniProt: Q9HNR3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 212 (178)
Sequences: 4948 (3344)
Seq/√Len: 250.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
155_A161_D4.7321.00
160_A179_Y3.2871.00
96_A124_T2.8361.00
35_A131_D2.7101.00
49_D53_R2.6341.00
154_L189_C2.4661.00
58_V142_V2.4481.00
69_D193_S2.3961.00
59_G89_R2.3591.00
19_F62_E2.3481.00
35_A39_R2.3211.00
174_E178_A2.3111.00
46_A149_A2.2221.00
44_R47_E2.1181.00
129_A136_V2.0651.00
53_R58_V2.0241.00
20_A82_A2.0061.00
195_Q199_D1.9151.00
42_A152_D1.7841.00
162_I170_S1.7661.00
62_E150_H1.7651.00
49_D149_A1.7601.00
126_E132_E1.7341.00
49_D145_V1.7291.00
22_A86_A1.6521.00
49_D146_A1.6511.00
128_G131_D1.6131.00
39_R131_D1.5971.00
42_A164_S1.5881.00
67_R81_A1.5751.00
170_S175_F1.5751.00
76_N102_G1.5601.00
71_P81_A1.5421.00
63_V85_D1.5401.00
77_T80_V1.4951.00
26_D29_A1.4571.00
60_V146_A1.4211.00
98_Y136_V1.4131.00
96_A122_A1.4111.00
67_R85_D1.4001.00
81_A85_D1.3941.00
76_N103_D1.3741.00
62_E146_A1.3711.00
42_A46_A1.3661.00
169_D174_E1.3491.00
4_F24_A1.3331.00
155_A160_A1.3311.00
84_A88_G1.3211.00
34_V137_A1.3111.00
104_V123_V1.3101.00
153_A156_A1.2821.00
17_S62_E1.2751.00
46_A145_V1.2741.00
64_P67_R1.2671.00
4_F22_A1.2661.00
19_F146_A1.2551.00
163_G175_F1.2541.00
20_A79_T1.2381.00
68_I75_M1.2351.00
104_V125_A1.2241.00
61_A86_A1.2211.00
17_S150_H1.2191.00
174_E177_A1.2151.00
14_V167_P1.1981.00
150_H154_L1.1941.00
57_R91_V1.1931.00
67_R71_P1.1911.00
63_V82_A1.1701.00
67_R70_D1.1661.00
186_L192_A1.1601.00
34_V141_I1.1601.00
176_L186_L1.1491.00
47_E51_R1.1351.00
97_G121_V1.1301.00
33_G44_R1.1291.00
41_S44_R1.1241.00
87_L97_G1.1181.00
40_L141_I1.1141.00
6_V79_T1.1101.00
157_A189_C1.1011.00
6_V87_L1.0971.00
152_D156_A1.0891.00
15_L151_V1.0791.00
84_A116_R1.0651.00
50_D53_R1.0591.00
40_L44_R1.0581.00
163_G168_S1.0561.00
102_G125_A1.0371.00
150_H153_A1.0371.00
6_V97_G1.0311.00
152_D164_S1.0271.00
98_Y133_Y1.0261.00
15_L189_C1.0251.00
158_F189_C1.0131.00
133_Y137_A1.0121.00
126_E133_Y1.0001.00
9_A145_V0.9951.00
21_A60_V0.9901.00
50_D149_A0.9841.00
40_L48_L0.9791.00
195_Q198_R0.9691.00
34_V138_A0.9671.00
11_K79_T0.9671.00
74_D77_T0.9571.00
90_V94_G0.9491.00
80_V102_G0.9431.00
160_A175_F0.9371.00
61_A82_A0.9361.00
46_A152_D0.9321.00
53_R146_A0.9321.00
53_R142_V0.9311.00
186_L200_A0.9301.00
126_E136_V0.9301.00
128_G132_E0.9251.00
51_R54_A0.9241.00
19_F150_H0.9231.00
22_A90_V0.9201.00
63_V81_A0.9191.00
4_F94_G0.9131.00
50_D54_A0.9121.00
146_A150_H0.9121.00
63_V67_R0.9011.00
4_F87_L0.8961.00
18_M75_M0.8931.00
71_P77_T0.8871.00
146_A149_A0.8871.00
65_V69_D0.8871.00
80_V103_D0.8811.00
52_V55_S0.8741.00
4_F97_G0.8680.99
34_V134_D0.8650.99
74_D79_T0.8430.99
66_D70_D0.8390.99
177_A199_D0.8300.99
145_V149_A0.8230.99
101_A127_H0.8170.99
163_G170_S0.8140.99
61_A85_D0.8060.99
24_A57_R0.8020.99
6_V99_V0.7970.99
76_N80_V0.7960.99
197_S200_A0.7920.99
14_V197_S0.7910.99
164_S168_S0.7900.99
20_A61_A0.7880.99
126_E129_A0.7840.99
162_I168_S0.7830.99
60_V142_V0.7810.99
81_A84_A0.7780.99
9_A49_D0.7750.99
9_A164_S0.7720.99
25_G34_V0.7700.99
17_S64_P0.7670.99
6_V83_Q0.7670.99
170_S174_E0.7600.99
66_D188_E0.7600.99
59_G86_A0.7590.99
134_D137_A0.7580.99
44_R48_L0.7580.99
176_L197_S0.7430.98
65_V189_C0.7420.98
186_L196_T0.7400.98
23_V138_A0.7400.98
56_M92_A0.7220.98
15_L190_A0.7160.98
177_A200_A0.7150.98
80_V105_N0.7090.98
149_A153_A0.7070.98
69_D192_A0.7060.98
4_F90_V0.7050.98
185_E188_E0.7040.98
48_L141_I0.7040.98
79_T83_Q0.6990.98
76_N79_T0.6950.98
47_E50_D0.6930.98
24_A90_V0.6910.97
9_A20_A0.6900.97
14_V196_T0.6880.97
25_G134_D0.6870.97
161_D171_T0.6870.97
84_A104_V0.6850.97
103_D123_V0.6850.97
57_R92_A0.6810.97
33_G48_L0.6780.97
43_D47_E0.6770.97
15_L187_P0.6770.97
61_A89_R0.6770.97
66_D192_A0.6730.97
26_D30_V0.6710.97
176_L196_T0.6710.97
24_A94_G0.6700.97
101_A125_A0.6700.97
130_D137_A0.6640.97
48_L51_R0.6640.97
163_G167_P0.6610.97
17_S65_V0.6600.97
80_V84_A0.6580.97
9_A142_V0.6550.97
105_N123_V0.6480.96
4_F95_M0.6460.96
97_G123_V0.6410.96
48_L52_V0.6390.96
186_L197_S0.6350.96
74_D78_L0.6350.96
49_D142_V0.6320.96
59_G90_V0.6310.96
163_G189_C0.6300.96
98_Y135_L0.6300.96
18_M79_T0.6280.96
117_V121_V0.6260.96
23_V52_V0.6260.96
168_S194_W0.6250.96
187_P190_A0.6200.95
175_F179_Y0.6180.95
158_F188_E0.6170.95
29_A32_D0.6140.95
149_A152_D0.6070.95
102_G127_H0.6040.95
157_A188_E0.6030.95
127_H136_V0.6020.95
25_G138_A0.5990.94
91_V94_G0.5980.94
79_T167_P0.5970.94
49_D60_V0.5950.94
35_A137_A0.5900.94
80_V104_V0.5900.94
20_A59_G0.5800.93
71_P78_L0.5780.93
25_G29_A0.5770.93
158_F187_P0.5740.93
6_V22_A0.5710.93
88_G117_V0.5670.93
4_F57_R0.5650.92
23_V139_A0.5640.92
25_G135_L0.5610.92
161_D164_S0.5570.92
176_L200_A0.5560.92
151_V155_A0.5500.91
86_A90_V0.5440.91
39_R128_G0.5430.91
20_A63_V0.5420.91
46_A49_D0.5400.91
163_G166_Y0.5380.91
75_M78_L0.5380.91
148_D166_Y0.5370.90
142_V146_A0.5360.90
99_V125_A0.5360.90
98_Y126_E0.5350.90
9_A21_A0.5350.90
153_A157_A0.5340.90
103_D125_A0.5330.90
20_A86_A0.5320.90
87_L117_V0.5280.90
80_V125_A0.5280.90
124_T133_Y0.5270.90
14_V194_W0.5260.90
83_Q99_V0.5230.89
175_F178_A0.5200.89
52_V142_V0.5160.89
117_V123_V0.5150.89
27_P30_V0.5080.88
25_G55_S0.5080.88
26_D56_M0.5070.88
185_E190_A0.5060.88
25_G56_M0.5010.87
14_V176_L0.5010.87
53_R92_A0.5000.87
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  
1uaxA 1 0.9623 100 0.129 Contact Map
1io2A 1 0.9717 100 0.138 Contact Map
1ekeA 2 0.9717 100 0.141 Contact Map
1i39A 1 0.9198 100 0.174 Contact Map
3kioA 1 0.9387 100 0.209 Contact Map
2etjA 1 0.8302 100 0.213 Contact Map
4py5A 1 0.8679 100 0.217 Contact Map
2d0bA 1 0.9623 100 0.229 Contact Map
3vn5A 1 0.8349 100 0.28 Contact Map
1c8bA 3 0.3915 37.7 0.947 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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