GREMLIN Database
RNC - Ribonuclease 3
UniProt: P0A7Y0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10857
Length: 226 (216)
Sequences: 4777 (3382)
Seq/√Len: 230.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_N133_E3.9921.00
89_E92_E3.0611.00
15_Y127_S2.9151.00
10_Q20_Q2.8971.00
101_L106_F2.8681.00
37_N115_T2.6201.00
54_N58_H2.6191.00
177_V191_H2.3551.00
86_R109_E2.3451.00
175_L193_Q2.2771.00
190_I211_A2.2181.00
187_E204_T2.1961.00
176_V190_I2.1801.00
49_S53_A2.1611.00
17_F23_L2.0841.00
51_V136_I2.0661.00
46_S49_S2.0411.00
47_I50_Y2.0391.00
123_V135_L2.0171.00
191_H198_S2.0161.00
131_T134_K1.9621.00
55_A59_R1.9371.00
175_L191_H1.9311.00
191_H202_V1.9011.00
86_R107_R1.8691.00
30_R38_E1.8611.00
189_T204_T1.8551.00
157_K212_E1.8481.00
214_A217_E1.8451.00
178_Q189_T1.8331.00
193_Q198_S1.8151.00
155_D158_T1.8021.00
189_T202_V1.7991.00
181_G184_H1.7851.00
94_L115_T1.7841.00
24_Q95_R1.7821.00
78_G113_A1.7491.00
87_E143_R1.7411.00
84_L116_V1.7371.00
156_P217_E1.7171.00
85_A112_L1.7011.00
130_Q133_E1.6191.00
127_S131_T1.6161.00
201_V218_Q1.6001.00
194_V200_P1.5211.00
120_I135_L1.5201.00
217_E221_K1.5101.00
83_E143_R1.5081.00
90_L119_L1.5061.00
53_A72_R1.4991.00
180_R189_T1.4871.00
116_V120_I1.4841.00
32_A95_R1.4601.00
201_V219_A1.4451.00
55_A137_L1.4321.00
33_S36_H1.4191.00
63_V67_D1.4031.00
203_G215_A1.4031.00
160_L192_C1.4011.00
180_R187_E1.4011.00
128_D131_T1.3991.00
17_F126_D1.3881.00
210_K214_A1.3851.00
179_V186_Q1.3681.00
163_Y220_L1.3611.00
135_L139_W1.3531.00
12_K89_E1.3481.00
134_K138_N1.3321.00
41_E45_D1.3201.00
218_Q222_K1.2951.00
185_D206_S1.2931.00
27_L90_L1.2931.00
59_R145_D1.2921.00
183_A186_Q1.2811.00
206_S210_K1.2771.00
205_G214_A1.2661.00
28_T95_R1.2631.00
10_Q17_F1.2531.00
201_V222_K1.2431.00
214_A218_Q1.2411.00
77_R80_T1.2361.00
50_Y129_I1.2301.00
7_N11_R1.2241.00
41_E117_E1.2221.00
51_V129_I1.2171.00
86_R112_L1.2011.00
27_L119_L1.2011.00
27_L115_T1.1971.00
9_L13_L1.1861.00
137_L141_Q1.1851.00
85_A116_V1.1841.00
200_P219_A1.1811.00
10_Q16_T1.1791.00
12_K93_C1.1661.00
45_D117_E1.1631.00
8_R12_K1.1581.00
20_Q24_Q1.1541.00
156_P213_Q1.1471.00
46_S72_R1.1391.00
91_G112_L1.1381.00
133_E137_L1.1191.00
100_E108_R1.1151.00
10_Q15_Y1.1111.00
54_N124_F1.0851.00
30_R37_N1.0711.00
161_Q174_Y1.0681.00
82_A113_A1.0641.00
78_G110_S1.0611.00
7_N16_T1.0601.00
87_E142_T1.0571.00
39_R57_Y1.0471.00
170_P195_S1.0441.00
192_C201_V1.0331.00
48_L120_I1.0261.00
119_L123_V1.0261.00
218_Q221_K1.0181.00
47_I121_G1.0131.00
14_G138_N1.0131.00
198_S202_V0.9971.00
173_T193_Q0.9931.00
15_Y18_N0.9651.00
120_I136_I0.9631.00
86_R91_G0.9621.00
52_I140_Y0.9571.00
80_T143_R0.9551.00
164_L172_P0.9541.00
79_N109_E0.9501.00
63_V71_M0.9491.00
82_A86_R0.9361.00
37_N118_A0.9351.00
17_F127_S0.9341.00
132_V136_I0.9341.00
16_T20_Q0.9311.00
193_Q200_P0.9261.00
100_E105_G0.9261.00
105_G108_R0.9070.99
17_F122_G0.9030.99
9_L93_C0.9020.99
88_F139_W0.9010.99
21_E24_Q0.8860.99
122_G126_D0.8810.99
163_Y167_R0.8810.99
110_S114_D0.8770.99
19_H25_Q0.8720.99
141_Q145_D0.8630.99
51_V132_V0.8610.99
51_V133_E0.8600.99
75_L144_L0.8570.99
32_A35_K0.8540.99
159_R220_L0.8520.99
162_E165_Q0.8440.99
173_T196_G0.8420.99
64_D67_D0.8380.99
11_R16_T0.8330.99
9_L12_K0.8320.99
10_Q23_L0.8310.99
9_L119_L0.8300.99
207_S210_K0.8300.99
84_L140_Y0.8290.99
15_Y126_D0.8280.99
164_L194_V0.8250.99
159_R163_Y0.8200.99
58_H137_L0.8080.99
75_L80_T0.8040.99
161_Q165_Q0.8040.99
23_L119_L0.7940.99
158_T162_E0.7850.99
172_P192_C0.7820.99
131_T135_L0.7750.98
23_L126_D0.7750.98
176_V179_V0.7750.98
50_Y54_N0.7660.98
8_R92_E0.7580.98
115_T118_A0.7560.98
200_P222_K0.7540.98
75_L140_Y0.7510.98
39_R68_M0.7510.98
15_Y123_V0.7430.98
82_A109_E0.7420.98
78_G114_D0.7400.98
46_S50_Y0.7400.98
15_Y23_L0.7380.98
48_L81_L0.7330.98
18_N126_D0.7330.98
155_D213_Q0.7330.98
181_G186_Q0.7290.98
7_N20_Q0.7230.98
56_L68_M0.7230.98
8_R11_R0.7220.97
22_L126_D0.7120.97
197_L200_P0.7120.97
49_S72_R0.7120.97
154_K159_R0.7120.97
94_L111_I0.7100.97
47_I124_F0.7100.97
38_E41_E0.7040.97
69_S72_R0.7020.97
123_V139_W0.7010.97
27_L88_F0.6960.97
45_D76_V0.6860.97
30_R36_H0.6860.97
7_N10_Q0.6840.97
168_H172_P0.6810.96
191_H200_P0.6790.96
139_W142_T0.6760.96
88_F116_V0.6710.96
13_L139_W0.6710.96
163_Y223_L0.6660.96
41_E114_D0.6660.96
82_A112_L0.6640.96
176_V212_E0.6630.96
108_R111_I0.6630.96
23_L27_L0.6580.96
147_I150_G0.6580.96
66_G69_S0.6570.96
59_R141_Q0.6560.96
157_K161_Q0.6550.96
123_V132_V0.6540.96
40_L121_G0.6480.95
129_I133_E0.6480.95
23_L127_S0.6470.95
42_F45_D0.6460.95
132_V135_L0.6440.95
180_R204_T0.6440.95
63_V68_M0.6430.95
15_Y135_L0.6430.95
73_A113_A0.6430.95
35_K98_P0.6420.95
51_V137_L0.6400.95
79_N210_K0.6350.95
76_V117_E0.6340.95
91_G107_R0.6250.94
42_F68_M0.6250.94
78_G109_E0.6250.94
157_K174_Y0.6250.94
205_G210_K0.6240.94
193_Q196_G0.6210.94
208_R212_E0.6200.94
96_L99_G0.6110.94
46_S69_S0.6090.94
72_R81_L0.6090.94
69_S76_V0.6050.93
23_L93_C0.6030.93
203_G214_A0.6030.93
157_K216_A0.6000.93
81_L120_I0.5940.93
9_L90_L0.5890.92
203_G218_Q0.5860.92
41_E76_V0.5850.92
134_K137_L0.5830.92
8_R93_C0.5820.92
90_L116_V0.5820.92
83_E86_R0.5800.92
182_E186_Q0.5790.92
69_S117_E0.5790.92
202_V218_Q0.5790.92
116_V139_W0.5790.92
96_L104_G0.5770.92
38_E114_D0.5760.92
121_G125_L0.5740.91
39_R43_L0.5710.91
19_H22_L0.5700.91
145_D149_P0.5640.91
66_G94_L0.5630.91
10_Q13_L0.5620.91
52_I76_V0.5620.91
60_F148_S0.5610.90
176_V208_R0.5600.90
164_L171_L0.5590.90
198_S219_A0.5590.90
156_P220_L0.5590.90
18_N127_S0.5590.90
130_Q134_K0.5580.90
183_A207_S0.5570.90
188_F212_E0.5570.90
104_G107_R0.5560.90
49_S52_I0.5550.90
22_L125_L0.5510.90
25_Q36_H0.5510.90
56_L75_L0.5500.90
43_L57_Y0.5480.89
91_G105_G0.5480.89
85_A115_T0.5480.89
26_A122_G0.5470.89
98_P101_L0.5470.89
60_F124_F0.5460.89
37_N94_L0.5440.89
45_D69_S0.5420.89
84_L136_I0.5420.89
160_L220_L0.5410.89
11_R58_H0.5400.89
127_S132_V0.5390.89
46_S53_A0.5380.89
35_K97_G0.5360.88
67_D70_R0.5360.88
100_E103_S0.5360.88
69_S97_G0.5350.88
56_L71_M0.5350.88
90_L93_C0.5300.88
144_L147_I0.5300.88
30_R111_I0.5270.88
45_D66_G0.5270.88
66_G117_E0.5270.88
69_S73_A0.5260.87
72_R77_R0.5250.87
17_F20_Q0.5250.87
138_N141_Q0.5220.87
46_S71_M0.5210.87
42_F117_E0.5200.87
13_L119_L0.5190.87
9_L85_A0.5170.87
219_A222_K0.5160.86
80_T140_Y0.5150.86
45_D72_R0.5140.86
158_T209_R0.5120.86
67_D71_M0.5100.86
194_V197_L0.5100.86
195_S200_P0.5090.86
71_M186_Q0.5080.86
63_V194_V0.5080.86
161_Q216_A0.5050.85
181_G185_D0.5050.85
80_T84_L0.5010.85
22_L40_L0.5000.85
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  
1o0wA 2 0.9912 100 0.128 Contact Map
3n3wA 2 0.6416 100 0.14 Contact Map
2a11A 2 0.646 100 0.156 Contact Map
1vw45 1 0.9912 100 0.16 Contact Map
2nugA 2 0.9469 100 0.162 Contact Map
3j7yc 1 0.9646 100 0.17 Contact Map
4ce4h 1 0.9602 100 0.172 Contact Map
3rv0A 2 0.9602 100 0.199 Contact Map
3c4bA 2 0.9469 100 0.205 Contact Map
4oogC 2 0.9513 100 0.224 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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