GREMLIN Database
IOJAP - Ribosomal silencing factor RsfS
UniProt: P0AAT6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11255
Length: 105 (100)
Sequences: 3102 (2017)
Seq/√Len: 201.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_I51_I3.0031.00
14_I19_G2.6691.00
99_E102_K2.5051.00
58_E61_A2.2891.00
19_G40_C2.1541.00
22_I40_C2.1021.00
42_G48_V2.0641.00
9_F62_A2.0251.00
76_D94_S2.0011.00
54_H58_E1.7391.00
59_S82_L1.6971.00
14_I55_V1.6401.00
66_P82_L1.5601.00
70_E79_V1.5161.00
56_V69_V1.5061.00
76_D91_Q1.5011.00
7_Q11_I1.4841.00
9_F13_K1.4651.00
27_V34_T1.4481.00
69_V80_V1.4431.00
14_I40_C1.4381.00
15_D22_I1.3581.00
72_E78_I1.3241.00
10_V82_L1.3111.00
55_V87_V1.3001.00
59_S64_L1.3001.00
91_Q94_S1.3001.00
57_Q61_A1.2731.00
11_I15_D1.2641.00
21_D41_T1.2551.00
10_V87_V1.2541.00
52_A78_I1.2201.00
48_V89_V1.2171.00
6_L59_S1.2111.00
96_R99_E1.1931.00
72_E75_A1.1921.00
53_D72_E1.1871.00
27_V31_S1.1861.00
67_L83_G1.1781.00
24_A38_I1.1771.00
10_V85_V1.1681.00
7_Q36_C1.1631.00
43_T47_H1.1591.00
60_R65_L1.1541.00
51_I89_V1.1481.00
44_S47_H1.1411.00
75_A78_I1.1331.00
49_M75_A1.1291.00
52_A89_V1.1241.00
6_L64_L1.1181.00
20_Q43_T1.1111.00
7_Q38_I1.1091.00
40_C89_V1.0841.00
13_K54_H1.0831.00
48_V91_Q1.0761.00
7_Q24_A1.0761.00
17_L54_H1.0601.00
79_V86_I1.0601.00
11_I24_A1.0591.00
5_A8_D1.0471.00
10_V38_I1.0371.00
58_E62_A1.0061.00
47_H50_S1.0051.00
101_E104_W1.0031.00
49_M72_E1.0021.00
24_A36_C0.9991.00
38_I85_V0.9841.00
54_H57_Q0.9821.00
13_K55_V0.9801.00
23_I101_E0.9610.99
39_I100_L0.9560.99
41_T92_E0.9290.99
20_Q41_T0.9240.99
56_V80_V0.9240.99
19_G51_I0.9230.99
8_D11_I0.9220.99
11_I22_I0.9200.99
16_D54_H0.9120.99
42_G51_I0.9100.99
8_D12_D0.9000.99
10_V59_S0.8810.99
28_Q36_C0.8780.99
92_E96_R0.8730.99
17_L51_I0.8680.99
13_K58_E0.8610.99
48_V78_I0.8480.99
6_L85_V0.8380.99
34_T86_I0.8280.98
43_T92_E0.8130.98
38_I87_V0.8060.98
37_M88_H0.7990.98
7_Q85_V0.7910.98
12_D58_E0.7900.98
22_I38_I0.7680.97
45_S49_M0.7670.97
45_S91_Q0.7620.97
26_D29_G0.7390.97
37_M86_I0.7330.97
20_Q92_E0.7320.97
66_P69_V0.7270.96
57_Q60_R0.7190.96
12_D16_D0.7100.96
56_V72_E0.7000.96
17_L37_M0.6880.95
48_V75_A0.6860.95
79_V97_L0.6790.95
56_V82_L0.6670.94
33_I88_H0.6650.94
9_F12_D0.6590.94
17_L90_M0.6590.94
9_F58_E0.6590.94
25_L37_M0.6540.94
39_I101_E0.6400.93
11_I14_I0.6390.93
52_A72_E0.6340.93
82_L87_V0.6320.92
76_D93_E0.6250.92
45_S76_D0.6230.92
25_L39_I0.6230.92
46_R49_M0.6200.92
17_L47_H0.6200.92
59_S85_V0.6050.91
41_T48_V0.6050.91
13_K17_L0.6040.91
47_H51_I0.5990.90
5_A9_F0.5840.89
40_C51_I0.5840.89
30_K49_M0.5780.89
33_I86_I0.5740.88
16_D58_E0.5730.88
64_L84_D0.5630.87
27_V32_S0.5540.87
25_L30_K0.5490.86
21_D96_R0.5470.86
41_T46_R0.5390.85
42_G47_H0.5370.85
32_S104_W0.5350.85
34_T85_V0.5310.84
17_L50_S0.5260.84
42_G89_V0.5240.83
60_R67_L0.5230.83
35_D84_D0.5070.81
34_T37_M0.5060.81
43_T90_M0.5050.81
69_V78_I0.5040.81
43_T46_R0.5040.81
27_V36_C0.5020.81
13_K47_H0.5010.81
18_K43_T0.5000.81
42_G92_E0.5000.81
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  
2id1A 1 1 100 0.041 Contact Map
2o5aA 2 0.9619 100 0.042 Contact Map
3upsA 2 1 100 0.055 Contact Map
4wcwA 2 1 100 0.059 Contact Map
2wp4A 2 0.6857 27.4 0.919 Contact Map
3w34A 2 0.6095 25.8 0.92 Contact Map
4ap8A 2 0.6952 19.4 0.925 Contact Map
2qipA 2 0.8286 19.3 0.925 Contact Map
3mmjA 2 0.9619 18.6 0.925 Contact Map
4egeA 2 0.7429 18 0.926 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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