GREMLIN Database
RS3A - 30S ribosomal protein S3Ae
UniProt: Q9UXD4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 208 (193)
Sequences: 462 (290)
Seq/√Len: 20.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
88_R92_R6.8781.00
69_I77_L3.8601.00
14_M37_Y3.2961.00
118_V144_V3.1731.00
84_H187_T2.9950.99
37_Y41_Q2.8580.99
116_V156_F2.4990.98
167_N170_F2.4710.97
47_V69_I2.4710.97
160_V187_T2.4530.97
156_F160_V2.4520.97
19_S30_S2.4470.97
119_K188_K2.4340.97
9_K12_W2.3760.97
118_V156_F2.3600.97
92_R95_I2.3120.96
124_T128_C2.2980.96
57_D60_Q2.1690.95
19_S33_S2.0820.93
140_I169_I2.0440.93
45_R137_R2.0070.92
45_R112_D1.9920.92
168_E172_A1.9860.91
148_A156_F1.8630.89
128_C132_Q1.7490.85
68_K82_V1.7470.85
45_R117_R1.7240.84
114_Y193_P1.6880.83
57_D182_A1.6850.83
6_G35_P1.6760.83
9_K96_R1.6410.81
156_F163_G1.6200.80
117_R137_R1.5590.78
68_K192_V1.5520.77
120_G184_I1.5290.76
65_L156_F1.5140.75
111_K152_S1.5060.75
94_L99_S1.5050.75
91_L121_L1.4970.75
19_S42_T1.4750.74
5_G8_I1.4660.73
130_Q134_T1.4220.71
52_Y133_K1.4170.70
152_S155_D1.4090.70
92_R150_E1.3870.69
138_K141_N1.3780.68
15_K23_P1.3620.67
109_T115_V1.3440.66
138_K142_E1.3420.66
121_L133_K1.3260.65
165_L184_I1.3030.64
39_I77_L1.2950.63
68_K133_K1.2930.63
128_C133_K1.2890.63
112_D137_R1.2780.62
86_L183_E1.2690.62
120_G140_I1.2590.61
147_K159_E1.2540.61
40_T43_I1.2470.60
41_Q77_L1.2380.60
10_D20_V1.2180.58
132_Q169_I1.1990.57
68_K100_S1.1930.57
61_V96_R1.1810.56
68_K92_R1.1800.56
189_V192_V1.1730.55
140_I144_V1.1720.55
65_L160_V1.1640.55
22_T44_G1.1630.55
142_E147_K1.1520.54
104_S141_N1.1510.54
39_I126_Y1.1240.52
34_T114_Y1.1220.52
20_V31_L1.1150.52
119_K185_E1.1090.51
72_N77_L1.1040.51
170_F181_K1.0990.51
31_L173_A1.0860.50
120_G144_V1.0860.50
100_S133_K1.0740.49
34_T42_T1.0660.48
112_D117_R1.0640.48
136_I140_I1.0620.48
55_T59_S1.0500.47
47_V177_Y1.0370.46
84_H160_V1.0260.46
110_T114_Y1.0200.45
85_E106_F1.0150.45
45_R69_I1.0100.45
140_I182_A1.0090.45
50_T62_Y1.0060.44
132_Q136_I1.0050.44
163_G181_K1.0030.44
192_V195_N0.9960.44
139_I142_E0.9940.44
38_D46_R0.9830.43
35_P175_K0.9730.42
107_D113_G0.9700.42
48_E64_H0.9650.42
26_F51_L0.9580.41
103_N185_E0.9550.41
96_R152_S0.9490.41
18_Y128_C0.9440.40
86_L151_L0.9340.40
69_I118_V0.9290.39
51_L123_L0.9260.39
18_Y39_I0.9210.39
94_L163_G0.9150.39
123_L185_E0.9140.39
53_D117_R0.9080.38
72_N76_R0.9030.38
63_V84_H0.9020.38
116_V131_S0.9020.38
32_G36_A0.8950.37
35_P68_K0.8920.37
59_S163_G0.8830.37
65_L163_G0.8810.36
20_V158_Q0.8800.36
24_K28_E0.8770.36
36_A39_I0.8650.36
118_V148_A0.8620.35
67_F193_P0.8600.35
144_V172_A0.8590.35
54_L71_G0.8560.35
69_I180_R0.8540.35
31_L86_L0.8530.35
47_V54_L0.8500.35
47_V173_A0.8490.35
18_Y178_P0.8460.34
21_I30_S0.8460.34
39_I72_N0.8440.34
7_A46_R0.8400.34
68_K96_R0.8400.34
166_A179_L0.8380.34
5_G144_V0.8370.34
122_V179_L0.8330.34
51_L94_L0.8220.33
48_E93_S0.8210.33
61_V99_S0.8180.33
82_V160_V0.8170.33
88_R93_S0.8170.33
52_Y55_T0.8150.33
91_L176_I0.8150.33
50_T80_R0.8100.32
57_D174_K0.8070.32
168_E171_E0.8050.32
54_L118_V0.8030.32
100_S142_E0.8000.32
115_V161_V0.7960.31
53_D76_R0.7940.31
48_E177_Y0.7940.31
143_T169_I0.7910.31
9_K13_K0.7890.31
29_V36_A0.7810.31
141_N145_S0.7770.30
12_W35_P0.7720.30
158_Q169_I0.7710.30
128_C177_Y0.7660.30
90_Y183_E0.7650.30
41_Q179_L0.7640.30
19_S75_D0.7610.29
40_T70_I0.7570.29
98_K119_K0.7520.29
187_T191_K0.7510.29
104_S179_L0.7500.29
20_V180_R0.7480.29
99_S123_L0.7470.29
26_F32_G0.7430.28
83_G137_R0.7420.28
67_F133_K0.7370.28
13_K111_K0.7330.28
159_E164_R0.7300.28
103_N123_L0.7250.28
60_Q188_K0.7240.27
72_N95_I0.7230.27
167_N173_A0.7230.27
17_W23_P0.7200.27
142_E146_K0.7190.27
86_L121_L0.7190.27
16_K19_S0.7190.27
46_R68_K0.7070.27
60_Q103_N0.7070.27
11_K119_K0.7050.26
32_G169_I0.7050.26
69_I91_L0.7040.26
88_R141_N0.7040.26
64_H160_V0.7000.26
24_K190_L0.6930.26
139_I144_V0.6860.26
105_I118_V0.6840.25
33_S170_F0.6820.25
113_G152_S0.6820.25
81_F89_D0.6780.25
67_F79_T0.6770.25
169_I185_E0.6750.25
26_F34_T0.6690.25
64_H87_S0.6690.25
148_A151_L0.6680.25
50_T77_L0.6680.25
41_Q46_R0.6630.24
76_R155_D0.6630.24
156_F168_E0.6610.24
67_F105_I0.6600.24
20_V79_T0.6560.24
109_T159_E0.6560.24
113_G117_R0.6550.24
115_V190_L0.6550.24
91_L169_I0.6550.24
39_I43_I0.6530.24
42_T66_Y0.6530.24
116_V146_K0.6500.24
108_V148_A0.6490.24
73_E76_R0.6460.24
153_F189_V0.6350.23
122_V144_V0.6310.23
41_Q154_D0.6310.23
113_G133_K0.6300.23
90_Y97_R0.6290.23
17_W137_R0.6270.23
117_R189_V0.6260.23
54_L82_V0.6250.23
171_E186_K0.6230.22
75_D118_V0.6220.22
98_K101_K0.6210.22
8_I155_D0.6190.22
166_A189_V0.6170.22
35_P149_S0.6160.22
118_V187_T0.6120.22
22_T189_V0.6090.22
85_E143_T0.6050.22
170_F188_K0.6010.21
34_T54_L0.5870.21
32_G136_I0.5860.21
147_K151_L0.5840.21
169_I189_V0.5840.21
18_Y74_G0.5820.21
66_Y149_S0.5810.21
115_V142_E0.5810.21
180_R183_E0.5780.20
184_I193_P0.5770.20
35_P61_V0.5760.20
89_D186_K0.5760.20
20_V24_K0.5750.20
27_G105_I0.5730.20
111_K115_V0.5660.20
18_Y45_R0.5650.20
65_L116_V0.5640.20
107_D190_L0.5640.20
53_D73_E0.5620.20
98_K188_K0.5610.20
49_T109_T0.5550.19
143_T184_I0.5520.19
51_L114_Y0.5520.19
123_L180_R0.5470.19
27_G167_N0.5450.19
96_R102_I0.5430.19
47_V194_E0.5420.19
157_T197_G0.5410.19
101_K121_L0.5410.19
9_K197_G0.5400.19
115_V189_V0.5390.19
33_S36_A0.5360.19
29_V149_S0.5350.19
132_Q135_A0.5350.19
120_G188_K0.5340.19
116_V136_I0.5330.19
8_I152_S0.5300.18
52_Y103_N0.5260.18
138_K184_I0.5230.18
40_T138_K0.5230.18
117_R127_K0.5220.18
143_T165_L0.5210.18
129_H134_T0.5200.18
46_R146_K0.5200.18
57_D132_Q0.5170.18
116_V160_V0.5170.18
91_L157_T0.5140.18
24_K75_D0.5120.18
95_I128_C0.5100.18
52_Y128_C0.5100.18
69_I174_K0.5100.18
51_L183_E0.5080.18
58_F184_I0.5080.18
118_V149_S0.5080.18
163_G168_E0.5060.18
62_Y129_H0.5040.17
102_I124_T0.5030.17
95_I150_E0.5020.17
64_H126_Y0.5010.17
13_K97_R0.5000.17
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  
3j7aB 1 0.9327 100 0.017 Contact Map
3j60B 1 0.9375 100 0.019 Contact Map
3j38B 1 0.9663 100 0.02 Contact Map
4ujpC 1 0.9519 100 0.022 Contact Map
3zey0 1 0.9615 100 0.025 Contact Map
4w23B 1 0.9471 100 0.027 Contact Map
4bpe4 1 0.9087 100 0.029 Contact Map
3j20A 1 0.9135 100 0.045 Contact Map
4fvgA 2 0.4663 14.2 0.963 Contact Map
3bk6A 3 0.5673 9.8 0.966 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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