GREMLIN Database
RS4 - 30S ribosomal protein S4
UniProt: Q9HQJ6 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 170 (162)
Sequences: 600 (352)
Seq/√Len: 27.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
106_V127_V5.0171.00
139_Y145_E3.4461.00
126_H155_S3.1101.00
79_I97_V2.8931.00
56_R90_L2.7091.00
14_P17_P2.5340.99
36_K40_E2.4500.99
32_R95_T2.3760.99
30_L41_L2.2690.98
103_Q122_V2.2650.98
31_S116_G2.1780.98
105_V149_L2.0710.97
52_R56_R2.0410.97
109_E112_A2.0140.96
129_V139_Y2.0050.96
75_Q143_V1.9050.95
99_E108_R1.8870.95
86_L102_L1.8650.94
117_Q120_Q1.8330.94
93_E96_D1.7930.93
80_L89_V1.7760.93
105_V108_R1.7610.92
52_R55_A1.7400.92
103_Q119_R1.7360.92
20_G24_A1.7260.92
85_R120_Q1.7040.91
84_E88_D1.6850.91
3_L9_K1.6810.91
114_T117_Q1.6700.90
85_R88_D1.6380.89
34_G119_R1.5880.88
14_P34_G1.5830.88
23_I27_S1.5810.88
129_V149_L1.5770.87
74_L79_I1.5550.87
33_Y92_L1.5390.86
33_Y80_L1.4320.82
35_L94_V1.4140.81
115_M122_V1.3630.78
84_E134_V1.3180.76
4_P7_N1.3050.75
67_G85_R1.3040.75
26_E118_A1.2940.75
117_Q121_F1.2770.74
94_V146_E1.2560.72
103_Q106_V1.2540.72
33_Y99_E1.2440.72
2_A8_T1.2270.71
7_N10_F1.2190.70
16_H19_Q1.1960.69
138_S143_V1.1940.68
61_Q108_R1.1890.68
34_G40_E1.1880.68
129_V138_S1.1820.68
35_L42_W1.1770.67
17_P59_L1.1390.65
55_A84_E1.1340.64
48_L90_L1.1100.63
89_V92_L1.1090.63
159_D163_P1.1090.63
128_T136_E1.1070.62
3_L95_T1.1040.62
97_V146_E1.0980.62
7_N44_A1.0820.61
32_R93_E1.0820.61
22_R35_L1.0720.60
41_L45_Q1.0680.60
104_T115_M1.0660.59
144_S157_L1.0630.59
87_D90_L1.0550.59
88_D120_Q1.0420.58
109_E163_P1.0410.58
7_N123_S1.0390.57
12_E15_N1.0270.57
19_Q56_R1.0260.57
27_S116_G1.0220.56
82_E149_L1.0180.56
23_I36_K1.0160.56
128_T152_D1.0140.56
151_F158_T1.0040.55
36_K39_E1.0010.55
108_R127_V0.9970.54
5_G18_Y0.9970.54
123_S128_T0.9960.54
35_L40_E0.9960.54
53_R79_I0.9940.54
69_E110_G0.9830.53
105_V147_N0.9780.53
36_K119_R0.9750.53
49_R53_R0.9730.53
34_G120_Q0.9710.52
55_A88_D0.9710.52
9_K149_L0.9570.51
151_F155_S0.9560.51
111_L127_V0.9510.51
55_A68_E0.9470.51
64_T69_E0.9460.50
56_R59_L0.9380.50
143_V147_N0.9360.50
115_M121_F0.9350.50
160_E163_P0.9270.49
35_L104_T0.9230.49
41_L93_E0.9140.48
106_V111_L0.9130.48
58_L66_S0.9060.47
151_F161_L0.9030.47
20_G127_V0.8900.46
13_T134_V0.8870.46
130_D150_A0.8820.46
5_G10_F0.8780.45
47_E140_T0.8770.45
14_P55_A0.8740.45
132_S138_S0.8720.45
96_D147_N0.8670.44
28_D139_Y0.8660.44
40_E119_R0.8630.44
142_P145_E0.8610.44
21_E30_L0.8570.44
134_V149_L0.8560.44
30_L80_L0.8530.43
86_L89_V0.8470.43
8_T11_Y0.8430.43
44_A97_V0.8410.43
93_E129_V0.8350.42
128_T131_G0.8280.42
42_W58_L0.8240.41
87_D120_Q0.8170.41
83_E88_D0.8160.41
109_E147_N0.8100.40
20_G70_F0.8100.40
59_L67_G0.8090.40
7_N19_Q0.8000.39
25_E45_Q0.7990.39
77_I140_T0.7870.39
29_L36_K0.7860.38
41_L132_S0.7840.38
14_P24_A0.7700.37
16_H22_R0.7620.37
53_R57_R0.7590.37
58_L86_L0.7580.36
61_Q78_G0.7550.36
10_F147_N0.7520.36
51_Y70_F0.7510.36
14_P119_R0.7510.36
114_T124_H0.7500.36
17_P26_E0.7410.35
73_R77_I0.7370.35
32_R105_V0.7350.35
116_G120_Q0.7340.35
89_V106_V0.7270.34
51_Y89_V0.7250.34
128_T148_T0.7250.34
98_L107_Y0.7230.34
55_A117_Q0.7210.34
2_A7_N0.7210.34
42_W49_R0.7150.33
121_F145_E0.7150.33
62_T116_G0.7150.33
51_Y80_L0.7140.33
51_Y97_V0.7130.33
17_P42_W0.7130.33
147_N150_A0.7090.33
130_D151_F0.7010.33
41_L98_L0.6990.32
49_R52_R0.6990.32
16_H37_N0.6940.32
27_S87_D0.6930.32
37_N92_L0.6930.32
64_T86_L0.6920.32
130_D147_N0.6920.32
72_A88_D0.6840.31
91_S158_T0.6840.31
24_A28_D0.6810.31
67_G120_Q0.6750.31
19_Q53_R0.6640.30
104_T141_V0.6630.30
27_S31_S0.6620.30
47_E97_V0.6610.30
115_M120_Q0.6610.30
111_L129_V0.6590.30
81_S157_L0.6570.30
34_G38_K0.6500.29
104_T114_T0.6320.28
72_A76_R0.6270.28
81_S113_N0.6270.28
25_E30_L0.6220.27
73_R99_E0.6200.27
76_R148_T0.6190.27
8_T12_E0.6190.27
51_Y140_T0.6180.27
112_A127_V0.6180.27
56_R112_A0.6150.27
102_L149_L0.6120.27
52_R92_L0.6110.27
8_T18_Y0.6060.27
67_G83_E0.6050.26
89_V152_D0.6040.26
48_L94_V0.5970.26
101_R130_D0.5960.26
76_R81_S0.5950.26
30_L91_S0.5950.26
129_V153_E0.5950.26
9_K122_V0.5930.26
31_S70_F0.5870.25
39_E92_L0.5870.25
50_D122_V0.5840.25
60_G84_E0.5830.25
29_L76_R0.5810.25
151_F156_D0.5780.25
35_L106_V0.5770.25
80_L122_V0.5750.25
26_E89_V0.5730.25
20_G121_F0.5710.25
41_L157_L0.5700.24
128_T151_F0.5590.24
121_F157_L0.5580.24
19_Q25_E0.5510.23
4_P11_Y0.5420.23
15_N19_Q0.5420.23
11_Y53_R0.5370.23
52_R101_R0.5360.23
47_E115_M0.5350.23
53_R92_L0.5330.22
70_F74_L0.5300.22
85_R109_E0.5280.22
20_G77_I0.5280.22
9_K154_T0.5220.22
7_N12_E0.5220.22
44_A143_V0.5190.22
113_N127_V0.5180.22
64_T154_T0.5160.22
106_V110_G0.5160.22
136_E150_A0.5140.21
28_D89_V0.5120.21
50_D64_T0.5090.21
124_H159_D0.5090.21
2_A11_Y0.5070.21
77_I144_S0.5070.21
34_G117_Q0.5070.21
22_R119_R0.5050.21
29_L95_T0.5040.21
13_T48_L0.5010.21
133_R152_D0.5000.21
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  
3zey6 1 0.9882 100 0.347 Contact Map
4bpeD 2 0.9941 100 0.378 Contact Map
3j80J 1 0.9941 100 0.382 Contact Map
4ujpK 1 1 100 0.389 Contact Map
3j38J 1 1 100 0.42 Contact Map
3j20D 1 0.9529 100 0.421 Contact Map
3j7aE 1 1 100 0.423 Contact Map
3bbnD 1 0.7706 98.9 0.817 Contact Map
2cqjA 1 0.4176 98.8 0.825 Contact Map
1c05A 1 0.7 98.7 0.83 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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