GREMLIN Database
RS4 - 30S ribosomal protein S4
UniProt: P21466 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 200 (199)
Sequences: 2920 (1408)
Seq/√Len: 99.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
122_D137_Q4.9791.00
101_L174_G4.3451.00
121_V131_Y3.3621.00
120_L140_G3.3291.00
117_G125_R3.1201.00
182_R191_E3.0881.00
126_V131_Y3.0671.00
57_L194_I2.8611.00
2_A64_N2.6081.00
109_Q150_I2.5311.00
78_L85_N2.5141.00
53_E56_K2.3721.00
119_I141_V2.3511.00
140_G173_E2.3071.00
92_S176_F2.2461.00
101_L165_L2.2181.00
70_T74_K2.2071.00
105_R109_Q2.1491.00
85_N88_I2.1081.00
74_K77_K2.1061.00
166_T175_T2.0731.00
74_K132_L2.0691.00
31_Y38_P2.0161.00
69_R73_D2.0001.00
15_L59_H1.9651.00
117_G127_D1.9521.00
101_L167_F1.9351.00
178_R184_E1.9011.00
168_D171_K1.8461.00
103_L167_F1.8011.00
44_L48_G1.7621.00
87_M185_L1.7401.00
133_V139_I1.6341.00
15_L52_Q1.5931.00
149_S153_E1.5871.00
80_G85_N1.5691.00
143_E146_R1.5311.00
74_K78_L1.5291.00
197_F200_R1.5211.00
166_T177_T1.4661.00
78_L89_L1.4231.00
18_S23_G1.4221.00
70_T73_D1.4121.00
165_L176_F1.3921.00
88_I179_L1.3880.99
168_D173_E1.3740.99
125_R142_R1.3510.99
118_H145_S1.3390.99
8_S108_R1.3170.99
71_L132_L1.3020.99
11_L59_H1.3010.99
22_T25_E1.2970.99
92_S132_L1.2940.99
63_V71_L1.2930.99
107_R164_Y1.2810.99
146_R172_L1.2780.99
18_S21_G1.2710.99
63_V90_L1.2680.99
152_K156_E1.2660.99
104_A110_A1.2630.99
138_T173_E1.2580.99
92_S179_L1.2530.99
141_V172_L1.2420.99
163_E178_R1.2400.99
151_I155_V1.2190.99
138_T175_T1.2060.99
9_W12_S1.1920.98
74_K89_L1.1880.98
26_L30_P1.1660.98
9_W18_S1.1600.98
44_L52_Q1.1580.98
142_R145_S1.1500.98
12_S18_S1.1450.98
58_R197_F1.1440.98
97_V133_V1.1320.98
71_L86_F1.1280.98
115_N128_I1.1260.98
88_I92_S1.1230.98
18_S22_T1.1140.98
18_S106_T1.1120.98
9_W21_G1.1100.98
33_P36_H1.1070.97
104_A109_Q1.0830.97
87_M182_R1.0620.97
21_G25_E1.0600.97
52_Q59_H1.0590.97
11_L15_L1.0560.97
113_L119_I1.0540.97
26_L29_R1.0520.97
141_V151_I1.0370.96
9_W23_G1.0320.96
17_I188_E1.0320.96
87_M191_E1.0190.96
54_K65_E1.0110.96
15_L19_L1.0090.96
57_L87_M1.0060.96
163_E184_E1.0000.95
64_N68_F0.9990.95
161_V167_F0.9940.95
57_L189_I0.9930.95
4_Y7_P0.9930.95
82_H195_V0.9930.95
31_Y37_G0.9920.95
94_L121_V0.9880.95
89_L132_L0.9730.95
121_V126_V0.9680.95
149_S152_K0.9640.94
86_F197_F0.9590.94
155_V169_A0.9580.94
9_W106_T0.9570.94
9_W22_T0.9510.94
97_V176_F0.9450.94
145_S148_L0.9430.94
65_E198_Y0.9430.94
81_K195_V0.9350.93
19_L22_T0.9320.93
97_V139_I0.9320.93
96_N107_R0.9250.93
9_W26_L0.9240.93
152_K172_L0.9220.93
143_E147_N0.9150.93
139_I174_G0.9140.93
27_E30_P0.9140.93
3_R6_G0.9100.93
97_V174_G0.9080.92
12_S19_L0.8980.92
29_R32_A0.8860.91
151_I154_S0.8750.91
84_E194_I0.8740.91
147_N152_K0.8730.91
33_P37_G0.8660.91
165_L174_G0.8490.90
25_E106_T0.8410.89
12_S23_G0.8270.88
78_L88_I0.8190.88
115_N127_D0.8180.88
15_L20_S0.8180.88
12_S25_E0.8180.88
91_D100_K0.8170.88
60_M189_I0.8100.87
111_R129_P0.8090.87
112_Q116_H0.8070.87
9_W25_E0.8030.87
83_G87_M0.7980.87
191_E195_V0.7940.86
119_I151_I0.7920.86
161_V169_A0.7790.85
150_I154_S0.7780.85
104_A113_L0.7730.85
85_N89_L0.7720.85
50_Q200_R0.7710.85
148_L172_L0.7650.84
84_E181_E0.7560.84
135_P176_F0.7550.83
176_F179_L0.7490.83
26_L31_Y0.7470.83
64_N197_F0.7450.83
4_Y11_L0.7430.82
89_L92_S0.7380.82
190_N193_L0.7360.82
66_R70_T0.7340.82
83_G191_E0.7340.82
94_L126_V0.7330.82
58_R63_V0.7320.82
147_N153_E0.7310.81
72_F195_V0.7310.81
98_V104_A0.7280.81
18_S24_K0.7280.81
18_S25_E0.7220.81
58_R65_E0.7210.81
84_E183_S0.7200.80
94_L119_I0.7180.80
5_T8_S0.7160.80
88_I181_E0.7140.80
92_S134_K0.7120.80
113_L151_I0.7080.79
92_S133_V0.7050.79
20_S106_T0.7030.79
17_I60_M0.7020.79
148_L151_I0.6960.78
83_G182_R0.6910.78
20_S25_E0.6910.78
76_G82_H0.6900.78
19_L25_E0.6870.77
92_S135_P0.6830.77
182_R193_L0.6830.77
155_V167_F0.6820.77
98_V114_V0.6820.77
148_L153_E0.6820.77
50_Q197_F0.6790.76
192_A197_F0.6780.76
119_I140_G0.6780.76
135_P179_L0.6760.76
8_S21_G0.6750.76
72_F86_F0.6750.76
27_E32_A0.6730.76
189_I193_L0.6690.75
153_E157_V0.6680.75
4_Y10_K0.6670.75
113_L118_H0.6640.75
94_L133_V0.6630.75
17_I26_L0.6590.74
153_E156_E0.6520.73
48_G52_Q0.6520.73
15_L22_T0.6490.73
148_L154_S0.6480.73
68_F194_I0.6440.73
68_F107_R0.6430.72
115_N129_P0.6420.72
178_R181_E0.6420.72
34_G37_G0.6410.72
9_W15_L0.6380.72
11_L19_L0.6360.72
17_I21_G0.6360.72
84_E191_E0.6360.72
12_S20_S0.6350.72
164_Y176_F0.6340.71
152_K155_V0.6290.71
131_Y137_Q0.6290.71
19_L59_H0.6270.71
13_R34_G0.6260.70
29_R33_P0.6240.70
9_W19_L0.6240.70
12_S22_T0.6190.70
51_L55_Q0.6180.69
15_L21_G0.6150.69
180_P184_E0.6150.69
68_F76_G0.6140.69
46_E49_L0.6110.69
96_N164_Y0.6110.69
101_L133_V0.6090.68
98_V138_T0.6030.68
11_L106_T0.6030.68
8_S11_L0.6010.67
60_M185_L0.6010.67
98_V119_I0.5970.67
49_L193_L0.5940.66
114_V123_G0.5930.66
125_R178_R0.5930.66
22_T59_H0.5880.66
62_G108_R0.5870.66
182_R185_L0.5860.65
9_W20_S0.5840.65
31_Y35_P0.5790.64
80_G83_G0.5770.64
66_R74_K0.5760.64
82_H85_N0.5750.64
11_L22_T0.5680.63
120_L142_R0.5680.63
133_V137_Q0.5650.63
81_K84_E0.5620.62
99_Y128_I0.5620.62
138_T141_V0.5620.62
145_S151_I0.5600.62
47_Y197_F0.5580.62
136_G175_T0.5550.61
32_A36_H0.5550.61
141_V145_S0.5550.61
9_W59_H0.5520.61
134_K139_I0.5500.61
183_S186_A0.5490.60
49_L190_N0.5480.60
32_A41_R0.5480.60
136_G166_T0.5450.60
136_G178_R0.5440.60
58_R86_F0.5410.59
28_K33_P0.5400.59
119_I145_S0.5380.59
161_V165_L0.5370.59
118_H148_L0.5360.59
57_L60_M0.5340.58
83_G195_V0.5340.58
92_S97_V0.5320.58
59_H164_Y0.5310.58
2_A6_G0.5250.57
3_R14_R0.5230.57
77_K89_L0.5210.56
123_G140_G0.5170.56
70_T89_L0.5170.56
94_L131_Y0.5170.56
140_G146_R0.5160.56
18_S26_L0.5150.56
57_L187_P0.5140.55
123_G143_E0.5140.55
58_R81_K0.5140.55
15_L18_S0.5140.55
29_R36_H0.5140.55
21_G24_K0.5120.55
19_L27_E0.5090.55
109_Q154_S0.5070.54
55_Q65_E0.5050.54
10_K34_G0.5050.54
32_A37_G0.5040.54
120_L124_S0.5030.54
12_S106_T0.5030.54
49_L52_Q0.5020.54
78_L92_S0.5000.53
19_L24_K0.5000.53
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  
3bbnD 1 0.98 100 0.254 Contact Map
4tp8D 1 0.98 100 0.258 Contact Map
4rb5D 1 0.995 100 0.287 Contact Map
1c05A 1 0.795 100 0.455 Contact Map
3j20E 1 0.73 99.9 0.627 Contact Map
3j38J 1 0.755 99.9 0.675 Contact Map
3kbgA 2 0.535 99.9 0.68 Contact Map
4bpeD 2 0.675 99.9 0.69 Contact Map
3j80J 1 0.705 99.8 0.718 Contact Map
4ujpK 1 0.715 99.8 0.72 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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