GREMLIN Database
RL3 - 50S ribosomal protein L3
UniProt: Q9HPD4 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 335 (328)
Sequences: 394 (233)
Seq/√Len: 12.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
168_T171_D6.2711.00
262_E265_K5.3371.00
44_G75_V4.7491.00
75_V299_V4.3051.00
210_Q214_K4.1941.00
74_V294_L3.8500.99
210_Q255_T3.8040.99
277_T287_E3.7830.99
213_V218_V3.6150.99
295_V299_V3.6040.99
202_G300_P3.4540.99
56_D63_T3.3360.98
214_K255_T3.1650.97
140_V176_A3.0260.97
175_F179_L2.9900.96
80_M142_T2.9120.96
115_S118_D2.8930.96
141_I159_V2.8540.95
12_M248_T2.7620.94
115_S121_G2.7530.94
23_E257_Y2.6450.93
189_G272_D2.5250.91
126_L131_D2.5010.91
115_S119_E2.4700.90
125_E131_D2.4320.89
118_D121_G2.4100.89
209_T252_Q2.3890.88
142_T162_T2.3860.88
202_G307_V2.3030.87
115_S122_D2.2980.86
44_G77_T2.2330.85
115_S123_T2.2000.84
126_L129_A2.1600.83
15_S216_W2.1410.82
117_P121_G2.0880.80
277_T283_P2.0860.80
12_M15_S1.9970.77
119_E122_D1.9780.77
118_D122_D1.9770.77
127_I131_D1.9710.76
22_S28_N1.8820.73
163_R172_R1.8520.72
110_L141_I1.8340.71
117_P122_D1.8050.69
37_V179_L1.7580.67
299_V307_V1.7330.66
332_S335_G1.7080.65
85_V180_I1.6680.63
124_D130_L1.6660.63
109_S147_G1.6640.63
214_K220_K1.6420.62
81_R183_G1.6050.60
47_A277_T1.6000.60
209_T228_Q1.5640.58
124_D127_I1.5480.57
20_A203_I1.5460.57
37_V175_F1.5420.57
223_G228_Q1.5350.57
7_P11_S1.5350.57
40_Q163_R1.4940.54
200_A299_V1.4830.54
72_V76_E1.4790.54
89_E98_L1.4560.52
39_L140_V1.4450.52
81_R145_V1.4420.52
271_N274_D1.4380.51
230_W233_R1.4240.51
117_P123_T1.4230.51
227_R230_W1.4190.51
28_N201_A1.4150.50
140_V186_H1.3980.49
85_V176_A1.3770.48
216_W252_Q1.3730.48
127_I130_L1.3710.48
219_Q228_Q1.3660.48
43_A306_L1.3640.48
76_E290_G1.3630.48
137_D172_R1.3540.47
7_P10_G1.3450.47
220_K230_W1.3420.47
121_G126_L1.3200.45
126_L130_L1.3180.45
22_S26_R1.3130.45
118_D123_T1.3080.45
190_D207_K1.3010.44
37_V164_V1.2840.44
33_D38_G1.2830.43
237_L251_Q1.2780.43
183_G187_A1.2760.43
226_A229_G1.2740.43
196_E244_R1.2670.43
220_K228_Q1.2590.42
295_V322_D1.2470.42
91_T330_T1.2420.41
300_P307_V1.2400.41
262_E284_N1.2320.41
85_V140_V1.2320.41
277_T282_F1.2250.41
215_R260_R1.2240.40
226_A230_W1.2190.40
229_G296_K1.2180.40
112_R293_T1.2040.39
292_Y302_P1.1750.38
52_V66_M1.1700.38
200_A307_V1.1650.38
104_D178_D1.1610.37
152_V307_V1.1560.37
214_K217_G1.1530.37
209_T213_V1.1470.37
15_S247_S1.1460.37
82_A188_F1.1460.37
12_M247_S1.1430.36
86_R100_E1.1210.35
98_L136_A1.1190.35
111_D141_I1.1050.35
119_E123_T1.0950.34
6_R9_K1.0950.34
8_R11_S1.0900.34
104_D198_T1.0850.34
27_F201_A1.0850.34
141_I295_V1.0800.34
130_L159_V1.0800.34
212_P218_V1.0780.33
120_G248_T1.0520.32
109_S277_T1.0500.32
125_E129_A1.0490.32
210_Q217_G1.0490.32
220_K243_S1.0480.32
17_R27_F1.0470.32
123_T159_V1.0400.32
124_D128_E1.0390.32
179_L190_D1.0320.31
104_D293_T1.0230.31
89_E134_E1.0160.31
24_V203_I1.0150.31
222_K226_A1.0140.31
56_D323_P1.0100.30
22_S164_V1.0100.30
273_G277_T1.0060.30
57_D92_P1.0050.30
271_N293_T1.0050.30
11_S20_A1.0040.30
234_I249_V1.0030.30
197_F316_N0.9980.30
87_L135_I0.9930.30
14_F141_I0.9890.29
203_I306_L0.9880.29
3_Q8_R0.9830.29
202_G247_S0.9800.29
213_V228_Q0.9800.29
164_V178_D0.9780.29
178_D182_D0.9740.29
143_H240_W0.9710.29
226_A233_R0.9660.28
75_V191_V0.9660.28
198_T267_L0.9630.28
312_A315_P0.9590.28
80_M160_M0.9580.28
207_K214_K0.9550.28
23_E200_A0.9490.28
218_V228_Q0.9450.28
217_G255_T0.9410.27
75_V295_V0.9400.27
222_K227_R0.9370.27
237_L245_V0.9340.27
138_I180_I0.9330.27
125_E130_L0.9310.27
29_S186_H0.9240.27
148_D183_G0.9220.27
50_T72_V0.9200.27
45_Y144_T0.9160.26
224_K229_G0.9130.26
174_E257_Y0.9130.26
60_N112_R0.9130.26
160_M308_R0.9130.26
61_A102_W0.9100.26
84_A158_D0.9050.26
43_A160_M0.9000.26
228_Q233_R0.9000.26
224_K230_W0.8920.25
168_T271_N0.8910.25
91_T321_L0.8890.25
98_L207_K0.8850.25
38_G311_P0.8840.25
223_G230_W0.8810.25
221_R226_A0.8790.25
213_V315_P0.8750.25
124_D129_A0.8750.25
22_S41_G0.8740.25
148_D195_G0.8730.25
85_V187_A0.8720.25
115_S126_L0.8710.25
53_V57_D0.8630.24
53_V326_R0.8620.24
200_A295_V0.8610.24
220_K227_R0.8550.24
118_D131_D0.8540.24
32_A267_L0.8530.24
45_Y48_G0.8530.24
11_S17_R0.8520.24
90_D257_Y0.8520.24
168_T289_D0.8460.24
327_Y331_A0.8460.24
85_V170_A0.8440.24
119_E272_D0.8430.24
229_G233_R0.8410.23
170_A174_E0.8380.23
237_L242_P0.8270.23
260_R305_R0.8260.23
234_I237_L0.8250.23
93_Y134_E0.8220.23
232_R260_R0.8210.23
196_E311_P0.8190.23
160_M216_W0.8190.23
220_K237_L0.8180.23
222_K230_W0.8170.23
125_E200_A0.8150.22
215_R232_R0.8110.22
43_A80_M0.8090.22
39_L186_H0.8050.22
242_P271_N0.8050.22
52_V202_G0.8040.22
173_L294_L0.8030.22
118_D126_L0.8020.22
216_W259_Q0.7960.22
221_R233_R0.7910.22
114_L159_V0.7910.22
85_V291_P0.7890.22
17_R306_L0.7880.22
23_E41_G0.7880.22
172_R229_G0.7860.21
29_S313_V0.7860.21
171_D320_R0.7850.21
175_F218_V0.7840.21
122_D125_E0.7810.21
163_R167_G0.7790.21
59_A269_D0.7730.21
47_A59_A0.7720.21
87_L138_I0.7710.21
229_G244_R0.7710.21
11_S247_S0.7700.21
164_V175_F0.7690.21
23_E203_I0.7690.21
174_E177_A0.7670.21
110_L210_Q0.7650.21
195_G322_D0.7650.21
119_E307_V0.7640.21
28_N58_K0.7610.21
119_E126_L0.7610.21
89_E114_L0.7570.20
76_E285_Y0.7540.20
213_V227_R0.7540.20
98_L134_E0.7530.20
232_R305_R0.7510.20
97_P186_H0.7500.20
221_R227_R0.7480.20
291_P328_V0.7460.20
71_P251_Q0.7450.20
196_E312_A0.7440.20
59_A277_T0.7440.20
51_H76_E0.7420.20
297_G301_G0.7390.20
169_L200_A0.7370.20
189_G273_G0.7310.20
277_T333_N0.7270.19
279_D331_A0.7250.19
115_S127_I0.7250.19
136_A205_K0.7230.19
275_E302_P0.7220.19
31_P310_R0.7180.19
103_A106_T0.7160.19
142_T160_M0.7150.19
61_A64_E0.7150.19
14_F167_G0.7120.19
20_A292_Y0.7110.19
241_N291_P0.7110.19
44_G48_G0.7090.19
146_P149_T0.7090.19
3_Q9_K0.7090.19
227_R240_W0.7080.19
33_D47_A0.7070.19
77_T216_W0.7070.19
74_V193_R0.7060.19
77_T302_P0.7030.19
14_F77_T0.7010.19
83_A141_I0.6990.19
12_M156_N0.6980.19
151_G290_G0.6970.19
122_D129_A0.6960.18
151_G289_D0.6950.18
107_H143_H0.6930.18
263_L295_V0.6920.18
123_T126_L0.6920.18
199_D238_G0.6920.18
47_A325_V0.6910.18
83_A143_H0.6890.18
198_T202_G0.6860.18
52_V261_T0.6860.18
94_G332_S0.6850.18
51_H72_V0.6840.18
45_Y49_M0.6830.18
20_A298_S0.6820.18
115_S124_D0.6810.18
257_Y324_E0.6810.18
12_M152_V0.6810.18
268_I325_V0.6800.18
6_R219_Q0.6800.18
6_R273_G0.6800.18
7_P18_K0.6780.18
288_V307_V0.6770.18
41_G308_R0.6720.18
43_A146_P0.6700.18
77_T138_I0.6670.18
53_V69_T0.6650.18
83_A159_V0.6630.17
224_K240_W0.6620.17
21_E177_A0.6610.17
52_V177_A0.6600.17
56_D68_T0.6590.17
57_D290_G0.6590.17
110_L300_P0.6570.17
282_F287_E0.6560.17
80_M159_V0.6560.17
87_L133_E0.6550.17
37_V312_A0.6540.17
124_D131_D0.6540.17
250_P266_R0.6510.17
171_D273_G0.6510.17
124_D190_D0.6500.17
113_T156_N0.6500.17
235_G251_Q0.6500.17
118_D124_D0.6490.17
223_G227_R0.6450.17
106_T114_L0.6420.17
141_I262_E0.6410.17
149_T257_Y0.6400.17
192_F267_L0.6370.17
30_W40_Q0.6370.17
329_S333_N0.6360.17
172_R259_Q0.6350.17
22_S25_P0.6350.17
243_S318_S0.6310.17
167_G221_R0.6310.17
178_D219_Q0.6310.17
88_Y215_R0.6300.16
98_L135_I0.6300.16
224_K228_Q0.6270.16
188_F270_I0.6270.16
43_A144_T0.6260.16
40_Q245_V0.6250.16
238_G245_V0.6250.16
265_K284_N0.6250.16
55_V65_G0.6240.16
107_H213_V0.6230.16
202_G304_Q0.6210.16
138_I183_G0.6200.16
213_V258_H0.6200.16
283_P293_T0.6180.16
54_L68_T0.6180.16
84_A196_E0.6180.16
16_P19_R0.6160.16
5_N180_I0.6150.16
246_R257_Y0.6110.16
11_S22_S0.6110.16
13_G42_F0.6100.16
37_V171_D0.6100.16
281_G310_R0.6090.16
173_L313_V0.6070.16
147_G189_G0.6070.16
277_T288_V0.6070.16
13_G202_G0.6060.16
13_G221_R0.6040.16
224_K245_V0.6040.16
326_R329_S0.6030.16
9_K171_D0.6020.16
211_G261_T0.6000.16
196_E229_G0.5990.16
76_E327_Y0.5970.16
242_P249_V0.5970.16
253_G297_G0.5960.16
57_D267_L0.5940.15
82_A191_V0.5930.15
37_V293_T0.5930.15
91_T94_G0.5920.15
153_P306_L0.5900.15
22_S201_A0.5900.15
229_G242_P0.5880.15
69_T247_S0.5870.15
214_K334_Q0.5860.15
131_D138_I0.5850.15
91_T112_R0.5850.15
238_G242_P0.5850.15
250_P290_G0.5840.15
218_V315_P0.5830.15
276_P289_D0.5830.15
45_Y146_P0.5820.15
175_F213_V0.5810.15
172_R233_R0.5810.15
5_N228_Q0.5800.15
31_P218_V0.5770.15
177_A219_Q0.5770.15
221_R228_Q0.5740.15
234_I242_P0.5740.15
108_E288_V0.5720.15
292_Y299_V0.5720.15
132_T174_E0.5710.15
180_I189_G0.5700.15
20_A23_E0.5690.15
95_K137_D0.5690.15
286_G297_G0.5680.15
281_G301_G0.5660.15
118_D125_E0.5640.15
6_R144_T0.5630.15
62_P241_N0.5630.15
224_K227_R0.5630.15
213_V303_E0.5620.15
148_D210_Q0.5600.15
280_G332_S0.5590.15
6_R213_V0.5580.15
49_M67_E0.5570.15
224_K242_P0.5570.15
234_I251_Q0.5560.14
67_E140_V0.5560.14
58_K69_T0.5560.14
175_F288_V0.5550.14
222_K228_Q0.5530.14
156_N328_V0.5530.14
82_A198_T0.5520.14
236_N330_T0.5520.14
113_T145_V0.5510.14
21_E155_K0.5500.14
146_P314_R0.5490.14
51_H283_P0.5480.14
220_K226_A0.5470.14
6_R58_K0.5470.14
274_D328_V0.5460.14
159_V257_Y0.5420.14
267_L293_T0.5420.14
229_G252_Q0.5410.14
10_G19_R0.5410.14
97_P257_Y0.5400.14
224_K237_L0.5390.14
14_F244_R0.5380.14
318_S325_V0.5370.14
123_T130_L0.5360.14
128_E322_D0.5360.14
5_N148_D0.5360.14
56_D65_G0.5330.14
80_M312_A0.5330.14
92_P247_S0.5300.14
301_G305_R0.5300.14
109_S112_R0.5300.14
236_N312_A0.5280.14
166_G215_R0.5280.14
121_G124_D0.5240.14
191_V270_I0.5230.14
126_L295_V0.5230.14
3_Q309_F0.5220.14
54_L74_V0.5210.14
136_A248_T0.5210.14
170_A188_F0.5190.14
69_T292_Y0.5180.14
12_M217_G0.5180.14
59_A294_L0.5170.14
17_R250_P0.5170.14
44_G300_P0.5150.13
297_G310_R0.5140.13
243_S258_H0.5140.13
99_T106_T0.5140.13
96_K140_V0.5130.13
136_A149_T0.5120.13
73_T300_P0.5110.13
163_R329_S0.5100.13
85_V269_D0.5100.13
226_A311_P0.5090.13
159_V300_P0.5090.13
51_H282_F0.5080.13
59_A287_E0.5060.13
93_Y309_F0.5060.13
157_P235_G0.5060.13
208_G281_G0.5050.13
74_V325_V0.5050.13
118_D130_L0.5050.13
249_V328_V0.5040.13
26_R43_A0.5030.13
107_H190_D0.5030.13
82_A243_S0.5020.13
28_N186_H0.5020.13
224_K249_V0.5010.13
71_P214_K0.5000.13
33_D229_G0.5000.13
79_P299_V0.5000.13
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  
4ujqE 1 0.9851 100 0.184 Contact Map
3zf7f 1 0.9821 100 0.186 Contact Map
1vx7E 1 0.9791 100 0.187 Contact Map
4a17B 1 0.9791 100 0.195 Contact Map
3j61B 1 0.9881 100 0.197 Contact Map
4w20B 1 0.9851 100 0.202 Contact Map
3j21C 1 0.9731 100 0.227 Contact Map
1vq8B 1 0.991 100 0.246 Contact Map
1vw3C 1 0.7224 100 0.591 Contact Map
4tp9D 1 0.6119 100 0.62 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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