GREMLIN Database
RL3 - 50S ribosomal protein L3
UniProt: P60438 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10866
Length: 209 (204)
Sequences: 3126 (1600)
Seq/√Len: 112.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
164_Q167_N4.6951.00
91_T94_Q3.5601.00
6_G27_I3.4261.00
27_I189_V3.4121.00
110_T169_R3.3991.00
119_A165_M3.1891.00
113_S170_V2.9981.00
122_V129_T2.7181.00
56_K59_R2.6331.00
130_Q136_N2.4451.00
35_T79_L2.3831.00
129_T132_A2.3161.00
116_K165_M2.1911.00
86_E89_E2.1861.00
49_Q67_H2.1721.00
40_L46_R2.1411.00
181_D184_R2.1301.00
27_I193_V2.0901.00
112_T169_R2.0671.00
65_A69_A2.0491.00
136_N139_S2.0241.00
149_N153_G1.9751.00
139_S142_V1.9731.00
103_D179_R1.9681.00
16_T20_V1.9321.00
36_Q67_H1.8721.00
7_K28_E1.8581.00
187_L203_V1.8111.00
150_Q153_G1.7911.00
118_F162_A1.7601.00
146_I155_V1.7371.00
176_D190_K1.7351.00
26_V188_L1.7311.00
127_F160_K1.7161.00
13_R21_S1.7091.00
154_K157_K1.6941.00
109_V203_V1.6561.00
107_V203_V1.6531.00
110_T204_K1.6521.00
193_V201_L1.6471.00
121_T143_P1.6431.00
130_Q139_S1.6161.00
106_K176_D1.6031.00
4_L29_V1.5921.00
169_R202_I1.5701.00
78_G200_D1.4691.00
54_A74_E1.3981.00
37_V92_V1.3651.00
102_A105_K1.3491.00
80_W202_I1.3371.00
90_F94_Q1.3301.00
196_A199_S1.3251.00
64_E68_F1.3231.00
125_W160_K1.3151.00
136_N142_V1.2860.99
35_T51_T1.2550.99
64_E67_H1.2520.99
116_K119_A1.2430.99
146_I159_K1.2340.99
124_R163_G1.2310.99
4_L96_I1.2250.99
55_K60_V1.2240.99
111_G199_S1.2210.99
130_Q142_V1.2190.99
174_S206_A1.2190.99
119_A123_K1.2130.99
61_T64_E1.2070.99
146_I161_M1.1990.99
99_E182_A1.1890.99
5_V78_G1.1760.99
54_A76_G1.1710.99
12_T26_V1.1640.99
24_V178_V1.1540.99
137_S142_V1.1540.99
38_K43_D1.1530.99
30_E52_T1.1340.99
55_K77_R1.1320.99
35_T68_F1.1290.98
126_N165_M1.1230.98
121_T162_A1.1180.98
105_K205_P1.1160.98
175_L189_V1.1090.98
110_T202_I1.1070.98
50_V82_F1.1020.98
60_V64_E1.0970.98
57_A65_A1.0960.98
172_V175_L1.0940.98
125_W162_A1.0890.98
114_K196_A1.0880.98
128_R131_D1.0840.98
3_G82_F1.0810.98
50_V96_I1.0750.98
28_E185_N1.0660.98
14_I188_L1.0640.98
143_P161_M1.0560.98
60_V68_F1.0510.98
36_Q43_D1.0500.98
33_R76_G1.0490.98
173_Q204_K1.0220.97
37_V91_T1.0190.97
35_T73_V1.0140.97
173_Q207_V0.9920.97
164_Q168_E0.9920.97
133_T136_N0.9900.97
111_G194_P0.9890.97
143_P146_I0.9860.96
55_K59_R0.9830.96
175_L192_A0.9780.96
31_A185_N0.9770.96
143_P162_A0.9740.96
87_G90_F0.9710.96
172_V192_A0.9700.96
114_K197_T0.9700.96
123_K165_M0.9700.96
121_T139_S0.9690.96
131_D136_N0.9630.96
7_K53_G0.9620.96
68_F79_L0.9620.96
132_A140_H0.9520.96
116_K123_K0.9510.96
108_D173_Q0.9460.96
55_K64_E0.9370.95
51_T76_G0.9350.95
5_V202_I0.9350.95
48_I90_F0.9260.95
121_T129_T0.9150.95
36_Q49_Q0.9070.94
16_T22_I0.9070.94
136_N140_H0.8940.94
16_T176_D0.8930.94
31_A95_S0.8910.94
112_T167_N0.8880.94
127_F143_P0.8870.94
5_V200_D0.8790.93
61_T65_A0.8510.92
35_T92_V0.8470.92
62_K65_A0.8470.92
96_I100_L0.8390.92
5_V80_W0.8350.91
68_F73_V0.8330.91
103_D180_V0.8300.91
133_T151_T0.8260.91
29_V98_V0.8190.91
121_T142_V0.8000.90
137_S149_N0.7990.90
110_T171_T0.7970.90
119_A164_Q0.7960.89
109_V175_L0.7940.89
65_A75_A0.7890.89
122_V127_F0.7800.88
178_V188_L0.7770.88
12_T24_V0.7760.88
142_V162_A0.7750.88
131_D139_S0.7720.88
126_N170_V0.7670.88
121_T127_F0.7650.88
127_F146_I0.7630.87
129_T137_S0.7630.87
22_I178_V0.7620.87
7_K200_D0.7620.87
107_V177_V0.7560.87
73_V76_G0.7550.87
69_A72_G0.7550.87
77_R200_D0.7520.87
100_L205_P0.7460.86
155_V161_M0.7450.86
87_G91_T0.7440.86
57_A69_A0.7430.86
28_E31_A0.7410.86
109_V189_V0.7400.86
41_A46_R0.7250.85
121_T125_W0.7210.84
147_G152_P0.7120.83
27_I201_L0.7100.83
159_K162_A0.7100.83
86_E90_F0.7090.83
171_T204_K0.7090.83
129_T136_N0.7090.83
179_R188_L0.7090.83
132_A136_N0.7060.83
3_G10_G0.7050.83
29_V32_N0.7050.83
113_S168_E0.7040.83
180_V187_L0.7030.83
84_L89_E0.7030.83
107_V189_V0.7010.83
152_P156_F0.6970.82
132_A137_S0.6960.82
45_Y81_E0.6920.82
113_S172_V0.6910.82
33_R95_S0.6890.81
35_T49_Q0.6880.81
119_A126_N0.6840.81
29_V187_L0.6820.81
57_A74_E0.6800.81
137_S150_Q0.6790.81
181_D186_L0.6780.80
108_D206_A0.6770.80
173_Q206_A0.6750.80
29_V52_T0.6740.80
104_V176_D0.6710.80
121_T146_I0.6660.79
111_G201_L0.6630.79
37_V87_G0.6590.79
113_S165_M0.6590.79
103_D176_D0.6570.78
179_R184_R0.6560.78
12_T23_P0.6550.78
46_R87_G0.6520.78
64_E79_L0.6520.78
37_V48_I0.6510.78
14_I178_V0.6490.77
38_K81_E0.6480.77
128_R132_A0.6480.77
4_L31_A0.6450.77
177_V180_V0.6440.77
24_V188_L0.6430.77
68_F76_G0.6380.76
168_E172_V0.6360.76
3_G206_A0.6360.76
85_A89_E0.6330.76
60_V65_A0.6310.75
43_D49_Q0.6300.75
137_S143_P0.6290.75
7_K198_G0.6290.75
133_T137_S0.6280.75
14_I24_V0.6230.75
98_V182_A0.6230.75
11_M23_P0.6130.73
5_V50_V0.6120.73
125_W165_M0.6120.73
125_W168_E0.6100.73
84_L87_G0.6100.73
9_V28_E0.6060.73
165_M168_E0.6050.72
42_N70_K0.6050.72
142_V151_T0.6040.72
25_T193_V0.6010.72
20_V121_T0.6000.72
84_L88_E0.5980.72
67_H71_A0.5970.71
148_Q156_F0.5970.71
33_R51_T0.5930.71
189_V193_V0.5930.71
106_K174_S0.5920.71
118_F121_T0.5920.71
128_R151_T0.5920.71
15_F19_G0.5920.71
53_G200_D0.5910.71
46_R89_E0.5890.70
122_V140_H0.5880.70
113_S116_K0.5860.70
146_I205_P0.5850.70
178_V190_K0.5830.70
181_D187_L0.5810.69
60_V63_P0.5800.69
101_F104_V0.5780.69
122_V132_A0.5780.69
45_Y83_R0.5750.69
85_A91_T0.5750.69
61_T66_G0.5720.68
155_V158_G0.5680.68
139_S143_P0.5670.68
153_G159_K0.5660.67
85_A88_E0.5650.67
97_S182_A0.5630.67
33_R74_E0.5620.67
66_G69_A0.5620.67
9_V174_S0.5620.67
42_N46_R0.5610.67
101_F105_K0.5610.67
34_V37_V0.5590.66
150_Q159_K0.5580.66
15_F21_S0.5570.66
148_Q153_G0.5560.66
12_T188_L0.5550.66
3_G205_P0.5530.66
119_A122_V0.5520.65
137_S153_G0.5500.65
113_S142_V0.5490.65
187_L201_L0.5430.64
19_G51_T0.5420.64
122_V128_R0.5370.63
174_S197_T0.5370.63
80_W169_R0.5340.63
122_V162_A0.5280.62
191_G195_G0.5270.62
98_V180_V0.5270.62
97_S100_L0.5270.62
148_Q155_V0.5230.61
55_K78_G0.5210.61
188_L198_G0.5180.61
9_V186_L0.5160.60
129_T140_H0.5130.60
119_A127_F0.5110.60
137_S161_M0.5100.59
46_R84_L0.5090.59
51_T80_W0.5090.59
71_A92_V0.5060.59
167_N196_A0.5050.59
46_R88_E0.5020.58
131_D137_S0.5010.58
98_V185_N0.5010.58
23_P39_D0.5010.58
136_N150_Q0.5000.58
133_T139_S0.5000.58
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  
4tp9D 1 1 100 0.019 Contact Map
1vw3C 1 1 100 0.025 Contact Map
3bboF 1 0.7321 100 0.031 Contact Map
3j7yE 1 0.9856 100 0.034 Contact Map
4ce4E 1 0.9856 100 0.034 Contact Map
3j3wD 1 0.9856 100 0.035 Contact Map
2zjrB 1 0.9761 100 0.041 Contact Map
4rb6E 1 0.9761 100 0.041 Contact Map
1vq8B 1 0.9952 100 0.115 Contact Map
1vx7E 1 0.9809 100 0.135 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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