GREMLIN Database
RL4 - 50S ribosomal protein L4
UniProt: Q9HPD3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 250 (246)
Sequences: 444 (269)
Seq/√Len: 17.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
143_D242_S5.1251.00
38_A102_V3.9611.00
197_V237_T3.8941.00
118_T237_T3.5131.00
157_L161_L3.4351.00
115_V239_W3.1540.99
7_D11_D2.8800.98
141_V161_L2.8660.98
164_H167_I2.8650.98
241_E245_E2.8410.98
77_G83_T2.6810.97
70_V80_V2.6250.97
170_A211_L2.4820.95
43_T46_Y2.4700.95
174_R190_E2.4550.95
61_Q65_R2.4460.95
33_R37_A2.4070.95
163_V236_L2.3410.94
49_D55_R2.2850.93
201_E204_P2.2020.92
14_G241_E2.1980.91
173_G191_P2.1700.91
161_L238_V2.1640.91
31_V233_P2.0970.89
154_V208_A2.0390.88
43_T98_H2.0130.87
176_V188_Y1.9540.86
97_D100_L1.8550.82
148_L157_L1.8500.82
34_A102_V1.8490.82
163_V166_D1.8450.82
32_K36_L1.8420.82
134_D162_G1.8190.81
63_S69_H1.8130.81
35_V39_Q1.7890.80
47_G92_P1.7890.80
220_R246_E1.7540.79
32_K231_A1.7380.78
180_Q183_L1.7380.78
179_G186_R1.7200.77
145_F157_L1.7020.76
155_V164_H1.7000.76
33_R106_E1.6680.75
124_V137_F1.6650.75
26_V233_P1.6630.75
46_Y92_P1.6310.73
146_E199_A1.6280.73
18_L22_F1.6210.73
145_F240_T1.5710.70
77_G85_G1.5700.70
134_D137_F1.5610.70
211_L214_V1.5540.69
83_T243_A1.5130.67
108_K219_G1.5120.67
24_E112_R1.4700.65
57_T98_H1.4670.65
125_A132_D1.4410.63
80_V83_T1.4280.63
46_Y98_H1.4210.62
199_A242_S1.4040.61
122_E125_A1.3890.61
35_V231_A1.3790.60
78_A85_G1.3540.58
163_V238_V1.3540.58
189_Q215_D1.3000.55
174_R178_A1.2940.55
114_A228_A1.2790.54
131_F196_F1.2750.54
37_A41_N1.2510.52
194_I238_V1.2500.52
58_A78_A1.2450.52
146_E200_S1.2390.52
115_V137_F1.2320.51
159_E164_H1.2280.51
142_S241_E1.2260.51
40_A43_T1.2060.50
57_T78_A1.2020.49
143_D153_D1.1970.49
176_V206_T1.1920.49
35_V225_E1.1790.48
7_D142_S1.1750.48
84_V148_L1.1730.48
118_T239_W1.1690.47
167_I211_L1.1640.47
92_P169_R1.1610.47
54_L87_R1.1580.47
200_S203_G1.1580.47
72_K102_V1.1530.47
56_T85_G1.1480.46
22_F115_V1.1450.46
172_E211_L1.1310.45
115_V119_T1.1190.44
179_G184_R1.1160.44
84_V96_K1.1160.44
6_R141_V1.1110.44
85_G136_E1.1090.44
33_R100_L1.1010.43
133_D165_A1.0950.43
58_A63_S1.0930.43
63_S76_Q1.0920.43
141_V242_S1.0920.43
60_S78_A1.0820.42
39_Q226_D1.0800.42
56_T77_G1.0760.42
81_P88_K1.0710.42
167_I214_V1.0670.41
164_H171_D1.0610.41
47_G137_F1.0590.41
56_T79_R1.0570.41
131_F193_S1.0490.40
165_A168_E1.0450.40
145_F160_A1.0430.40
101_D215_D1.0410.40
63_S75_G1.0260.39
81_P84_V1.0130.38
181_G187_K1.0060.38
225_E231_A1.0030.38
4_T12_D0.9980.37
239_W244_V0.9930.37
60_S63_S0.9910.37
195_L215_D0.9870.37
31_V113_A0.9820.37
181_G184_R0.9790.36
78_A107_R0.9780.36
149_V201_E0.9610.35
60_S140_V0.9560.35
157_L196_F0.9560.35
144_D147_D0.9530.35
151_T211_L0.9490.35
32_K187_K0.9480.35
41_N46_Y0.9480.35
152_Q240_T0.9450.35
219_G239_W0.9450.35
30_L189_Q0.9420.34
20_R109_A0.9400.34
127_R215_D0.9390.34
173_G190_E0.9340.34
223_N226_D0.9320.34
160_A242_S0.9300.34
40_A46_Y0.9290.34
113_A166_D0.9210.33
108_K194_I0.9130.33
54_L79_R0.9080.33
127_R233_P0.9060.32
156_S160_A0.8980.32
193_S211_L0.8970.32
11_D180_Q0.8880.32
81_P87_R0.8870.31
24_E90_H0.8840.31
56_T60_S0.8830.31
48_A94_A0.8830.31
26_V120_D0.8830.31
181_G186_R0.8820.31
54_L194_I0.8750.31
150_K153_D0.8740.31
70_V82_Q0.8690.31
77_G133_D0.8690.31
59_E79_R0.8670.30
73_A78_A0.8670.30
38_A107_R0.8650.30
11_D169_R0.8650.30
228_A235_R0.8590.30
161_L200_S0.8520.30
188_Y192_T0.8490.30
49_D54_L0.8480.29
61_Q210_N0.8480.29
10_G146_E0.8440.29
24_E187_K0.8340.29
166_D193_S0.8340.29
146_E207_A0.8320.29
170_A190_E0.8290.29
196_F248_A0.8290.29
26_V118_T0.8280.28
50_E54_L0.8280.28
16_L199_A0.8250.28
57_T61_Q0.8220.28
179_G230_G0.8220.28
143_D241_E0.8170.28
183_L231_A0.8130.28
197_V214_V0.8100.28
149_V153_D0.8100.28
111_V224_A0.8000.27
58_A65_R0.8000.27
63_S88_K0.7940.27
14_G147_D0.7900.27
156_S178_A0.7880.27
196_F208_A0.7880.27
50_E245_E0.7870.27
76_Q139_L0.7870.27
140_V158_L0.7810.26
39_Q215_D0.7810.26
114_A197_V0.7770.26
199_A202_S0.7710.26
48_A98_H0.7660.26
41_N98_H0.7650.26
135_V139_L0.7640.25
68_A147_D0.7600.25
162_G169_R0.7540.25
58_A91_P0.7530.25
80_V166_D0.7530.25
172_E176_V0.7510.25
30_L106_E0.7500.25
121_S147_D0.7480.25
15_T18_L0.7400.24
11_D143_D0.7370.24
30_L196_F0.7320.24
181_G234_G0.7300.24
18_L44_Q0.7300.24
11_D15_T0.7290.24
163_V167_I0.7260.24
43_T56_T0.7250.24
45_E182_T0.7240.24
69_H84_V0.7230.24
71_P80_V0.7220.24
111_V115_V0.7200.24
135_V162_G0.7190.23
94_A137_F0.7180.23
32_K106_E0.7170.23
10_G160_A0.7150.23
175_T189_Q0.7150.23
208_A225_E0.7120.23
214_V247_V0.7080.23
57_T247_V0.7080.23
93_K219_G0.7070.23
46_Y101_D0.7060.23
115_V214_V0.7040.23
42_R51_Y0.7030.23
157_L160_A0.7030.23
34_A105_K0.7010.23
75_G226_D0.6970.23
105_K137_F0.6950.22
170_A193_S0.6920.22
228_A240_T0.6910.22
60_S128_G0.6890.22
68_A214_V0.6880.22
18_L26_V0.6850.22
16_L244_V0.6850.22
45_E245_E0.6800.22
118_T185_G0.6780.22
114_A177_R0.6770.22
125_A141_V0.6720.22
61_Q67_M0.6680.21
67_M82_Q0.6640.21
16_L119_T0.6620.21
142_S207_A0.6620.21
124_V169_R0.6620.21
147_D152_Q0.6580.21
3_V212_A0.6570.21
4_T157_L0.6560.21
22_F217_A0.6540.21
174_R189_Q0.6530.21
5_V136_E0.6520.21
30_L200_S0.6520.21
26_V231_A0.6510.21
38_A112_R0.6490.21
196_F214_V0.6470.21
166_D212_A0.6470.21
39_Q225_E0.6460.20
188_Y197_V0.6420.20
68_A155_V0.6410.20
45_E171_D0.6400.20
179_G197_V0.6400.20
64_G79_R0.6390.20
19_P27_R0.6390.20
93_K103_N0.6350.20
45_E187_K0.6320.20
28_P242_S0.6290.20
37_A40_A0.6270.20
224_A231_A0.6240.20
13_A142_S0.6230.20
66_G92_P0.6210.20
94_A130_N0.6200.19
16_L220_R0.6200.19
45_E180_Q0.6200.19
63_S79_R0.6200.19
215_D237_T0.6200.19
111_V217_A0.6180.19
61_Q222_V0.6160.19
9_D12_D0.6140.19
8_L240_T0.6130.19
43_T57_T0.6130.19
229_P243_A0.6080.19
132_D147_D0.6050.19
77_G105_K0.6020.19
101_D104_D0.6020.19
189_Q192_T0.6010.19
220_R239_W0.6000.19
10_G157_L0.5980.19
152_Q165_A0.5980.19
14_G140_V0.5980.19
16_L105_K0.5960.19
192_T195_L0.5940.19
32_K175_T0.5930.18
22_F152_Q0.5920.18
33_R144_D0.5910.18
50_E125_A0.5890.18
170_A242_S0.5880.18
169_R173_G0.5870.18
190_E203_G0.5860.18
24_E109_A0.5840.18
133_D141_V0.5820.18
132_D153_D0.5800.18
224_A233_P0.5780.18
31_V224_A0.5770.18
152_Q200_S0.5760.18
191_P236_L0.5760.18
74_N247_V0.5760.18
132_D165_A0.5720.18
70_V166_D0.5720.18
169_R236_L0.5710.18
8_L145_F0.5690.18
119_T245_E0.5690.18
63_S81_P0.5660.18
149_V203_G0.5650.17
108_K232_E0.5630.17
23_E94_A0.5620.17
130_N147_D0.5610.17
23_E172_E0.5590.17
56_T73_A0.5570.17
149_V162_G0.5560.17
79_R82_Q0.5540.17
10_G52_A0.5500.17
115_V231_A0.5500.17
37_A100_L0.5480.17
4_T31_V0.5460.17
21_V117_A0.5430.17
147_D160_A0.5420.17
148_L245_E0.5410.17
152_Q243_A0.5400.17
63_S83_T0.5390.17
216_V221_E0.5340.16
62_G210_N0.5330.16
43_T108_K0.5330.16
141_V145_F0.5330.16
148_L154_V0.5310.16
159_E166_D0.5310.16
46_Y49_D0.5300.16
97_D120_D0.5290.16
61_Q101_D0.5270.16
66_G81_P0.5270.16
181_G188_Y0.5260.16
103_N106_E0.5250.16
81_P210_N0.5240.16
18_L146_E0.5230.16
43_T73_A0.5210.16
97_D109_A0.5200.16
61_Q84_V0.5190.16
21_V112_R0.5180.16
137_F239_W0.5180.16
153_D156_S0.5170.16
22_F27_R0.5170.16
6_R161_L0.5160.16
162_G217_A0.5140.16
122_E149_V0.5130.16
38_A41_N0.5130.16
141_V157_L0.5130.16
9_D171_D0.5120.16
199_A246_E0.5120.16
115_V142_S0.5110.16
96_K140_V0.5100.16
58_A80_V0.5070.16
8_L148_L0.5050.16
4_T142_S0.5050.16
149_V204_P0.5030.15
43_T49_D0.5030.15
107_R180_Q0.5030.15
101_D223_N0.5020.15
65_R140_V0.5010.15
30_L128_G0.5000.15
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  
3j21D 1 1 100 0.289 Contact Map
1vx7F 1 1 100 0.293 Contact Map
4ujqF 1 1 100 0.294 Contact Map
4a17C 1 1 100 0.3 Contact Map
3j39C 1 1 100 0.303 Contact Map
3zf7r 1 0.996 100 0.305 Contact Map
3j3bC 1 1 100 0.309 Contact Map
4w20C 1 1 100 0.309 Contact Map
3j61C 1 1 100 0.309 Contact Map
1vq8C 1 0.984 100 0.309 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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