GREMLIN Database
BACR - Bacteriorhodopsin
UniProt: P02945 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 262 (221)
Sequences: 707 (504)
Seq/√Len: 33.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
65_I101_F7.4321.00
103_T128_D4.0381.00
32_L226_V3.6181.00
93_W97_A3.5891.00
98_D102_T3.4891.00
34_G67_F3.4251.00
98_D229_K3.4141.00
37_T63_P3.3721.00
72_S150_W3.3041.00
27_A74_L3.1621.00
134_T154_S2.7321.00
151_W155_T2.6991.00
194_L227_S2.6721.00
130_I157_A2.5781.00
41_L60_T2.4431.00
36_G230_V2.3060.99
63_P233_G2.1810.99
131_M135_G2.1790.99
59_T109_D2.1390.99
40_F233_G2.0620.98
59_T233_G2.0490.98
127_A160_Y1.9860.98
103_T229_K1.9720.98
58_I105_L1.9510.98
80_T140_L1.9190.97
128_D131_M1.8970.97
103_T131_M1.8560.97
102_T229_K1.8170.96
29_G222_M1.8060.96
197_A201_V1.7500.96
66_A73_M1.7480.95
134_T228_A1.7400.95
71_L141_T1.7080.95
26_L218_T1.6970.95
219_L223_V1.6890.95
108_L125_V1.6410.94
201_V220_L1.6110.93
115_D148_F1.5790.92
36_G40_F1.5680.92
135_G229_K1.5670.92
37_T64_A1.5590.92
138_G202_W1.5490.92
195_W229_K1.5480.92
39_Y43_K1.5380.91
107_L128_D1.4980.90
147_R152_A1.4930.90
100_L129_G1.4770.89
202_W217_E1.4660.89
134_T150_W1.4570.89
207_E217_E1.4280.88
69_M73_M1.4260.88
148_F203_L1.4050.87
98_D103_T1.3840.86
59_T125_V1.3810.86
66_A102_T1.3800.86
131_M161_I1.3570.85
99_W135_G1.3500.85
151_W196_S1.3470.85
202_W208_G1.3450.84
34_G64_A1.3340.84
102_T105_L1.2960.82
163_Y167_F1.2910.82
66_A199_P1.2780.81
96_Y99_W1.2680.81
66_A229_K1.2660.81
153_I204_I1.2450.79
203_L209_A1.2420.79
197_A220_L1.2270.78
158_M162_L1.2230.78
32_L230_V1.2220.78
174_E181_A1.2150.78
160_Y164_V1.2130.78
33_M66_A1.2100.77
66_A98_D1.1940.77
102_T128_D1.1920.76
30_T67_F1.1730.75
94_A137_V1.1460.73
103_T135_G1.1280.72
153_I170_T1.1260.72
69_M139_A1.1160.71
86_G182_S1.1090.71
35_L226_V1.1080.71
97_A166_F1.1050.71
40_F63_P1.1040.71
107_L135_G1.0940.70
66_A106_L1.0880.70
152_A215_N1.0820.69
64_A227_S1.0760.69
27_A136_L1.0740.68
79_L92_Y1.0670.68
66_A131_M1.0570.67
96_Y104_P1.0480.67
190_V194_L1.0420.66
66_A109_D1.0350.66
106_L109_D1.0350.66
209_A216_I1.0290.65
130_I153_I1.0210.65
25_W29_G1.0150.64
136_L140_L1.0020.63
67_F71_L0.9890.62
201_V224_L0.9890.62
62_V105_L0.9770.61
152_A156_A0.9720.61
101_F160_Y0.9690.60
204_I212_V0.9650.60
103_T195_W0.9630.60
99_W199_P0.9620.60
213_P216_I0.9610.60
41_L162_L0.9600.60
202_W224_L0.9550.59
83_P88_Q0.9530.59
29_G33_M0.9520.59
94_A101_F0.9520.59
176_M180_V0.9490.59
102_T135_G0.9430.58
204_I220_L0.9410.58
135_G232_F0.9400.58
132_I229_K0.9330.57
136_L221_F0.9250.57
212_V219_L0.9250.57
91_I139_A0.9220.57
119_G123_A0.9160.56
162_L166_F0.9160.56
105_L138_G0.9140.56
141_T146_Y0.9140.56
33_M230_V0.9060.55
232_F237_L0.9050.55
203_L220_L0.9030.55
239_S243_F0.9010.55
239_S242_I0.9000.55
38_L64_A0.8960.54
91_I212_V0.8850.53
150_W213_P0.8780.53
166_F192_V0.8770.53
124_L164_V0.8700.52
22_E214_L0.8650.52
34_G184_F0.8620.52
71_L209_A0.8530.51
33_M135_G0.8500.51
36_G234_L0.8470.50
92_Y218_T0.8450.50
35_L159_L0.8450.50
59_T63_P0.8440.50
75_L208_G0.8420.50
31_A67_F0.8390.50
29_G66_A0.8330.49
140_L207_E0.8320.49
37_T155_T0.8280.49
177_R181_A0.8280.49
130_I175_S0.8210.48
158_M192_V0.8180.48
78_G217_E0.8170.48
229_K233_G0.8170.48
34_G226_V0.8140.47
190_V235_I0.8060.47
37_T47_V0.8030.47
212_V216_I0.8000.46
90_P214_L0.7970.46
109_D236_L0.7940.46
62_V106_L0.7900.45
134_T153_I0.7830.45
132_I230_V0.7790.45
194_L228_A0.7770.44
38_L42_V0.7760.44
184_F188_R0.7690.44
76_G92_Y0.7670.44
33_M163_Y0.7630.43
113_L240_R0.7620.43
99_W104_P0.7590.43
96_Y232_F0.7570.43
162_L187_L0.7530.42
91_I158_M0.7530.42
111_A121_I0.7480.42
115_D152_A0.7460.42
150_W223_V0.7430.42
173_A176_M0.7390.41
69_M72_S0.7350.41
182_S185_K0.7340.41
103_T132_I0.7250.40
196_S199_P0.7240.40
44_G64_A0.7180.40
140_L146_Y0.7160.39
71_L149_V0.7140.39
156_A231_G0.7120.39
126_G161_I0.7120.39
87_E213_P0.7110.39
64_A68_T0.7100.39
79_L82_V0.7060.39
66_A195_W0.7040.38
125_V129_G0.7030.38
68_T130_I0.7030.38
107_L116_A0.7020.38
22_E90_P0.6990.38
141_T145_S0.6970.38
235_I238_R0.6950.38
161_I164_V0.6930.38
131_M155_T0.6920.37
30_T71_L0.6920.37
216_I220_L0.6900.37
25_W209_A0.6900.37
191_T228_A0.6900.37
151_W156_A0.6850.37
158_M196_S0.6820.37
34_G234_L0.6820.37
42_V46_G0.6810.37
24_I28_L0.6770.36
122_L163_Y0.6750.36
62_V232_F0.6750.36
22_E140_L0.6730.36
206_S217_E0.6720.36
191_T236_L0.6630.35
55_F121_I0.6630.35
36_G171_S0.6610.35
131_M195_W0.6600.35
185_K193_V0.6570.35
131_M199_P0.6530.34
119_G167_F0.6530.34
44_G48_S0.6520.34
56_Y237_L0.6500.34
57_A117_D0.6500.34
99_W198_Y0.6470.34
130_I151_W0.6460.34
138_G151_W0.6460.34
107_L228_A0.6410.34
140_L152_A0.6410.34
122_L172_K0.6390.33
98_D109_D0.6380.33
24_I27_A0.6340.33
62_V109_D0.6330.33
53_K79_L0.6320.33
32_L46_G0.6280.33
50_P151_W0.6280.33
77_Y146_Y0.6240.32
146_Y149_V0.6220.32
33_M98_D0.6200.32
93_W217_E0.6170.32
29_G68_T0.6150.32
26_L159_L0.6110.31
31_A68_T0.6110.31
114_V138_G0.6100.31
112_L115_D0.6090.31
40_F236_L0.6090.31
54_K68_T0.6070.31
189_N193_V0.6070.31
121_I184_F0.6060.31
38_L234_L0.6040.31
117_D138_G0.6030.31
173_A194_L0.6020.31
77_Y141_T0.6020.31
37_T41_L0.6010.31
48_S53_K0.6000.30
29_G129_G0.6000.30
95_R229_K0.5990.30
58_I63_P0.5990.30
75_L78_G0.5970.30
80_T138_G0.5960.30
207_E216_I0.5950.30
35_L163_Y0.5890.30
44_G169_F0.5880.30
40_F186_V0.5850.29
166_F189_N0.5830.29
126_G130_I0.5820.29
183_T239_S0.5800.29
139_A202_W0.5800.29
82_V142_K0.5800.29
31_A100_L0.5780.29
70_Y73_M0.5780.29
59_T161_I0.5770.29
86_G190_V0.5770.29
38_L241_A0.5760.29
126_G148_F0.5760.29
38_L226_V0.5720.29
175_S223_V0.5710.28
107_L121_I0.5700.28
135_G199_P0.5670.28
71_L75_L0.5650.28
197_A200_V0.5650.28
151_W154_S0.5640.28
102_T228_A0.5640.28
171_S179_E0.5640.28
110_L196_S0.5630.28
69_M130_I0.5620.28
104_P228_A0.5580.28
133_G185_K0.5570.28
128_D228_A0.5570.28
78_G89_N0.5530.27
191_T232_F0.5510.27
180_V223_V0.5510.27
120_T164_V0.5500.27
152_A209_A0.5480.27
161_I232_F0.5480.27
69_M114_V0.5480.27
37_T67_F0.5450.27
189_N194_L0.5440.27
110_L190_V0.5430.27
134_T173_A0.5410.26
118_Q126_G0.5410.26
152_A155_T0.5400.26
159_L196_S0.5400.26
68_T75_L0.5360.26
207_E210_G0.5350.26
25_W31_A0.5350.26
124_L169_F0.5350.26
100_L219_L0.5320.26
76_G141_T0.5320.26
75_L207_E0.5310.26
160_Y165_L0.5300.26
38_L48_S0.5290.26
36_G231_G0.5280.26
83_P86_G0.5270.26
128_D229_K0.5260.25
42_V122_L0.5260.25
170_T174_E0.5250.25
87_E100_L0.5230.25
148_F208_G0.5200.25
206_S221_F0.5190.25
119_G216_I0.5190.25
93_W202_W0.5180.25
128_D161_I0.5180.25
120_T166_F0.5170.25
58_I172_K0.5170.25
123_A164_V0.5160.25
234_L238_R0.5150.25
180_V239_S0.5120.25
177_R180_V0.5110.25
148_F151_W0.5100.24
87_E193_V0.5090.24
66_A103_T0.5070.24
98_D228_A0.5050.24
150_W154_S0.5040.24
71_L148_F0.5020.24
150_W233_G0.5000.24
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  
1m0kA 3 0.8473 100 0.19 Contact Map
4qi1A 3 0.8664 100 0.211 Contact Map
3wqjA 3 0.8893 100 0.214 Contact Map
4l35A 3 0.9084 100 0.218 Contact Map
4fbzA 3 0.9046 100 0.221 Contact Map
3wt9A 1 0.8855 100 0.223 Contact Map
3am6A 3 0.855 100 0.24 Contact Map
3qapA 1 0.8359 100 0.248 Contact Map
1xioA 2 0.813 100 0.25 Contact Map
3ddlA 2 0.9084 100 0.264 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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