GREMLIN Database
YRBG - UPF0702 transmembrane protein YrbG
UniProt: O32050 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 218 (209)
Sequences: 1744 (1429)
Seq/√Len: 98.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
186_S189_K7.1921.00
170_T180_R7.0571.00
132_D152_S4.1571.00
95_T107_A3.7271.00
127_I148_K3.4591.00
192_Y198_I3.4531.00
86_V90_L3.2311.00
27_K95_T3.2301.00
129_R132_D2.7711.00
88_Q93_K2.7241.00
192_Y212_E2.5511.00
104_D107_A2.4831.00
99_K104_D2.3201.00
168_I195_P2.3101.00
95_T111_Q2.3071.00
122_L133_V2.2451.00
178_K182_W2.2051.00
124_E143_K2.1631.00
168_I183_L2.1211.00
127_I133_V2.0061.00
100_Y134_S2.0041.00
163_I201_C1.9751.00
21_I70_M1.9681.00
132_D148_K1.8741.00
17_V63_I1.8621.00
103_I118_L1.8161.00
122_L146_I1.8061.00
128_D147_V1.7891.00
8_A64_L1.7851.00
187_L192_Y1.7681.00
180_R184_L1.7451.00
98_I118_L1.7441.00
113_Y121_Q1.7101.00
168_I182_W1.7051.00
38_L41_F1.7051.00
198_I201_C1.7041.00
173_L182_W1.6581.00
98_I130_V1.6221.00
162_L203_F1.6021.00
197_D212_E1.5861.00
201_C210_I1.5731.00
181_K185_E1.5681.00
190_H210_I1.5191.00
29_E41_F1.5021.00
97_I138_L1.4971.00
133_V146_I1.4351.00
38_L43_M1.4071.00
133_V136_A1.3900.99
87_R116_D1.3750.99
134_S149_K1.3380.99
168_I184_L1.3270.99
168_I173_L1.3110.99
8_A68_V1.3040.99
14_L52_I1.2670.99
103_I130_V1.2550.99
187_L191_G1.2530.99
84_R88_Q1.2330.99
187_L198_I1.2230.99
105_E199_S1.2190.99
124_E141_S1.2040.98
4_L64_L1.1800.98
105_E211_D1.1790.98
87_R114_N1.1760.98
153_G156_R1.1730.98
54_N57_D1.1700.98
129_R202_S1.1680.98
107_A110_S1.1610.98
15_Y72_I1.1450.98
79_F86_V1.1350.98
188_Q193_T1.1290.98
160_M172_N1.1250.98
14_L69_L1.1220.98
115_F199_S1.1220.98
108_M118_L1.1130.97
148_K153_G1.1130.97
173_L183_L1.1080.97
187_L208_I1.1050.97
127_I146_I1.1030.97
182_W186_S1.1010.97
11_T68_V1.1010.97
126_S148_K1.0960.97
193_T197_D1.0860.97
64_L68_V1.0770.97
105_E213_K1.0760.97
187_L210_I1.0630.97
43_M46_E1.0610.97
173_L178_K1.0560.97
50_L53_E1.0500.96
201_C208_I1.0440.96
163_I198_I1.0430.96
111_Q138_L1.0380.96
19_L36_L1.0270.96
98_I122_L1.0270.96
162_L208_I1.0260.96
22_F43_M1.0210.96
7_I61_H1.0140.96
102_K211_D1.0140.96
97_I113_Y0.9990.95
76_L90_L0.9980.95
35_I43_M0.9920.95
150_E153_G0.9840.95
41_F45_A0.9800.95
121_Q144_L0.9790.95
163_I195_P0.9750.95
98_I136_A0.9560.94
13_V17_V0.9500.94
29_E38_L0.9430.94
186_S190_H0.9410.94
169_Q172_N0.9380.93
181_K184_L0.9380.93
52_I69_L0.9370.93
13_V59_L0.9360.93
83_N86_V0.9340.93
161_P164_I0.9330.93
81_L114_N0.9230.93
23_R112_R0.9200.93
190_H208_I0.9090.92
40_V69_L0.8980.92
179_D182_W0.8910.92
97_I108_M0.8870.91
11_T73_Q0.8860.91
113_Y138_L0.8850.91
115_F164_I0.8740.91
97_I124_E0.8710.91
22_F41_F0.8590.90
151_N155_H0.8520.90
103_I108_M0.8500.89
15_Y76_L0.8440.89
114_N117_D0.8430.89
161_P200_F0.8400.89
12_V72_I0.8360.89
171_E174_S0.8230.88
113_Y117_D0.8230.88
11_T53_E0.8190.88
31_G45_A0.8170.88
20_V89_L0.8150.87
47_I66_M0.8130.87
138_L144_L0.8110.87
13_V57_D0.8080.87
35_I41_F0.8030.87
30_I33_L0.8000.86
19_L45_A0.7920.86
50_L54_N0.7850.85
22_F35_I0.7830.85
125_N143_K0.7830.85
46_E50_L0.7820.85
184_L188_Q0.7720.84
27_K111_Q0.7700.84
22_F38_L0.7690.84
134_S150_E0.7640.84
85_K88_Q0.7600.84
173_L180_R0.7600.84
187_L195_P0.7570.83
75_T79_F0.7550.83
94_P135_F0.7520.83
29_E33_L0.7460.82
63_I67_L0.7450.82
5_L9_F0.7440.82
94_P137_I0.7430.82
162_L183_L0.7420.82
51_A62_T0.7420.82
181_K193_T0.7420.82
17_V64_L0.7350.81
78_Y82_K0.7340.81
32_E42_I0.7330.81
120_V140_P0.7290.81
48_A58_H0.7270.81
34_S37_D0.7250.81
71_I174_S0.7250.81
45_A73_Q0.7190.80
96_I137_I0.7160.80
97_I136_A0.7120.79
25_M74_V0.7120.79
28_R73_Q0.7090.79
46_E53_E0.7080.79
183_L186_S0.7060.79
49_V52_I0.7050.79
23_R39_V0.7040.79
52_I58_H0.7030.78
177_S182_W0.7010.78
181_K207_E0.7000.78
19_L23_R0.6990.78
45_A50_L0.6980.78
52_I73_Q0.6960.78
19_L72_I0.6960.78
42_I45_A0.6950.78
203_F207_E0.6940.78
25_M77_A0.6920.77
162_L176_I0.6900.77
45_A53_E0.6880.77
70_M74_V0.6870.77
4_L7_I0.6860.77
32_E38_L0.6820.76
40_V73_Q0.6810.76
16_F72_I0.6810.76
19_L90_L0.6780.76
170_T196_S0.6740.76
23_R38_L0.6730.75
38_L42_I0.6700.75
94_P158_L0.6660.75
81_L116_D0.6650.75
21_I66_M0.6620.74
184_L195_P0.6570.74
137_I158_L0.6570.74
192_Y195_P0.6530.73
37_D111_Q0.6500.73
170_T174_S0.6500.73
16_F24_F0.6490.73
4_L68_V0.6450.72
171_E175_R0.6440.72
98_I133_V0.6420.72
116_D164_I0.6400.72
79_F174_S0.6400.72
26_G42_I0.6390.72
99_K175_R0.6380.72
136_A163_I0.6370.71
35_I40_V0.6310.71
177_S180_R0.6290.70
97_I111_Q0.6280.70
33_L121_Q0.6250.70
91_D117_D0.6230.70
35_I38_L0.6220.70
118_L136_A0.6220.70
31_G77_A0.6210.69
29_E44_M0.6180.69
40_V46_E0.6180.69
15_Y23_R0.6180.69
174_S188_Q0.6150.69
47_I141_S0.6150.69
71_I75_T0.6140.69
132_D149_K0.6050.67
84_R169_Q0.5980.67
97_I118_L0.5960.66
31_G73_Q0.5950.66
29_E37_D0.5950.66
7_I176_I0.5930.66
39_V92_G0.5930.66
84_R207_E0.5910.66
44_M49_V0.5900.66
33_L113_Y0.5900.66
74_V112_R0.5860.65
33_L91_D0.5850.65
53_E73_Q0.5850.65
43_M53_E0.5850.65
97_I127_I0.5820.64
178_K206_G0.5800.64
31_G35_I0.5780.64
14_L49_V0.5770.64
185_E191_G0.5760.64
46_E65_P0.5760.64
96_I148_K0.5760.64
106_E206_G0.5750.64
30_I47_I0.5740.63
14_L51_A0.5730.63
48_A102_K0.5710.63
80_S86_V0.5690.63
58_H61_H0.5690.63
190_H207_E0.5670.62
49_V53_E0.5660.62
115_F200_F0.5650.62
69_L202_S0.5640.62
77_A141_S0.5640.62
84_R167_F0.5640.62
67_L70_M0.5630.62
28_R31_G0.5600.62
14_L35_I0.5580.61
158_L169_Q0.5570.61
17_V67_L0.5540.61
24_F74_V0.5540.61
167_F199_S0.5530.61
18_I35_I0.5500.60
32_E41_F0.5500.60
125_N206_G0.5490.60
41_F50_L0.5430.59
69_L114_N0.5430.59
82_K110_S0.5410.59
186_S208_I0.5400.59
29_E117_D0.5390.59
18_I36_L0.5380.58
99_K102_K0.5370.58
40_V50_L0.5360.58
130_V200_F0.5350.58
44_M118_L0.5320.58
40_V77_A0.5320.58
54_N77_A0.5320.58
103_I183_L0.5300.57
27_K34_S0.5290.57
70_M121_Q0.5290.57
41_F44_M0.5280.57
22_F147_V0.5270.57
191_G206_G0.5240.57
118_L140_P0.5230.56
150_E155_H0.5210.56
23_R140_P0.5210.56
10_R51_A0.5190.56
162_L182_W0.5180.56
71_I175_R0.5180.56
18_I21_I0.5160.55
180_R183_L0.5160.55
59_L124_E0.5160.55
170_T184_L0.5150.55
38_L50_L0.5140.55
164_I200_F0.5130.55
74_V103_I0.5120.55
32_E143_K0.5110.55
84_R116_D0.5110.55
106_E192_Y0.5110.55
6_T130_V0.5100.55
130_V152_S0.5080.54
46_E49_V0.5070.54
16_F20_V0.5050.54
171_E196_S0.5040.54
23_R62_T0.5030.54
25_M137_I0.5000.53
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  
3c6fA 4 0.5734 100 0.416 Contact Map
4b4aA 1 0.344 25.2 0.954 Contact Map
1tr8A 4 0.3303 8 0.963 Contact Map
3d6wA 3 0.1881 6.8 0.964 Contact Map
3iyzA 3 0.3578 5.7 0.965 Contact Map
1t44G 1 0.2156 5.3 0.966 Contact Map
4hvzA 5 0.3532 5.1 0.966 Contact Map
4i16A 1 0.3716 4.4 0.967 Contact Map
1whzA 1 0.3119 4.3 0.967 Contact Map
4pk1A 1 0.5872 4.3 0.967 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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