GREMLIN Database
YDFS - UPF0702 transmembrane protein YdfS
UniProt: P96697 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 235 (221)
Sequences: 1709 (1380)
Seq/√Len: 92.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
197_E200_K7.2191.00
181_E191_E7.0201.00
131_E151_F4.0501.00
94_T106_N3.7691.00
203_I208_T3.5371.00
126_I147_R3.5041.00
154_V159_L3.3291.00
26_K94_T3.2191.00
85_L89_F3.1051.00
87_K92_D2.7971.00
128_N131_E2.6371.00
203_I223_Q2.4971.00
103_L106_N2.4691.00
94_T110_M2.4501.00
151_F157_Q2.3161.00
189_L193_W2.2971.00
179_I205_V2.2771.00
98_Q103_L2.2501.00
179_I194_L2.2111.00
16_L62_A2.1821.00
156_K163_V2.1571.00
123_E142_Q2.1071.00
126_I132_V2.0891.00
174_I211_A2.0171.00
121_L132_V1.9401.00
99_N133_L1.9371.00
20_A69_V1.8901.00
7_V63_I1.8691.00
214_L218_D1.8551.00
198_L203_I1.8301.00
127_F146_L1.8271.00
102_I117_L1.7981.00
97_I129_I1.7951.00
208_T211_A1.7391.00
121_L145_V1.7241.00
97_I117_L1.7201.00
191_E195_L1.7151.00
131_E147_R1.6911.00
112_Y120_Q1.6891.00
37_F40_A1.6331.00
184_L193_W1.6001.00
192_S196_E1.5801.00
201_R221_V1.5461.00
156_K161_I1.5381.00
198_L208_T1.5281.00
184_L194_L1.5261.00
28_T40_A1.5211.00
179_I193_W1.5141.00
173_L213_L1.5111.00
96_L137_L1.4871.00
132_V145_V1.4691.00
132_V135_A1.4661.00
150_Q157_Q1.4631.00
211_A221_V1.4521.00
207_E223_Q1.4380.99
179_I195_L1.4310.99
154_V161_I1.4160.99
86_R115_D1.4150.99
37_F42_T1.3380.99
7_V67_I1.3060.99
13_S51_A1.3040.99
179_I184_L1.2920.99
133_L148_K1.2770.99
104_E209_V1.2750.99
128_N212_V1.2550.99
193_W197_E1.2360.98
106_N109_K1.2330.98
83_R87_K1.2320.98
198_L202_D1.2220.98
123_E140_N1.2160.98
78_L85_L1.1660.98
86_R113_T1.1650.98
104_E222_D1.1610.98
173_L219_I1.1440.97
13_S68_F1.1420.97
171_I183_N1.1270.97
174_I208_T1.1160.97
63_I67_I1.1150.97
199_R204_K1.0840.96
114_L209_V1.0820.96
149_P156_K1.0810.96
12_A58_P1.0810.96
184_L189_L1.0740.96
42_T45_A1.0720.96
172_E175_M1.0700.96
102_I129_I1.0680.96
107_M117_L1.0670.96
126_I145_V1.0620.96
10_T67_I1.0620.96
147_R152_R1.0440.96
14_F71_T1.0280.95
211_A219_I1.0120.95
53_N56_I1.0110.95
197_E201_R1.0090.95
21_E42_T0.9950.94
153_H156_K0.9910.94
75_I89_F0.9900.94
204_K207_E0.9890.94
101_K222_D0.9890.94
104_E224_Y0.9880.94
110_M137_L0.9870.94
174_I205_V0.9780.94
49_G52_Y0.9720.94
74_L78_L0.9690.93
120_Q143_L0.9620.93
159_L162_A0.9560.93
114_L175_M0.9540.93
96_L112_Y0.9540.93
51_A68_F0.9500.93
6_V60_N0.9500.93
40_A44_G0.9440.92
154_V158_D0.9440.92
62_A66_S0.9440.92
39_A68_F0.9340.92
125_E147_R0.9310.92
34_I42_T0.9280.92
28_T37_F0.9170.91
155_T159_L0.9160.91
4_L8_I0.9040.91
12_A16_L0.9020.91
152_R167_Q0.8910.90
10_T52_Y0.8830.90
18_L35_F0.8790.90
198_L219_I0.8770.89
10_T72_I0.8730.89
190_T193_W0.8710.89
18_L44_G0.8680.89
80_I113_T0.8660.89
112_Y116_Y0.8530.88
192_S195_L0.8530.88
96_L107_M0.8490.88
11_V71_T0.8490.88
173_L194_L0.8480.88
198_L221_V0.8470.88
172_E210_Y0.8460.88
15_G71_T0.8420.87
14_F75_I0.8360.87
149_P152_R0.8340.87
195_L199_R0.8320.87
19_I88_F0.8300.87
46_I65_F0.8290.87
93_P136_I0.8290.87
97_I135_A0.8290.87
112_Y137_L0.8220.86
96_L123_E0.8220.86
22_R111_R0.8180.86
180_I183_N0.8130.86
182_N185_K0.8080.85
39_A72_I0.8060.85
108_R157_Q0.8060.85
93_P134_F0.8040.85
29_I32_M0.7980.84
47_A57_K0.7870.84
21_E40_A0.7800.83
82_N85_L0.7780.83
26_K110_M0.7780.83
45_A49_G0.7720.82
147_R153_H0.7700.82
133_L149_P0.7560.81
124_K142_Q0.7560.81
97_I121_L0.7510.81
49_G53_N0.7500.81
181_E185_K0.7490.81
213_L218_D0.7490.81
95_V136_I0.7480.80
34_I40_A0.7470.80
96_L117_L0.7460.80
150_Q163_V0.7420.80
21_E37_F0.7390.80
119_Q139_T0.7360.79
98_Q186_Q0.7270.79
50_L61_M0.7220.78
51_A72_I0.7210.78
69_V73_F0.7210.78
33_T36_D0.7200.78
24_L73_F0.7170.78
201_R219_I0.7170.78
156_K164_N0.7150.77
198_L205_V0.7140.77
136_I169_L0.7130.77
27_Q30_S0.7100.77
24_L76_S0.7070.77
176_D224_Y0.7020.76
18_L22_R0.6980.76
31_Q37_F0.6950.75
28_T32_M0.6910.75
137_L143_L0.6890.75
21_E34_I0.6880.75
31_Q41_I0.6880.75
45_A52_Y0.6870.75
43_L48_A0.6860.74
20_A65_F0.6850.74
36_D110_M0.6820.74
84_K87_K0.6820.74
25_G41_I0.6820.74
194_L197_E0.6800.74
51_A57_K0.6760.73
22_R38_I0.6750.73
24_L39_A0.6710.73
14_F22_R0.6710.73
115_D175_M0.6640.72
128_N214_L0.6600.72
102_I107_M0.6580.71
154_V164_N0.6580.71
39_A76_S0.6570.71
93_P169_L0.6560.71
44_G72_I0.6560.71
45_A64_S0.6550.71
34_I39_A0.6550.71
22_R139_T0.6540.71
27_Q72_I0.6520.71
22_R37_F0.6520.71
156_K160_M0.6500.70
30_S34_I0.6480.70
6_V187_N0.6470.70
68_F212_V0.6460.70
13_S48_A0.6440.70
19_I162_A0.6410.69
30_S72_I0.6390.69
16_L63_I0.6350.69
32_M120_Q0.6310.68
150_Q166_E0.6290.68
113_T116_Y0.6290.68
41_I44_G0.6280.68
153_H163_V0.6270.68
15_G19_I0.6230.67
38_I91_G0.6230.67
39_A45_A0.6220.67
44_G52_Y0.6180.67
163_V166_E0.6140.66
90_A116_Y0.6090.65
98_Q101_K0.6070.65
48_A52_Y0.6070.65
70_L185_K0.6010.64
135_A174_I0.6000.64
30_S44_G0.5990.64
44_G49_G0.5980.64
40_A43_L0.5980.64
18_L89_F0.5970.64
34_I37_F0.5950.64
42_T52_Y0.5950.64
32_M90_A0.5950.64
83_R180_I0.5930.63
195_L205_V0.5930.63
181_E206_K0.5910.63
83_R178_E0.5900.63
173_L187_N0.5900.63
117_L135_A0.5840.62
52_Y72_I0.5820.62
68_F72_I0.5820.62
40_A49_G0.5800.62
32_M112_Y0.5780.61
77_F81_K0.5770.61
30_S76_S0.5760.61
105_S108_R0.5760.61
83_R115_D0.5760.61
33_T116_Y0.5750.61
184_L191_E0.5730.61
18_L71_T0.5730.61
73_F111_R0.5730.61
131_E148_K0.5720.61
192_S204_K0.5670.60
117_L139_T0.5670.60
129_I210_Y0.5670.60
43_L117_L0.5660.60
45_A90_A0.5660.60
80_I115_D0.5660.60
68_F76_S0.5650.60
17_L20_A0.5630.59
173_L193_W0.5600.59
95_V147_R0.5580.59
57_K60_N0.5570.59
182_N186_Q0.5570.59
78_L185_K0.5560.58
69_V120_Q0.5550.58
4_L125_E0.5540.58
96_L135_A0.5540.58
53_N90_A0.5520.58
190_T204_K0.5500.58
46_I51_A0.5500.58
77_F111_R0.5490.58
155_T160_M0.5490.58
76_S140_N0.5480.57
10_T39_A0.5470.57
28_T43_L0.5460.57
114_L210_Y0.5420.57
28_T36_D0.5420.57
23_I73_F0.5420.57
33_T90_A0.5400.56
149_P166_E0.5390.56
7_V164_N0.5380.56
70_L74_L0.5380.56
37_F49_G0.5380.56
79_S85_L0.5340.55
74_L192_S0.5340.55
169_L180_I0.5330.55
53_N76_S0.5320.55
27_Q64_S0.5320.55
13_S34_I0.5320.55
12_A56_I0.5310.55
37_F41_I0.5290.55
154_V157_Q0.5290.55
45_A72_I0.5290.55
15_G23_I0.5270.55
158_D161_I0.5270.55
23_I162_A0.5270.55
188_R191_E0.5260.54
13_S58_P0.5260.54
13_S50_L0.5250.54
194_L208_T0.5250.54
99_N163_V0.5240.54
5_E129_I0.5230.54
31_Q40_A0.5220.54
40_A50_L0.5220.54
45_A55_S0.5180.53
125_E153_H0.5140.53
48_A51_A0.5130.53
39_A49_G0.5130.53
187_N213_L0.5120.52
24_L28_T0.5110.52
46_I140_N0.5070.52
188_R193_W0.5060.52
128_N151_F0.5060.52
175_M210_Y0.5050.51
70_L192_S0.5040.51
83_R218_D0.5040.51
28_T116_Y0.5030.51
17_L35_F0.5020.51
112_Y212_V0.5010.51
47_A101_K0.5010.51
32_M118_N0.5010.51
193_W208_T0.5000.51
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 0.583 100 0.39 Contact Map
4dynA 3 0.3489 12.8 0.963 Contact Map
2jo7A 1 0.4936 10.3 0.964 Contact Map
2pwjA 2 0.6085 7.6 0.966 Contact Map
4b4aA 1 0.3149 7.6 0.966 Contact Map
2kncA 1 0.2298 5.5 0.968 Contact Map
2x8xX 1 0.6596 5.5 0.968 Contact Map
3wkvA 3 0.417 5.5 0.969 Contact Map
3eviA 2 0.4638 5.3 0.969 Contact Map
4ltoA 3 0.4979 4.9 0.969 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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