GREMLIN Database
YPBE - Uncharacterized protein YpbE
UniProt: P50731 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 240 (216)
Sequences: 262 (260)
Seq/√Len: 17.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
191_H197_E4.0141.00
191_H206_Y3.9841.00
217_R224_G3.7031.00
201_R205_K3.5431.00
216_I235_I3.3280.99
216_I236_P3.3100.99
212_G235_I2.8350.98
217_R222_L2.6440.97
37_R41_K2.5860.97
25_D29_D2.5700.97
211_T216_I2.4900.96
197_E225_N2.4010.95
198_T202_I2.3750.95
198_T201_R2.2590.93
222_L233_L2.2310.93
152_D155_N2.1950.92
57_L65_F2.1780.92
219_Y234_D2.1370.91
201_R204_M2.0900.90
212_G215_K1.9780.87
165_S169_S1.8940.85
197_E214_E1.8760.84
61_L65_F1.8670.84
219_Y236_P1.8560.84
212_G216_I1.8450.83
212_G236_P1.8290.83
34_L37_R1.7240.79
217_R233_L1.7120.78
216_I219_Y1.7070.78
191_H202_I1.6940.77
199_L211_T1.6820.77
69_P219_Y1.6570.76
212_G219_Y1.6540.76
210_R213_E1.6470.75
204_M212_G1.5630.71
198_T204_M1.5460.70
39_S42_N1.5420.70
219_Y235_I1.5370.70
164_A167_S1.5270.69
59_T63_V1.5160.69
191_H216_I1.5040.68
206_Y235_I1.4990.68
228_Y231_Q1.4880.67
198_T211_T1.4710.66
217_R225_N1.4640.66
206_Y211_T1.4520.65
197_E232_V1.4490.65
206_Y215_K1.4400.65
190_K203_S1.4370.65
69_P75_T1.4310.64
198_T210_R1.4100.63
136_E141_D1.4080.63
199_L216_I1.3830.62
27_Y30_D1.3830.62
71_I223_N1.3630.60
102_E107_S1.3460.59
34_L40_V1.3450.59
135_K143_K1.3350.59
64_I67_F1.3290.58
152_D160_T1.3090.57
161_A171_V1.3090.57
220_N230_G1.3040.57
199_L224_G1.2940.56
53_T65_F1.2790.55
191_H235_I1.2750.55
127_K149_E1.2380.53
213_E224_G1.2350.53
166_S169_S1.2250.52
193_V233_L1.2230.52
17_E21_A1.1990.50
134_P138_T1.1960.50
109_D117_K1.1880.50
193_V202_I1.1770.49
155_N158_E1.1770.49
213_E234_D1.1640.48
205_K222_L1.1590.48
213_E227_V1.1530.48
38_Q41_K1.1300.46
32_E40_V1.1300.46
59_T192_T1.1250.46
210_R231_Q1.1170.46
37_R40_V1.1010.45
113_T121_L1.0940.44
210_R229_T1.0930.44
135_K150_K1.0900.44
142_K155_N1.0890.44
216_I225_N1.0880.44
32_E39_S1.0850.44
71_I75_T1.0840.44
165_S168_Q1.0810.43
56_P232_V1.0760.43
200_Y223_N1.0660.42
23_L27_Y1.0650.42
130_E173_Q1.0610.42
61_L79_L1.0590.42
54_K236_P1.0580.42
126_K135_K1.0560.42
58_F190_K1.0530.42
190_K234_D1.0490.41
127_K143_K1.0430.41
59_T212_G1.0410.41
197_E206_Y1.0320.40
131_D136_E1.0240.40
142_K147_V1.0230.40
19_Q22_A1.0210.40
123_K132_S1.0120.39
164_A174_Q1.0090.39
73_L235_I1.0070.39
72_V78_Y1.0060.39
197_E201_R0.9990.39
66_V72_V0.9830.38
200_Y204_M0.9810.37
215_K236_P0.9790.37
29_D216_I0.9770.37
92_V96_S0.9700.37
210_R234_D0.9680.37
41_K44_R0.9600.36
38_Q45_E0.9550.36
74_V82_H0.9500.36
210_R236_P0.9470.36
24_A27_Y0.9420.35
191_H211_T0.9400.35
198_T212_G0.9400.35
65_F198_T0.9370.35
34_L38_Q0.9330.35
16_Y27_Y0.9330.35
38_Q42_N0.9320.35
56_P67_F0.9240.34
211_T236_P0.9190.34
69_P215_K0.9190.34
120_A136_E0.9170.34
50_Q66_V0.9150.34
169_S176_Q0.9110.34
199_L225_N0.9100.34
120_A161_A0.9090.33
176_Q184_V0.9090.33
129_P145_T0.9080.33
56_P61_L0.9060.33
204_M213_E0.9050.33
64_I218_A0.9000.33
131_D137_Q0.8960.33
215_K219_Y0.8920.33
115_D149_E0.8890.32
100_K115_D0.8880.32
136_E151_E0.8820.32
38_Q190_K0.8800.32
54_K68_V0.8750.32
211_T215_K0.8740.32
216_I233_L0.8730.32
59_T231_Q0.8730.32
30_D33_S0.8660.31
210_R219_Y0.8610.31
178_A182_Q0.8570.31
23_L26_D0.8570.31
23_L33_S0.8560.31
164_A173_Q0.8510.30
206_Y229_T0.8470.30
136_E154_P0.8470.30
206_Y212_G0.8440.30
58_F74_V0.8360.30
59_T236_P0.8340.30
191_H212_G0.8330.29
179_E182_Q0.8270.29
39_S233_L0.8210.29
59_T234_D0.8190.29
97_S100_K0.8190.29
83_P227_V0.8180.29
194_Q205_K0.8170.29
18_D25_D0.8160.29
55_T64_I0.8150.29
203_S234_D0.8070.28
136_E139_A0.8060.28
202_I211_T0.7930.27
213_E228_Y0.7930.27
95_D98_Q0.7920.27
159_A172_Q0.7890.27
126_K136_E0.7870.27
166_S179_E0.7840.27
134_P156_K0.7830.27
211_T235_I0.7800.27
132_S141_D0.7790.27
199_L222_L0.7750.27
125_S157_E0.7690.26
51_G65_F0.7670.26
191_H219_Y0.7670.26
130_E156_K0.7640.26
199_L202_I0.7600.26
56_P227_V0.7590.26
61_L66_V0.7500.25
133_K146_A0.7490.25
73_L236_P0.7460.25
196_K229_T0.7420.25
206_Y216_I0.7390.25
122_Q133_K0.7350.25
129_P140_A0.7340.25
54_K216_I0.7310.25
111_N175_E0.7280.24
55_T233_L0.7260.24
113_T167_S0.7260.24
77_F81_S0.7180.24
87_D108_E0.7170.24
120_A137_Q0.7160.24
98_Q101_Y0.7160.24
25_D28_V0.7120.24
147_V159_A0.7100.24
150_K156_K0.7060.23
53_T68_V0.7040.23
138_T156_K0.7030.23
158_E165_S0.6990.23
123_K135_K0.6940.23
145_T148_A0.6910.23
170_T174_Q0.6910.23
157_E173_Q0.6890.23
33_S37_R0.6880.23
108_E176_Q0.6870.23
50_Q62_A0.6840.23
171_V181_V0.6810.22
84_D87_D0.6800.22
227_V231_Q0.6750.22
29_D32_E0.6730.22
130_E192_T0.6690.22
108_E136_E0.6680.22
130_E135_K0.6670.22
162_A177_P0.6670.22
189_V205_K0.6670.22
99_S117_K0.6670.22
172_Q183_N0.6650.22
198_T236_P0.6600.21
227_V233_L0.6600.21
24_A29_D0.6570.21
36_T41_K0.6570.21
168_Q171_V0.6560.21
41_K45_E0.6550.21
172_Q176_Q0.6530.21
125_S155_N0.6520.21
130_E138_T0.6490.21
96_S165_S0.6460.21
29_D42_N0.6440.21
118_E151_E0.6420.21
119_T128_E0.6390.21
52_K55_T0.6390.21
48_K186_N0.6340.20
124_E130_E0.6330.20
20_N33_S0.6320.20
70_V202_I0.6290.20
24_A34_L0.6250.20
32_E38_Q0.6240.20
149_E155_N0.6230.20
124_E137_Q0.6230.20
68_V83_P0.6220.20
128_E131_D0.6210.20
90_E96_S0.6200.20
205_K212_G0.6190.20
67_F233_L0.6190.20
191_H236_P0.6170.20
191_H234_D0.6160.20
90_E95_D0.6070.19
63_V70_V0.6030.19
73_L225_N0.6000.19
197_E202_I0.5970.19
76_L213_E0.5950.19
198_T206_Y0.5940.19
129_P175_E0.5930.19
211_T214_E0.5920.19
174_Q182_Q0.5890.19
152_D158_E0.5860.19
200_Y213_E0.5840.19
193_V230_G0.5820.18
126_K165_S0.5810.18
119_T136_E0.5800.18
70_V76_L0.5800.18
39_S214_E0.5790.18
157_E178_A0.5780.18
94_I99_S0.5770.18
35_P191_H0.5760.18
49_K215_K0.5750.18
39_S45_E0.5730.18
48_K56_P0.5720.18
211_T231_Q0.5700.18
200_Y226_D0.5700.18
218_A221_H0.5690.18
227_V234_D0.5670.18
73_L78_Y0.5650.18
29_D40_V0.5640.18
204_M229_T0.5640.18
123_K178_A0.5610.18
192_T236_P0.5600.18
25_D40_V0.5590.18
157_E163_A0.5590.18
219_Y225_N0.5570.18
193_V220_N0.5560.18
89_Y93_F0.5550.17
25_D31_G0.5530.17
55_T68_V0.5500.17
204_M210_R0.5490.17
32_E41_K0.5470.17
128_E156_K0.5470.17
58_F67_F0.5440.17
59_T213_E0.5440.17
111_N115_D0.5400.17
225_N229_T0.5400.17
63_V74_V0.5390.17
117_K126_K0.5340.17
122_Q125_S0.5340.17
57_L61_L0.5290.17
122_Q137_Q0.5260.16
200_Y227_V0.5240.16
89_Y92_V0.5220.16
132_S137_Q0.5210.16
193_V223_N0.5210.16
79_L228_Y0.5210.16
136_E140_A0.5200.16
154_P175_E0.5180.16
206_Y234_D0.5180.16
187_R200_Y0.5160.16
25_D216_I0.5160.16
191_H198_T0.5140.16
55_T59_T0.5120.16
53_T57_L0.5070.16
72_V219_Y0.5070.16
139_A149_E0.5060.16
59_T219_Y0.5020.16
25_D196_K0.5020.16
127_K137_Q0.5000.16
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  
2mkxA 1 0.2125 99.4 0.727 Contact Map
2djpA 1 0.2667 99.4 0.73 Contact Map
2mpwA 1 0.3042 99.2 0.747 Contact Map
2ltfA 1 0.2167 99.2 0.752 Contact Map
1e0gA 1 0.2 99.1 0.76 Contact Map
4pxvA 1 0.1958 99.1 0.763 Contact Map
4uz3A 1 0.2083 99.1 0.766 Contact Map
4b8vA 2 0.2292 98.9 0.783 Contact Map
2l9yA 1 0.4625 98.7 0.794 Contact Map
4lzhA 1 0.2792 98.7 0.798 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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