GREMLIN Database
YPBB - Uncharacterized protein YpbB
UniProt: P50728 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 352 (328)
Sequences: 394 (324)
Seq/√Len: 17.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
129_V140_Y7.6841.00
87_T90_G4.3101.00
327_I340_I3.7891.00
312_I340_I3.6021.00
308_D339_Q3.3461.00
121_K146_D3.1390.99
268_F272_R3.0070.99
312_I327_I3.0010.99
304_V343_A2.9650.99
340_I343_A2.8550.98
324_I337_Y2.6700.97
12_D16_K2.5770.97
277_R287_H2.4130.95
86_V90_G2.4120.95
131_S202_T2.3470.95
270_I288_I2.2560.93
324_I328_R2.2430.93
286_D337_Y2.1850.92
340_I344_L2.1820.92
324_I340_I2.1560.92
226_H229_I2.1070.91
260_T287_H2.0360.89
316_A344_L1.9870.88
283_T324_I1.9620.87
300_I304_V1.9480.87
23_G66_L1.9320.86
289_V324_I1.9210.86
150_L202_T1.9210.86
133_K157_L1.9130.86
132_H286_D1.8820.85
45_F157_L1.8790.85
69_L74_Y1.8650.84
299_M343_A1.8590.84
224_S229_I1.8300.83
119_L124_S1.8240.83
200_G205_Q1.8080.82
131_S142_P1.8020.82
125_L283_T1.7790.81
128_Q205_Q1.7740.81
240_L243_L1.7350.79
279_L287_H1.7130.79
301_N309_Q1.6980.78
33_K36_S1.6970.78
131_S140_Y1.6900.78
37_Q40_Q1.6800.77
286_D289_V1.6740.77
122_R152_W1.6690.77
283_T337_Y1.6680.77
140_Y292_S1.6630.76
127_V193_L1.6290.75
108_H111_H1.6270.75
128_Q154_K1.6250.75
142_P173_M1.6210.75
123_L192_S1.6210.75
22_S37_Q1.6070.74
293_L345_T1.5910.73
34_R319_M1.5900.73
254_T282_A1.5820.73
69_L228_F1.5790.73
22_S345_T1.5770.72
264_V288_I1.5580.72
40_Q286_D1.5460.71
29_L185_A1.5290.70
10_V14_L1.5140.69
75_L89_S1.4960.68
22_S293_L1.4940.68
205_Q286_D1.4810.68
280_K290_E1.4750.67
256_S277_R1.4730.67
178_L189_F1.4610.66
328_R340_I1.4550.66
299_M302_D1.4420.65
163_H288_I1.4350.65
332_E335_F1.4330.65
324_I345_T1.4300.65
260_T273_I1.4250.64
39_I44_L1.4180.64
150_L347_Q1.4150.64
325_K337_Y1.4110.64
35_S40_Q1.4100.64
309_Q312_I1.4080.63
267_G273_I1.4040.63
140_Y324_I1.4010.63
128_Q286_D1.3950.63
53_M202_T1.3830.62
28_H33_K1.3640.61
133_K163_H1.3610.61
125_L142_P1.3440.60
202_T253_L1.3260.59
283_T286_D1.3200.58
125_L128_Q1.3150.58
86_V261_W1.3150.58
127_V131_S1.3120.58
237_D240_L1.3090.58
292_S298_F1.3080.58
286_D324_I1.2990.57
69_L87_T1.2980.57
21_R37_Q1.2950.57
109_G273_I1.2940.57
220_M263_M1.2910.57
206_L217_V1.2860.56
17_I25_A1.2850.56
238_A241_K1.2840.56
156_Y159_R1.2820.56
36_S51_F1.2820.56
328_R339_Q1.2800.56
286_D298_F1.2760.56
142_P290_E1.2590.55
128_Q200_G1.2550.54
40_Q327_I1.2470.54
256_S260_T1.2420.54
150_L157_L1.2390.53
122_R338_F1.2350.53
260_T277_R1.2340.53
34_R290_E1.2310.53
31_K210_L1.2280.53
21_R38_T1.2260.53
35_S338_F1.2250.53
109_G192_S1.2190.52
192_S303_Y1.2130.52
51_F193_L1.2080.52
61_D64_A1.2050.51
205_Q292_S1.1900.50
202_T206_L1.1890.50
316_A326_Q1.1880.50
35_S279_L1.1860.50
25_A341_R1.1850.50
216_Y284_I1.1810.50
241_K249_L1.1750.50
195_S200_G1.1670.49
142_P205_Q1.1630.49
142_P286_D1.1600.49
36_S59_R1.1560.48
44_L303_Y1.1540.48
194_T200_G1.1540.48
128_Q142_P1.1520.48
192_S290_E1.1470.48
57_C342_L1.1460.48
37_Q337_Y1.1330.47
26_V133_K1.1320.47
325_K328_R1.1280.47
304_V309_Q1.1260.47
178_L182_E1.1250.46
36_S120_W1.1250.46
337_Y344_L1.1140.46
152_W243_L1.1130.46
205_Q287_H1.1100.46
186_A189_F1.1090.45
303_Y309_Q1.1090.45
327_I343_A1.1070.45
128_Q140_Y1.1070.45
244_L247_V1.1060.45
133_K140_Y1.1050.45
10_V65_S1.1040.45
283_T328_R1.1030.45
312_I343_A1.1010.45
30_F263_M1.0910.44
89_S327_I1.0880.44
305_S336_S1.0820.44
301_N306_A1.0770.44
280_K292_S1.0730.43
92_A305_S1.0690.43
72_H89_S1.0660.43
337_Y341_R1.0560.42
28_H35_S1.0520.42
96_H271_Q1.0420.41
63_S66_L1.0420.41
112_Y226_H1.0420.41
35_S321_T1.0400.41
57_C195_S1.0390.41
248_H273_I1.0380.41
195_S205_Q1.0360.41
122_R125_L1.0310.41
197_H312_I1.0310.41
266_Q314_E1.0260.40
157_L325_K1.0260.40
62_I75_L1.0260.40
293_L296_P1.0230.40
97_A332_E1.0230.40
66_L88_A1.0200.40
132_H137_S1.0170.40
21_R28_H1.0160.40
299_M304_V1.0160.40
37_Q324_I1.0080.39
285_E336_S1.0070.39
125_L140_Y0.9920.38
109_G254_T0.9910.38
28_H36_S0.9890.38
110_A202_T0.9890.38
289_V337_Y0.9850.38
178_L200_G0.9830.38
31_K59_R0.9820.38
59_R63_S0.9790.38
154_K261_W0.9770.38
142_P283_T0.9760.38
157_L253_L0.9730.37
40_Q337_Y0.9700.37
186_A217_V0.9620.37
186_A190_V0.9530.36
109_G125_L0.9520.36
128_Q283_T0.9490.36
22_S35_S0.9430.36
51_F300_I0.9430.36
305_S308_D0.9350.35
27_F143_V0.9300.35
140_Y286_D0.9210.34
340_I345_T0.9190.34
261_W347_Q0.9150.34
337_Y340_I0.9120.34
21_R25_A0.9120.34
205_Q290_E0.9060.34
286_D290_E0.8990.33
37_Q344_L0.8980.33
124_S144_T0.8930.33
229_I244_L0.8890.33
19_G30_F0.8880.33
143_V194_T0.8880.33
37_Q286_D0.8870.33
172_A270_I0.8870.33
128_Q131_S0.8850.32
38_T122_R0.8850.32
112_Y194_T0.8850.32
254_T329_D0.8810.32
28_H338_F0.8640.31
162_D228_F0.8610.31
68_K73_S0.8580.31
59_R129_V0.8580.31
242_D334_R0.8480.31
11_L181_I0.8450.30
20_E40_Q0.8380.30
285_E338_F0.8350.30
17_I288_I0.8350.30
287_H341_R0.8330.30
187_Q190_V0.8310.30
84_Y134_Q0.8280.29
337_Y345_T0.8280.29
11_L76_A0.8260.29
204_R225_V0.8250.29
126_L156_Y0.8240.29
236_E281_T0.8240.29
58_S209_T0.8210.29
36_S264_V0.8170.29
143_V303_Y0.8150.29
22_S126_L0.8060.28
52_G289_V0.8060.28
280_K283_T0.8040.28
324_I344_L0.8020.28
140_Y345_T0.8020.28
328_R337_Y0.7980.28
25_A37_Q0.7970.28
109_G122_R0.7940.28
119_L125_L0.7890.28
238_A245_S0.7830.27
84_Y223_A0.7810.27
128_Q132_H0.7810.27
206_L308_D0.7800.27
164_I317_K0.7730.27
131_S195_S0.7710.27
171_F340_I0.7710.27
69_L300_I0.7680.27
183_N267_G0.7650.26
132_H337_Y0.7630.26
279_L284_I0.7610.26
28_H39_I0.7600.26
338_F341_R0.7600.26
157_L202_T0.7520.26
110_A124_S0.7520.26
153_V336_S0.7460.25
69_L206_L0.7440.25
156_Y312_I0.7430.25
130_L270_I0.7430.25
142_P154_K0.7390.25
120_W133_K0.7370.25
256_S265_K0.7360.25
39_I283_T0.7360.25
191_Y206_L0.7340.25
224_S252_A0.7310.25
140_Y205_Q0.7310.25
192_S200_G0.7290.25
34_R37_Q0.7290.25
242_D248_H0.7210.24
256_S287_H0.7190.24
100_E170_L0.7180.24
70_E79_S0.7180.24
80_E93_V0.7110.24
171_F311_Q0.7100.24
23_G175_E0.7090.24
54_A65_S0.7090.24
194_T199_I0.7070.24
33_K298_F0.7060.24
85_K269_P0.7060.24
25_A47_T0.7060.24
264_V304_V0.7000.23
37_Q340_I0.7000.23
120_W157_L0.6980.23
243_L336_S0.6970.23
170_L261_W0.6970.23
134_Q273_I0.6960.23
17_I256_S0.6920.23
21_R338_F0.6910.23
292_S323_K0.6910.23
193_L277_R0.6890.23
17_I319_M0.6880.23
38_T254_T0.6870.23
21_R125_L0.6860.23
133_K151_H0.6830.23
119_L324_I0.6800.23
113_Q186_A0.6790.22
55_A150_L0.6760.22
81_S266_Q0.6750.22
27_F50_Y0.6750.22
27_F31_K0.6730.22
153_V156_Y0.6720.22
51_F282_A0.6720.22
32_G51_F0.6700.22
218_Y244_L0.6670.22
129_V157_L0.6670.22
14_L31_K0.6660.22
39_I254_T0.6660.22
189_F198_R0.6660.22
40_Q285_E0.6660.22
20_E321_T0.6650.22
148_K252_A0.6650.22
205_Q280_K0.6640.22
170_L228_F0.6610.22
257_T289_V0.6600.22
205_Q256_S0.6560.22
27_F33_K0.6550.21
40_Q289_V0.6540.21
223_A283_T0.6530.21
237_D241_K0.6520.21
18_N289_V0.6500.21
24_S36_S0.6500.21
316_A328_R0.6480.21
124_S254_T0.6480.21
270_I282_A0.6470.21
143_V307_E0.6460.21
10_V68_K0.6450.21
203_S217_V0.6420.21
86_V328_R0.6420.21
331_L335_F0.6410.21
215_W224_S0.6400.21
254_T286_D0.6400.21
274_A281_T0.6390.21
33_K343_A0.6380.21
338_F342_L0.6370.21
318_R334_R0.6370.21
308_D335_F0.6370.21
177_H304_V0.6350.21
321_T343_A0.6340.21
52_G216_Y0.6340.21
135_Q244_L0.6330.21
272_R275_E0.6330.21
18_N124_S0.6300.20
143_V252_A0.6290.20
125_L257_T0.6260.20
202_T207_A0.6260.20
312_I344_L0.6250.20
75_L127_V0.6230.20
64_A297_A0.6220.20
269_P284_I0.6190.20
206_L273_I0.6190.20
292_S342_L0.6160.20
155_K158_S0.6140.20
261_W265_K0.6130.20
154_K341_R0.6130.20
55_A86_V0.6110.20
73_S204_R0.6100.20
21_R257_T0.6100.20
321_T344_L0.6080.20
244_L248_H0.6080.20
45_F133_K0.6070.20
220_M233_P0.6050.19
51_F107_C0.6040.19
194_T286_D0.6020.19
129_V244_L0.6010.19
154_K205_Q0.5990.19
20_E45_F0.5980.19
22_S25_A0.5970.19
260_T279_L0.5970.19
144_T255_E0.5960.19
256_S284_I0.5950.19
52_G182_E0.5950.19
75_L296_P0.5950.19
132_H157_L0.5940.19
241_K244_L0.5940.19
213_D305_S0.5930.19
31_K58_S0.5930.19
125_L143_V0.5910.19
44_L243_L0.5910.19
69_L84_Y0.5900.19
178_L295_E0.5890.19
289_V343_A0.5890.19
125_L289_V0.5880.19
144_T150_L0.5880.19
112_Y320_R0.5880.19
125_L254_T0.5860.19
173_M286_D0.5860.19
280_K286_D0.5860.19
25_A144_T0.5850.19
320_R330_G0.5830.19
205_Q260_T0.5820.19
58_S180_K0.5800.19
39_I286_D0.5790.18
116_A119_L0.5780.18
183_N275_E0.5770.18
312_I324_I0.5760.18
289_V341_R0.5750.18
194_T341_R0.5750.18
37_Q289_V0.5750.18
286_D340_I0.5750.18
38_T338_F0.5750.18
210_L327_I0.5730.18
180_K329_D0.5720.18
33_K37_Q0.5720.18
24_S37_Q0.5720.18
123_L240_L0.5720.18
178_L188_I0.5710.18
86_V234_E0.5700.18
76_A137_S0.5690.18
31_K39_I0.5680.18
82_D215_W0.5660.18
128_Q240_L0.5660.18
135_Q346_K0.5650.18
108_H128_Q0.5640.18
11_L94_L0.5630.18
33_K178_L0.5630.18
243_L247_V0.5630.18
181_I198_R0.5630.18
20_E38_T0.5630.18
128_Q143_V0.5620.18
132_H284_I0.5610.18
122_R246_D0.5610.18
186_A288_I0.5600.18
110_A294_H0.5580.18
110_A113_Q0.5580.18
165_E211_K0.5570.18
96_H165_E0.5560.18
93_V96_H0.5520.18
230_H329_D0.5520.18
54_A77_P0.5520.18
33_K199_I0.5510.17
256_S342_L0.5510.17
29_L124_S0.5510.17
123_L128_Q0.5500.17
29_L51_F0.5480.17
15_C79_S0.5480.17
277_R283_T0.5460.17
154_K188_I0.5460.17
213_D253_L0.5450.17
58_S210_L0.5430.17
66_L255_E0.5400.17
140_Y323_K0.5380.17
146_D154_K0.5380.17
254_T283_T0.5360.17
86_V255_E0.5360.17
39_I45_F0.5360.17
66_L235_C0.5350.17
28_H291_I0.5350.17
37_Q125_L0.5340.17
128_Q341_R0.5340.17
140_Y256_S0.5300.17
24_S28_H0.5300.17
191_Y210_L0.5280.17
10_V27_F0.5270.17
38_T345_T0.5270.17
39_I128_Q0.5230.17
327_I335_F0.5230.17
174_L265_K0.5200.16
148_K161_T0.5170.16
51_F338_F0.5160.16
69_L72_H0.5160.16
312_I345_T0.5150.16
35_S38_T0.5150.16
83_T219_I0.5120.16
87_T179_K0.5120.16
140_Y293_L0.5120.16
254_T324_I0.5110.16
128_Q287_H0.5100.16
37_Q200_G0.5100.16
186_A298_F0.5100.16
193_L279_L0.5080.16
16_K166_M0.5060.16
77_P183_N0.5040.16
190_V307_E0.5020.16
122_R292_S0.5020.16
37_Q44_L0.5020.16
90_G323_K0.5010.16
22_S48_A0.5010.16
45_F208_D0.5010.16
224_S227_Y0.5010.16
38_T146_D0.5000.16
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  
3iuoA 4 0.304 99.9 0.761 Contact Map
3aafA 1 0.2955 99.7 0.817 Contact Map
4o3mA 1 0.5028 99.7 0.819 Contact Map
4q48A 1 0.2898 99.4 0.849 Contact Map
1oywA 1 0.3011 99.4 0.852 Contact Map
2v1xA 1 0.2727 98 0.909 Contact Map
3safA 1 0.5483 96.1 0.931 Contact Map
1wudA 3 0.2017 95.1 0.936 Contact Map
2rhfA 1 0.1989 93.9 0.94 Contact Map
4wszA 2 0.1875 93.6 0.94 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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