GREMLIN Database
YBBC - Uncharacterized protein YbbC
UniProt: P40407 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 414 (368)
Sequences: 1219 (854)
Seq/√Len: 44.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
372_D381_R5.2561.00
61_T65_G4.8761.00
156_M170_F4.0171.00
408_R412_L3.5101.00
193_Y378_G3.2691.00
60_I159_A3.2531.00
378_G382_T3.2351.00
169_P226_D3.1901.00
218_N225_A3.1781.00
245_R258_V3.1761.00
126_K165_E3.1691.00
58_G135_V2.9911.00
277_E323_K2.9751.00
60_I155_T2.9501.00
137_I171_M2.8391.00
211_G229_V2.8351.00
138_L163_A2.8291.00
57_I83_I2.7321.00
41_I73_S2.6531.00
71_K79_E2.6081.00
208_M404_F2.5151.00
189_L198_G2.4361.00
157_A200_Y2.4191.00
124_T131_M2.3551.00
128_T131_M2.3361.00
57_I137_I2.2981.00
153_I210_I2.2951.00
208_M408_R2.2881.00
169_P228_T2.2631.00
255_M260_S2.1261.00
375_A380_I2.0950.99
283_K335_Y2.0810.99
145_V255_M2.0420.99
110_D113_T2.0400.99
126_K161_E2.0150.99
324_H327_T2.0080.99
204_L268_G1.9990.99
407_T410_K1.9820.99
159_A170_F1.9800.99
87_A134_N1.9360.99
291_P329_C1.9340.99
257_T286_E1.9220.99
60_I140_F1.9140.99
134_N168_I1.8920.99
56_R134_N1.8510.99
58_G138_L1.8510.99
202_I213_L1.8050.98
138_L159_A1.7970.98
67_N76_I1.7890.98
268_G374_L1.7770.98
263_V342_F1.7440.98
274_N292_F1.7430.98
197_V374_L1.7340.98
307_L310_V1.7340.98
154_Y196_F1.7180.98
129_P166_N1.6680.97
140_F206_H1.6380.97
38_Q46_P1.6310.97
214_A227_L1.6220.97
149_F268_G1.6070.97
240_D339_R1.5850.96
185_E205_K1.5760.96
158_Y196_F1.5650.96
87_A118_Y1.5460.96
299_E303_N1.5390.96
220_E407_T1.5280.96
43_T233_K1.5270.96
55_K169_P1.5220.96
139_M171_M1.5210.96
43_T47_D1.4990.95
39_T232_M1.4940.95
184_I405_S1.4890.95
293_I359_Y1.4790.95
276_S302_L1.4710.95
388_T392_N1.4680.95
271_E279_R1.4640.94
208_M412_L1.4530.94
38_Q42_D1.4480.94
294_K297_E1.4430.94
75_D96_R1.4250.94
288_I332_V1.4190.93
163_A170_F1.4080.93
100_Q321_F1.4060.93
140_F170_F1.4050.93
218_N224_D1.4030.93
160_M225_A1.3980.93
52_L139_M1.3890.93
67_N71_K1.3830.93
38_Q233_K1.3830.93
125_K158_Y1.3820.93
221_F224_D1.3800.93
352_I380_I1.3750.92
350_S390_V1.3730.92
122_G127_P1.3680.92
204_L269_L1.3680.92
313_R333_Q1.3610.92
154_Y200_Y1.3580.92
406_K409_K1.3480.92
172_V227_L1.3380.91
64_A142_I1.3370.91
140_F210_I1.3320.91
256_P286_E1.3300.91
206_H232_M1.3230.91
155_T196_F1.3220.91
288_I351_V1.3170.91
302_L312_F1.3020.90
188_I400_T1.3000.90
86_T135_V1.2990.90
370_S374_L1.2950.90
256_P260_S1.2920.90
129_P165_E1.2890.90
190_E377_N1.2890.90
59_L73_S1.2880.90
51_Q228_T1.2860.90
147_T268_G1.2840.90
66_V70_L1.2830.89
118_Y131_M1.2770.89
58_G89_F1.2740.89
76_I81_P1.2700.89
231_K413_I1.2690.89
71_K76_I1.2670.89
193_Y372_D1.2630.89
158_Y199_L1.2610.89
236_K239_M1.2600.89
291_P324_H1.2560.88
44_L76_I1.2490.88
157_A217_F1.2440.88
78_Y85_L1.2430.88
96_R110_D1.2310.87
149_F204_L1.2290.87
88_L115_V1.2240.87
104_E125_K1.2190.87
255_M261_T1.2110.87
215_S231_K1.2090.86
190_E400_T1.2030.86
251_P254_N1.1980.86
154_Y157_A1.1890.86
219_K411_Y1.1780.85
292_F359_Y1.1760.85
228_T231_K1.1730.85
251_P279_R1.1630.84
124_T128_T1.1620.84
92_E102_G1.1600.84
156_M159_A1.1570.84
74_V95_V1.1560.84
135_V138_L1.1520.84
400_T403_Q1.1500.84
342_F347_T1.1410.83
170_F225_A1.1360.83
302_L351_V1.1350.83
119_S127_P1.1300.82
59_L74_V1.1300.82
163_A225_A1.1280.82
77_L139_M1.1240.82
283_K333_Q1.1230.82
321_F325_Q1.1130.81
332_V354_T1.1040.81
183_H205_K1.1020.81
301_T354_T1.0990.81
135_V168_I1.0940.80
164_K218_N1.0910.80
108_Y117_V1.0890.80
190_E379_W1.0580.78
156_M213_L1.0580.78
269_L374_L1.0560.78
188_I203_P1.0550.78
153_I202_I1.0510.78
383_K396_S1.0500.78
60_I142_I1.0480.77
398_E402_Q1.0460.77
191_P194_A1.0450.77
42_D67_N1.0410.77
60_I170_F1.0400.77
267_T277_E1.0400.77
309_G313_R1.0360.77
272_G371_F1.0350.76
100_Q320_T1.0340.76
158_Y161_E1.0330.76
365_F371_F1.0310.76
216_L407_T1.0310.76
389_S392_N1.0300.76
37_V239_M1.0260.76
254_N279_R1.0250.76
405_S409_K1.0180.75
290_A359_Y1.0100.75
205_K266_A1.0080.75
60_I138_L1.0050.74
61_T72_S1.0030.74
147_T265_P0.9960.74
65_G72_S0.9940.74
307_L347_T0.9930.73
305_L350_S0.9870.73
263_V347_T0.9840.73
213_L217_F0.9790.72
301_T357_D0.9750.72
88_L95_V0.9690.72
369_G373_K0.9660.71
162_A165_E0.9650.71
270_I351_V0.9620.71
240_D262_F0.9620.71
37_V235_W0.9620.71
346_K394_I0.9610.71
129_P133_K0.9600.71
127_P162_A0.9540.70
39_T42_D0.9510.70
154_Y199_L0.9500.70
220_E411_Y0.9440.70
58_G159_A0.9420.69
62_N142_I0.9410.69
86_T134_N0.9400.69
57_I226_D0.9360.69
56_R86_T0.9350.69
87_A116_P0.9280.68
103_D320_T0.9170.67
52_L171_M0.9170.67
258_V262_F0.9120.67
381_R385_E0.9080.67
147_T206_H0.9030.66
251_P271_E0.9000.66
313_R335_Y0.8990.66
51_Q171_M0.8950.65
77_L89_F0.8930.65
292_F362_D0.8870.65
181_G206_H0.8800.64
101_A152_Y0.8770.64
290_A293_I0.8760.64
299_E332_V0.8740.64
274_N290_A0.8730.63
390_V394_I0.8730.63
156_M214_A0.8690.63
269_L375_A0.8670.63
338_D341_K0.8650.63
87_A115_V0.8640.63
370_S373_K0.8640.63
120_L127_P0.8620.62
149_F279_R0.8620.62
132_L166_N0.8600.62
126_K166_N0.8590.62
288_I355_I0.8590.62
105_V119_S0.8570.62
387_G401_L0.8510.61
379_W383_K0.8510.61
63_P90_G0.8500.61
272_G279_R0.8490.61
110_D114_G0.8470.61
47_D233_K0.8440.61
66_V249_V0.8410.61
204_L374_L0.8380.60
181_G413_I0.8380.60
56_R84_K0.8370.60
41_I77_L0.8320.60
372_D377_N0.8310.60
89_F135_V0.8290.59
283_K287_L0.8270.59
110_D115_V0.8200.59
254_N281_T0.8190.59
154_Y158_Y0.8180.58
107_S116_P0.8150.58
383_K393_I0.8110.58
120_L155_T0.8090.58
379_W382_T0.8090.58
268_G276_S0.8060.57
206_H210_I0.8020.57
136_D168_I0.8000.57
191_P201_P0.7960.56
132_L168_I0.7960.56
309_G319_P0.7960.56
139_M173_L0.7930.56
56_R238_K0.7920.56
101_A370_S0.7900.56
91_P196_F0.7880.56
58_G87_A0.7870.55
87_A135_V0.7840.55
395_N398_E0.7810.55
91_P206_H0.7800.55
157_A199_L0.7760.54
267_T288_I0.7740.54
65_G73_S0.7710.54
92_E105_V0.7700.54
44_L81_P0.7690.54
85_L115_V0.7660.53
140_F152_Y0.7640.53
382_T386_N0.7630.53
192_E378_G0.7630.53
185_E343_E0.7630.53
348_G351_V0.7620.53
64_A152_Y0.7620.53
404_F407_T0.7590.53
268_G279_R0.7560.52
372_D382_T0.7560.52
111_E117_V0.7550.52
190_E378_G0.7550.52
41_I76_I0.7550.52
93_H151_T0.7540.52
215_S413_I0.7540.52
44_L52_L0.7520.52
149_F374_L0.7490.52
42_D68_T0.7460.52
356_H385_E0.7460.52
155_T159_A0.7460.52
76_I79_E0.7430.51
273_T279_R0.7390.51
211_G230_V0.7370.51
59_L85_L0.7360.51
286_E333_Q0.7350.50
48_Y235_W0.7340.50
262_F290_A0.7260.50
96_R102_G0.7250.49
126_K162_A0.7240.49
273_T323_K0.7200.49
81_P85_L0.7190.49
269_L352_I0.7180.49
189_L195_S0.7170.49
385_E388_T0.7160.49
303_N311_T0.7160.49
298_L355_I0.7150.49
187_P225_A0.7130.48
304_S309_G0.7130.48
200_Y352_I0.7120.48
100_Q282_T0.7120.48
208_M223_I0.7100.48
270_I288_I0.7090.48
126_K158_Y0.7080.48
63_P256_P0.7080.48
100_Q103_D0.7070.48
76_I85_L0.7040.47
255_M263_V0.7000.47
216_L222_S0.7000.47
299_E348_G0.6990.47
290_A324_H0.6990.47
365_F381_R0.6980.47
408_R411_Y0.6980.47
123_K128_T0.6970.47
78_Y81_P0.6970.47
293_I330_H0.6960.47
99_A105_V0.6940.47
182_N237_R0.6940.47
292_F363_F0.6910.46
127_P165_E0.6900.46
179_Q339_R0.6890.46
43_T231_K0.6860.46
153_I196_F0.6860.46
354_T358_L0.6850.46
47_D51_Q0.6830.45
140_F208_M0.6820.45
43_T232_M0.6820.45
60_I196_F0.6820.45
367_S370_S0.6790.45
399_K402_Q0.6790.45
43_T48_Y0.6790.45
259_E286_E0.6780.45
208_M217_F0.6750.45
39_T43_T0.6750.45
181_G235_W0.6750.45
38_Q234_H0.6720.44
260_S263_V0.6720.44
42_D46_P0.6720.44
303_N312_F0.6690.44
127_P131_M0.6670.44
59_L413_I0.6660.44
383_K388_T0.6640.44
216_L408_R0.6640.44
281_T329_C0.6640.44
274_N363_F0.6610.43
188_I401_L0.6600.43
353_K390_V0.6600.43
149_F152_Y0.6590.43
282_T313_R0.6580.43
283_K286_E0.6580.43
218_N223_I0.6570.43
365_F385_E0.6550.43
198_G376_G0.6530.43
49_K83_I0.6520.42
77_L113_T0.6520.42
393_I396_S0.6520.42
59_L88_L0.6520.42
371_F375_A0.6510.42
140_F160_M0.6500.42
309_G338_D0.6500.42
189_L194_A0.6490.42
310_V313_R0.6480.42
75_D220_E0.6470.42
177_N206_H0.6460.42
215_S219_K0.6460.42
100_Q286_E0.6450.42
70_L335_Y0.6440.42
216_L220_E0.6440.42
72_S75_D0.6420.42
197_V370_S0.6400.41
42_D249_V0.6400.41
92_E149_F0.6360.41
51_Q85_L0.6360.41
250_L287_L0.6340.41
195_S373_K0.6340.41
258_V339_R0.6310.41
282_T310_V0.6300.40
42_D247_P0.6300.40
204_L345_V0.6280.40
74_V115_V0.6270.40
66_V321_F0.6270.40
120_L138_L0.6260.40
296_T300_E0.6260.40
194_A199_L0.6250.40
44_L237_R0.6240.40
145_V189_L0.6200.39
179_Q240_D0.6200.39
57_I403_Q0.6190.39
128_T132_L0.6180.39
304_S312_F0.6180.39
182_N205_K0.6130.39
74_V88_L0.6120.39
121_Y151_T0.6100.39
197_V268_G0.6080.38
90_G163_A0.6070.38
371_F384_I0.6070.38
290_A360_P0.6050.38
275_I292_F0.6050.38
336_V339_R0.6040.38
188_I202_I0.6040.38
372_D378_G0.6040.38
64_A92_E0.6030.38
268_G370_S0.6030.38
140_F156_M0.6000.38
254_N257_T0.6000.38
39_T176_P0.5990.38
276_S279_R0.5980.37
241_F397_Y0.5970.37
62_N140_F0.5970.37
63_P96_R0.5970.37
162_A253_P0.5950.37
220_E410_K0.5950.37
87_A131_M0.5950.37
238_K385_E0.5950.37
250_L257_T0.5940.37
377_N381_R0.5930.37
371_F377_N0.5930.37
142_I326_G0.5900.37
149_F322_S0.5900.37
275_I293_I0.5880.37
133_K168_I0.5880.37
130_E392_N0.5870.36
75_D110_D0.5860.36
303_N332_V0.5860.36
37_V232_M0.5840.36
125_K196_F0.5830.36
262_F404_F0.5830.36
261_T266_A0.5810.36
292_F324_H0.5800.36
276_S374_L0.5800.36
92_E285_F0.5780.36
279_R374_L0.5780.36
307_L342_F0.5760.36
240_D258_V0.5720.35
371_F381_R0.5720.35
127_P158_Y0.5720.35
250_L283_K0.5710.35
181_G205_K0.5700.35
91_P155_T0.5700.35
210_I213_L0.5690.35
156_M351_V0.5690.35
57_I96_R0.5670.35
197_V277_E0.5660.35
122_G253_P0.5650.35
92_E268_G0.5650.35
255_M279_R0.5650.35
132_L158_Y0.5640.34
127_P203_P0.5620.34
78_Y115_V0.5620.34
170_F229_V0.5620.34
276_S284_P0.5600.34
171_M211_G0.5580.34
308_P341_K0.5580.34
75_D112_K0.5580.34
217_F221_F0.5570.34
308_P409_K0.5560.34
211_G228_T0.5550.34
284_P359_Y0.5540.34
126_K132_L0.5530.33
293_I296_T0.5530.33
272_G380_I0.5520.33
101_A322_S0.5510.33
57_I171_M0.5490.33
206_H413_I0.5490.33
44_L48_Y0.5490.33
137_I169_P0.5480.33
205_K355_I0.5460.33
272_G324_H0.5450.33
291_P327_T0.5430.33
282_T321_F0.5430.33
143_Q232_M0.5430.33
370_S375_A0.5420.33
172_V211_G0.5420.33
135_V166_N0.5420.33
187_P269_L0.5400.32
399_K409_K0.5380.32
178_P195_S0.5380.32
388_T403_Q0.5360.32
42_D76_I0.5350.32
167_G226_D0.5350.32
195_S376_G0.5350.32
58_G74_V0.5330.32
334_L365_F0.5320.32
236_K406_K0.5310.32
61_T85_L0.5310.32
36_K231_K0.5300.32
124_T155_T0.5300.32
61_T73_S0.5300.32
90_G95_V0.5300.32
95_V179_Q0.5280.31
57_I84_K0.5280.31
63_P217_F0.5270.31
256_P282_T0.5240.31
200_Y380_I0.5230.31
230_V413_I0.5210.31
37_V245_R0.5210.31
61_T92_E0.5200.31
119_S128_T0.5200.31
36_K338_D0.5200.31
272_G369_G0.5190.31
205_K344_A0.5190.31
84_K226_D0.5170.30
299_E312_F0.5170.30
157_A213_L0.5170.30
44_L67_N0.5150.30
269_L348_G0.5150.30
257_T260_S0.5150.30
93_H285_F0.5150.30
264_Y285_F0.5140.30
53_K137_I0.5140.30
101_A267_T0.5130.30
163_A329_C0.5120.30
388_T402_Q0.5120.30
38_Q139_M0.5110.30
104_E234_H0.5110.30
396_S401_L0.5110.30
152_Y197_V0.5100.30
290_A296_T0.5100.30
149_F266_A0.5080.30
295_S330_H0.5080.30
288_I354_T0.5060.30
39_T246_L0.5050.29
43_T76_I0.5040.29
289_G329_C0.5040.29
47_D413_I0.5040.29
190_E235_W0.5030.29
121_Y276_S0.5030.29
205_K277_E0.5030.29
156_M217_F0.5020.29
56_R132_L0.5010.29
372_D375_A0.5010.29
164_K207_G0.5010.29
125_K131_M0.5000.29
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  
4k05A 2 0.9058 100 0.046 Contact Map
4jjaA 1 0.8333 100 0.139 Contact Map
3nklA 2 0.2899 80.8 0.972 Contact Map
1lh0A 2 0.4638 73.3 0.974 Contact Map
3sg0A 1 0.715 65.5 0.975 Contact Map
3n2lA 4 0.4638 52 0.977 Contact Map
2csuA 2 0.4662 49.9 0.977 Contact Map
1vp2A 3 0.401 48.5 0.978 Contact Map
3mjdA 2 0.4686 45.2 0.978 Contact Map
1nmoA 4 0.4203 44.5 0.978 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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