GREMLIN Database
YDIO - Probable BsuMI modification methylase subunit YdiO
UniProt: O34939 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 427 (327)
Sequences: 2142 (1631)
Seq/√Len: 90.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
100_V422_A5.1141.00
387_R393_D5.0481.00
198_R201_R4.2211.00
211_V264_A4.0291.00
168_D209_S3.8631.00
102_E419_Y3.5961.00
390_F416_K3.4641.00
91_S118_D3.3181.00
178_G193_N3.1211.00
88_D97_S2.9301.00
86_I113_F2.8991.00
172_A199_V2.8341.00
419_Y423_L2.8271.00
100_V171_L2.7021.00
351_Y354_R2.6201.00
275_I279_Y2.5161.00
380_I385_A2.4861.00
217_P258_R2.4541.00
240_Y267_T2.4461.00
253_V390_F2.4271.00
310_L314_R2.4091.00
122_A403_R2.3711.00
207_Q266_K2.3631.00
86_I109_I2.3261.00
292_D387_R2.2511.00
275_I278_F2.2401.00
391_F412_A2.2351.00
287_S353_D2.1681.00
219_I260_Y2.1171.00
85_N110_N2.1171.00
129_K398_G2.1111.00
100_V169_F2.1051.00
265_S268_P2.0831.00
386_A397_F2.0051.00
254_S390_F1.9981.00
95_G391_F1.9601.00
328_P331_E1.9601.00
212_L421_L1.9491.00
125_S398_G1.9141.00
247_N250_K1.9061.00
118_D124_L1.9041.00
378_R384_E1.8931.00
363_F385_A1.8701.00
122_A400_L1.8501.00
89_L170_I1.8401.00
126_V408_V1.8041.00
383_H386_A1.7891.00
120_N406_Q1.7841.00
131_F395_F1.7681.00
129_K396_N1.7651.00
287_S352_W1.7521.00
84_I109_I1.7401.00
416_K419_Y1.7361.00
203_I211_V1.7031.00
352_W375_L1.6921.00
286_I388_I1.6891.00
247_N256_A1.6721.00
248_A417_L1.6571.00
208_P239_Y1.6541.00
99_G103_A1.6381.00
254_S289_A1.6321.00
227_F262_I1.6211.00
201_R205_L1.6131.00
311_E315_R1.5881.00
220_I260_Y1.5861.00
85_N114_S1.5801.00
212_L425_Q1.5761.00
400_L403_R1.5611.00
178_G190_D1.5541.00
414_P417_L1.5491.00
352_W374_S1.5481.00
86_I169_F1.5191.00
98_L392_P1.4971.00
356_A388_I1.4951.00
399_D408_V1.4681.00
350_M380_I1.4490.99
251_L275_I1.4370.99
317_E377_K1.4050.99
382_P404_Q1.3760.99
292_D393_D1.3720.99
284_R288_W1.3700.99
289_A293_L1.3650.99
120_N123_A1.3620.99
416_K420_L1.3610.99
174_P213_V1.3520.99
103_A422_A1.3520.99
314_R317_E1.3300.99
146_N205_L1.3220.99
210_S425_Q1.3200.99
162_D167_I1.3150.99
121_E125_S1.3150.99
266_K269_V1.3120.99
248_A253_V1.3090.99
323_N326_E1.3050.99
140_S143_K1.3030.99
166_K209_S1.3010.99
177_Q192_R1.2990.99
85_N168_D1.2890.99
89_L117_C1.2830.99
91_S116_A1.2780.99
390_F415_S1.2740.99
139_E143_K1.2730.99
96_L173_G1.2690.99
204_E237_Q1.2670.99
210_S265_S1.2670.99
98_L131_F1.2650.99
103_A108_G1.2580.98
404_Q409_I1.2580.98
248_A414_P1.2570.98
177_Q411_N1.2390.98
142_E198_R1.2360.98
329_N332_R1.2330.98
88_D91_S1.2320.98
227_F243_E1.2220.98
234_L264_A1.2200.98
169_F210_S1.2190.98
272_L275_I1.2140.98
202_V206_F1.2000.98
249_E283_S1.1980.98
98_L395_F1.1930.98
196_L230_F1.1900.98
100_V212_L1.1760.98
253_V416_K1.1760.98
124_L128_E1.1530.97
116_A127_Y1.1370.97
256_A354_R1.1330.97
399_D404_Q1.1300.97
223_K226_S1.1250.97
359_I388_I1.1160.97
250_K283_S1.1150.97
316_I319_L1.1140.97
97_S131_F1.1080.97
246_L261_F1.1030.96
303_N306_S1.0980.96
313_K317_E1.0970.96
349_R373_H1.0940.96
249_E256_A1.0910.96
209_S269_V1.0910.96
274_Q277_E1.0870.96
232_N236_T1.0840.96
196_L233_H1.0820.96
312_N316_I1.0770.96
98_L102_E1.0700.96
308_H312_N1.0620.96
124_L138_N1.0580.96
124_L136_S1.0510.95
324_L327_L1.0500.95
276_N279_Y1.0490.95
217_P245_V1.0350.95
235_K267_T1.0340.95
93_C408_V1.0250.95
174_P199_V1.0230.95
109_I169_F1.0220.95
99_G422_A1.0190.95
219_I230_F1.0180.94
128_E138_N1.0120.94
87_A170_I1.0050.94
309_S312_N1.0030.94
323_N327_L0.9960.94
167_I170_I0.9880.94
321_E352_W0.9860.93
83_S110_N0.9820.93
261_F417_L0.9760.93
303_N308_H0.9760.93
103_A419_Y0.9590.93
170_I206_F0.9550.92
87_A115_F0.9550.92
308_H316_I0.9530.92
146_N202_V0.9520.92
211_V234_L0.9510.92
390_F420_L0.9480.92
91_S124_L0.9480.92
350_M356_A0.9470.92
302_F404_Q0.9470.92
251_L277_E0.9460.92
98_L415_S0.9440.92
235_K240_Y0.9440.92
247_N258_R0.9430.92
115_F118_D0.9340.92
95_G99_G0.9290.91
86_I171_L0.9290.91
348_G369_G0.9270.91
109_I422_A0.9260.91
117_C202_V0.9230.91
200_S233_H0.9140.91
356_A359_I0.9060.90
364_G405_Y0.8990.90
362_G366_T0.8980.90
113_F116_A0.8950.90
103_A423_L0.8940.90
362_G365_S0.8900.89
125_S128_E0.8840.89
118_D123_A0.8830.89
98_L101_W0.8810.89
363_F368_Q0.8790.89
93_C126_V0.8750.89
209_S266_K0.8730.89
123_A411_N0.8590.88
231_K243_E0.8560.88
286_I290_I0.8560.88
97_S113_F0.8550.87
324_L333_P0.8530.87
174_P178_G0.8500.87
248_A261_F0.8460.87
308_H313_K0.8440.87
345_S371_F0.8400.87
312_N315_R0.8380.86
294_V376_L0.8380.86
199_V203_I0.8370.86
110_N113_F0.8310.86
382_P405_Y0.8280.86
101_W131_F0.8270.86
261_F421_L0.8270.86
99_G418_S0.8200.85
289_A387_R0.8170.85
231_K241_F0.8150.85
383_H397_F0.8140.85
362_G368_Q0.8140.85
231_K235_K0.8120.85
397_F409_I0.8080.84
118_D136_S0.8080.84
305_A381_T0.8080.84
349_R361_R0.8080.84
85_N167_I0.8070.84
290_I293_L0.8030.84
255_Q389_Q0.8000.84
88_D95_G0.7970.84
385_A405_Y0.7940.83
212_L263_F0.7920.83
359_I385_A0.7910.83
238_G267_T0.7910.83
363_F369_G0.7870.83
127_Y131_F0.7860.83
348_G370_R0.7860.83
361_R366_T0.7840.83
233_H237_Q0.7830.82
203_I264_A0.7800.82
306_S316_I0.7790.82
108_G132_S0.7780.82
290_I352_W0.7780.82
361_R406_Q0.7730.82
200_S234_L0.7720.82
302_F409_I0.7710.81
295_E299_D0.7690.81
227_F231_K0.7690.81
126_V399_D0.7680.81
311_E314_R0.7620.81
413_V418_S0.7610.81
95_G415_S0.7590.80
285_P288_W0.7580.80
96_L418_S0.7580.80
183_N365_S0.7570.80
312_N372_V0.7550.80
95_G412_A0.7550.80
403_R406_Q0.7550.80
365_S368_Q0.7490.80
361_R369_G0.7480.79
318_Y328_P0.7470.79
346_V363_F0.7430.79
171_L212_L0.7430.79
314_R330_S0.7410.79
200_S230_F0.7400.79
88_D383_H0.7390.79
285_P289_A0.7370.78
315_R319_L0.7370.78
97_S116_A0.7360.78
389_Q412_A0.7350.78
359_I380_I0.7330.78
253_V417_L0.7330.78
116_A134_D0.7330.78
335_C338_L0.7300.78
366_T372_V0.7300.78
420_L423_L0.7290.78
343_Y347_Y0.7240.77
409_I414_P0.7240.77
86_I97_S0.7220.77
261_F414_P0.7210.77
146_N245_V0.7200.77
241_F264_A0.7180.77
246_L251_L0.7160.76
270_S273_N0.7160.76
142_E145_I0.7100.76
88_D391_F0.7090.76
181_D218_G0.7070.76
91_S127_Y0.7070.76
162_D165_K0.7060.75
118_D127_Y0.7060.75
86_I100_V0.7040.75
90_F174_P0.7010.75
196_L405_Y0.7010.75
99_G413_V0.7000.75
174_P193_N0.6970.75
166_K206_F0.6960.74
380_I388_I0.6940.74
204_E236_T0.6940.74
383_H395_F0.6940.74
93_C395_F0.6930.74
88_D171_L0.6920.74
114_S167_I0.6910.74
132_S135_F0.6910.74
178_G196_L0.6860.73
87_A213_V0.6850.73
197_M229_E0.6830.73
326_E331_E0.6830.73
165_K206_F0.6800.73
182_L405_Y0.6770.72
208_P266_K0.6760.72
300_D303_N0.6740.72
382_P409_I0.6720.72
284_R289_A0.6700.72
212_L261_F0.6700.72
90_F141_I0.6690.71
121_E138_N0.6690.71
383_H387_R0.6660.71
320_F349_R0.6660.71
276_N280_S0.6650.71
127_Y134_D0.6650.71
96_L171_L0.6620.71
306_S312_N0.6620.71
325_F330_S0.6610.71
90_F378_R0.6610.71
359_I371_F0.6560.70
343_Y346_V0.6560.70
204_E233_H0.6540.70
102_E392_P0.6540.70
338_L343_Y0.6520.70
97_S127_Y0.6500.69
227_F230_F0.6490.69
305_A308_H0.6430.68
418_S422_A0.6430.68
94_G127_Y0.6380.68
101_W113_F0.6380.68
114_S425_Q0.6370.68
279_Y282_N0.6360.68
342_S346_V0.6330.67
328_P332_R0.6260.66
275_I283_S0.6250.66
369_G372_V0.6240.66
325_F344_K0.6230.66
166_K266_K0.6220.66
324_L328_P0.6210.66
307_E313_K0.6200.66
118_D290_I0.6190.66
116_A136_S0.6170.65
360_T367_G0.6160.65
308_H311_E0.6160.65
145_I201_R0.6160.65
339_K343_Y0.6140.65
236_T288_W0.6130.65
265_S271_S0.6110.65
370_R373_H0.6060.64
163_K241_F0.6060.64
246_L417_L0.6030.64
173_G387_R0.6000.63
244_I274_Q0.5990.63
338_L341_H0.5980.63
201_R204_E0.5970.63
176_C180_S0.5970.63
113_F127_Y0.5960.63
90_F195_L0.5960.63
167_I206_F0.5960.63
349_R374_S0.5960.63
85_N166_K0.5950.62
286_I374_S0.5950.62
363_F366_T0.5950.62
197_M233_H0.5940.62
279_Y284_R0.5930.62
278_F281_T0.5930.62
406_Q409_I0.5930.62
345_S363_F0.5920.62
369_G373_H0.5900.62
170_I202_V0.5880.62
383_H393_D0.5870.61
362_G371_F0.5860.61
386_A412_A0.5850.61
295_E298_G0.5840.61
277_E281_T0.5840.61
227_F260_Y0.5830.61
345_S368_Q0.5820.61
161_K164_V0.5790.60
248_A408_V0.5780.60
218_G260_Y0.5770.60
171_L422_A0.5770.60
331_E334_D0.5770.60
330_S333_P0.5760.60
287_S291_S0.5760.60
261_F418_S0.5750.60
191_P233_H0.5750.60
92_G411_N0.5750.60
339_K345_S0.5740.60
359_I364_G0.5740.60
342_S345_S0.5720.59
178_G194_A0.5710.59
350_M357_P0.5710.59
337_R341_H0.5700.59
288_W291_S0.5680.59
261_F352_W0.5680.59
251_L417_L0.5670.59
341_H345_S0.5660.59
87_A167_I0.5650.59
170_I211_V0.5650.59
312_N346_V0.5640.58
295_E300_D0.5630.58
170_I203_I0.5610.58
110_N114_S0.5610.58
96_L212_L0.5600.58
126_V386_A0.5580.58
249_E355_P0.5570.57
240_Y268_P0.5550.57
325_F332_R0.5530.57
88_D386_A0.5510.57
324_L345_S0.5500.57
96_L413_V0.5490.56
102_E415_S0.5490.56
287_S375_L0.5480.56
332_R338_L0.5470.56
324_L329_N0.5470.56
234_L238_G0.5470.56
293_L376_L0.5460.56
137_L144_H0.5450.56
91_S97_S0.5450.56
240_Y272_L0.5450.56
173_G180_S0.5440.56
246_L421_L0.5430.56
320_F326_E0.5410.55
363_F371_F0.5410.55
362_G367_G0.5410.55
323_N332_R0.5410.55
199_V211_V0.5410.55
190_D220_I0.5400.55
183_N260_Y0.5400.55
362_G405_Y0.5390.55
145_I202_V0.5390.55
323_N344_K0.5390.55
253_V414_P0.5380.55
184_N258_R0.5360.55
360_T370_R0.5350.54
182_L365_S0.5340.54
222_D225_G0.5330.54
368_Q372_V0.5330.54
293_L387_R0.5330.54
346_V362_G0.5310.54
201_R233_H0.5310.54
90_F172_A0.5310.54
248_A256_A0.5310.54
169_F422_A0.5310.54
145_I198_R0.5300.54
176_C259_R0.5290.54
95_G408_V0.5290.54
124_L127_Y0.5290.54
315_R331_E0.5280.54
349_R377_K0.5270.53
220_I243_E0.5260.53
250_K258_R0.5240.53
161_K166_K0.5230.53
346_V370_R0.5220.53
122_A125_S0.5220.53
389_Q414_P0.5220.53
190_D218_G0.5210.53
379_T385_A0.5210.53
282_N285_P0.5200.52
323_N329_N0.5200.52
287_S351_Y0.5200.52
114_S164_V0.5190.52
348_G363_F0.5180.52
249_E258_R0.5170.52
346_V368_Q0.5160.52
86_I108_G0.5160.52
85_N109_I0.5160.52
347_Y360_T0.5160.52
172_A179_H0.5140.52
255_Q414_P0.5130.51
363_F405_Y0.5120.51
200_S264_A0.5120.51
391_F395_F0.5100.51
172_A422_A0.5100.51
385_A409_I0.5100.51
314_R318_Y0.5100.51
360_T369_G0.5090.51
348_G357_P0.5090.51
127_Y395_F0.5090.51
182_L185_H0.5060.51
305_A313_K0.5050.50
253_V420_L0.5040.50
176_C384_E0.5030.50
243_E260_Y0.5030.50
381_T386_A0.5030.50
316_I372_V0.5020.50
172_A213_V0.5000.50
235_K241_F0.5000.50
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  
3swrA 1 0.9391 100 0.223 Contact Map
4ft4B 1 0.904 100 0.235 Contact Map
4wxxA 1 0.9133 100 0.261 Contact Map
3g7uA 1 0.7283 100 0.293 Contact Map
4dkjA 1 0.7283 100 0.313 Contact Map
3me5A 1 0.8361 100 0.315 Contact Map
3qv2A 1 0.7143 100 0.321 Contact Map
2c7pA 1 0.7424 100 0.324 Contact Map
4h0nA 1 0.7213 100 0.333 Contact Map
1g55A 1 0.6932 100 0.336 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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