GREMLIN Database
YBBR - YbbR-like domain-containing protein YbbR
UniProt: O34659 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 483 (394)
Sequences: 688 (611)
Seq/√Len: 30.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
265_V275_L6.9311.00
136_Q178_N6.0511.00
143_F186_V4.5491.00
356_A366_L4.3341.00
335_G378_S3.9631.00
360_P364_N3.9521.00
380_L385_H3.9301.00
206_T214_A3.8801.00
237_V265_V3.7901.00
269_Q273_D3.4671.00
209_D213_N3.3211.00
247_L285_L3.3031.00
186_V207_V3.2541.00
97_I113_L3.2241.00
8_R12_K3.2011.00
247_L253_I3.1781.00
81_G86_V3.1731.00
386_S405_N3.0721.00
207_V219_V3.0351.00
291_D317_E2.9781.00
101_M111_V2.9211.00
188_A203_A2.9031.00
188_A205_V2.8861.00
382_D412_S2.8321.00
180_I183_I2.6861.00
265_V304_V2.6481.00
236_K262_E2.6221.00
322_A363_I2.6121.00
142_S170_N2.6111.00
336_L342_I2.5811.00
240_K277_F2.4750.99
195_A199_I2.4340.99
389_L406_A2.3880.99
148_E187_K2.3530.99
367_K370_D2.2580.99
198_T227_T2.1950.99
77_V95_F2.1930.99
164_P229_P2.1850.98
166_V226_I2.1600.98
387_V408_I2.1220.98
335_G377_V2.0860.98
137_E177_K2.0620.98
104_L135_I2.0230.97
180_I215_L2.0210.97
237_V275_L1.9950.97
283_L296_A1.9930.97
207_V215_L1.9680.97
253_I285_L1.9270.97
288_I292_S1.8190.95
104_L109_H1.7980.95
345_L409_K1.7710.94
237_V278_I1.7540.94
356_A363_I1.7510.94
165_I229_P1.7290.94
79_I89_A1.7240.94
380_L387_V1.7220.94
198_T229_P1.6980.93
143_F183_I1.6680.92
373_L391_V1.6570.92
288_I318_V1.6540.92
384_E409_K1.6420.92
336_L340_Q1.6180.91
243_R256_I1.6150.91
98_Y114_K1.6120.91
99_A111_V1.6080.91
354_V371_I1.6060.91
156_K196_D1.5950.91
373_L389_L1.5840.90
258_S312_V1.5780.90
139_T177_K1.5710.90
145_V205_V1.5630.90
118_V124_I1.5570.90
23_Y153_S1.5540.89
239_F298_I1.5470.89
381_E410_L1.5320.89
248_P285_L1.5240.89
240_K279_D1.4880.87
66_Y135_I1.4730.87
248_P287_K1.4580.86
285_L288_I1.4490.86
173_I180_I1.4480.86
333_T377_V1.4430.86
15_A19_A1.4170.85
340_Q410_L1.4060.84
165_I227_T1.4000.84
202_E225_K1.4000.84
256_I316_I1.3940.84
339_S342_I1.3930.84
336_L410_L1.3890.83
205_V217_V1.3890.83
335_G376_N1.3810.83
238_P241_I1.3720.83
375_V389_L1.3720.83
25_A205_V1.3700.82
31_A84_S1.3630.82
44_T99_A1.3600.82
337_S377_V1.3590.82
186_V205_V1.3550.82
384_E407_K1.3550.82
275_L304_V1.3430.81
382_D410_L1.3420.81
393_G399_W1.3400.81
377_V410_L1.3350.81
325_K355_T1.3290.81
251_V287_K1.3160.80
235_K272_L1.3120.80
301_P304_V1.3110.80
82_S205_V1.3100.80
325_K353_D1.3090.79
333_T336_L1.3080.79
340_Q412_S1.3010.79
377_V380_L1.3010.79
171_V205_V1.2870.78
356_A371_I1.2830.78
175_G180_I1.2720.77
371_I393_G1.2700.77
174_T220_E1.2640.77
253_I316_I1.2610.77
359_S362_N1.2590.77
244_T284_D1.2510.76
251_V320_S1.2500.76
81_G89_A1.2320.75
336_L377_V1.2230.75
42_F89_A1.2230.75
140_T172_Q1.2020.73
388_K405_N1.2010.73
11_V15_A1.1980.73
247_L251_V1.1980.73
173_I195_A1.1970.73
236_K265_V1.1950.73
374_Y392_N1.1920.73
13_I406_A1.1910.73
197_E270_D1.1810.72
327_E353_D1.1800.72
177_K181_D1.1800.72
147_V190_V1.1740.72
171_V221_P1.1710.71
99_A113_L1.1620.71
167_S225_K1.1590.71
236_K264_T1.1550.70
161_P192_L1.1540.70
271_V304_V1.1510.70
287_K292_S1.1470.70
15_A161_P1.1460.70
342_I410_L1.1430.69
86_V99_A1.1300.69
386_S407_K1.1290.68
52_L95_F1.1220.68
259_S313_T1.1150.67
13_I16_L1.1110.67
263_V298_I1.1070.67
17_L21_L1.1050.67
7_N10_A1.0900.66
6_N97_I1.0730.64
386_S402_G1.0680.64
331_I403_R1.0620.64
23_Y93_K1.0610.64
145_V168_P1.0560.63
166_V224_I1.0540.63
182_N210_K1.0520.63
380_L410_L1.0520.63
31_A278_I1.0480.63
179_V183_I1.0460.62
239_F255_N1.0440.62
293_D313_T1.0440.62
377_V387_V1.0420.62
242_E279_D1.0400.62
143_F208_Y1.0350.62
209_D383_G1.0340.62
247_L318_V1.0330.61
38_G81_G1.0310.61
372_E392_N1.0300.61
188_A226_I1.0270.61
162_E229_P1.0260.61
23_Y89_A1.0250.61
316_I339_S1.0180.60
89_A95_F1.0180.60
190_V228_V1.0170.60
342_I411_T1.0140.60
166_V190_V1.0060.59
293_D315_H1.0040.59
2_D10_A1.0040.59
323_D355_T0.9980.59
107_G288_I0.9920.58
82_S85_A0.9790.57
15_A373_L0.9770.57
8_R178_N0.9760.57
303_G354_V0.9700.57
251_V285_L0.9670.56
22_L26_V0.9650.56
374_Y390_E0.9630.56
333_T342_I0.9620.56
108_T132_T0.9580.56
274_S366_L0.9530.55
79_I86_V0.9520.55
45_S91_Q0.9460.55
97_I126_I0.9400.54
334_V374_Y0.9310.53
195_A230_V0.9290.53
65_N137_E0.9270.53
23_Y176_S0.9270.53
140_T174_T0.9230.53
287_K373_L0.9190.52
64_E137_E0.9180.52
50_A175_G0.9150.52
342_I375_V0.9140.52
205_V314_L0.9110.52
281_V299_P0.9100.52
333_T344_F0.9080.52
183_I207_V0.9060.51
212_G244_T0.9030.51
175_G217_V0.9010.51
128_P221_P0.8980.51
200_E227_T0.8980.51
141_K193_E0.8960.51
190_V203_A0.8950.51
304_V308_S0.8880.50
292_S324_Q0.8850.50
79_I157_K0.8850.50
267_G304_V0.8850.50
191_N265_V0.8840.50
147_V188_A0.8840.50
361_T364_N0.8820.50
258_S314_L0.8790.49
200_E225_K0.8720.49
280_G298_I0.8720.49
33_T166_V0.8690.48
24_V375_V0.8650.48
375_V396_N0.8640.48
15_A188_A0.8630.48
205_V224_I0.8620.48
147_V166_V0.8540.47
96_E116_K0.8510.47
212_G354_V0.8480.47
9_W13_I0.8480.47
112_E116_K0.8440.46
110_K132_T0.8430.46
26_V238_P0.8410.46
337_S379_D0.8370.46
182_N209_D0.8350.46
242_E282_S0.8320.45
74_T186_V0.8300.45
221_P328_N0.8280.45
163_Q229_P0.8250.45
328_N353_D0.8220.45
146_E205_V0.8200.45
17_L255_N0.8180.44
75_V128_P0.8170.44
235_K276_E0.8160.44
155_M192_L0.8160.44
304_V361_T0.8140.44
74_T228_V0.8110.44
174_T263_V0.8100.44
231_T235_K0.8100.44
245_G287_K0.8100.44
54_D275_L0.8090.44
183_I298_I0.8090.44
145_V304_V0.8080.44
379_D385_H0.8050.43
273_D326_F0.8040.43
50_A54_D0.8040.43
185_L335_G0.7970.43
275_L301_P0.7950.43
16_L190_V0.7940.42
66_Y161_P0.7930.42
340_Q377_V0.7920.42
331_I362_N0.7920.42
270_D331_I0.7910.42
391_V399_W0.7880.42
86_V89_A0.7880.42
166_V228_V0.7880.42
376_N390_E0.7840.42
358_G363_I0.7790.41
98_Y366_L0.7780.41
162_E231_T0.7770.41
41_F44_T0.7760.41
97_I227_T0.7760.41
101_M207_V0.7760.41
81_G145_V0.7740.41
145_V227_T0.7700.41
24_V111_V0.7690.41
233_P272_L0.7680.40
338_S351_A0.7650.40
31_A48_D0.7610.40
122_L203_A0.7610.40
32_P44_T0.7590.40
367_K386_S0.7570.40
149_Y154_K0.7560.40
23_Y136_Q0.7560.40
157_K276_E0.7550.39
239_F281_V0.7550.39
74_T214_A0.7540.39
295_E311_K0.7520.39
85_A89_A0.7510.39
52_L278_I0.7500.39
15_A276_E0.7500.39
141_K188_A0.7460.39
273_D395_Q0.7440.39
239_F280_G0.7410.38
191_N211_D0.7410.38
239_F258_S0.7400.38
186_V292_S0.7370.38
123_T200_E0.7370.38
173_I396_N0.7360.38
267_G352_I0.7350.38
233_P266_Y0.7350.38
101_M272_L0.7350.38
350_Q408_I0.7330.38
86_V272_L0.7320.38
5_L25_A0.7290.37
331_I369_S0.7280.37
178_N344_F0.7270.37
30_Q291_D0.7260.37
215_L291_D0.7250.37
165_I278_I0.7240.37
247_L406_A0.7210.37
110_K130_V0.7190.37
217_V242_E0.7170.37
68_V113_L0.7150.36
237_V267_G0.7150.36
265_V272_L0.7150.36
42_F113_L0.7130.36
10_A97_I0.7120.36
2_D6_N0.7100.36
165_I276_E0.7090.36
208_Y214_A0.7080.36
116_K273_D0.7060.36
235_K275_L0.7060.36
16_L135_I0.7050.36
326_F371_I0.7040.36
158_G335_G0.7030.36
6_N285_L0.7020.35
14_I165_I0.7000.35
226_I394_P0.6970.35
11_V207_V0.6960.35
396_N400_S0.6940.35
207_V217_V0.6900.35
202_E223_V0.6900.35
187_K208_Y0.6890.35
68_V118_V0.6880.34
394_P397_V0.6880.34
228_V307_I0.6860.34
4_F198_T0.6860.34
142_S171_V0.6860.34
166_V288_I0.6820.34
104_L111_V0.6820.34
298_I381_E0.6820.34
118_V191_N0.6820.34
387_V410_L0.6820.34
184_S212_G0.6770.34
13_I174_T0.6770.34
329_V377_V0.6730.33
271_V275_L0.6720.33
269_Q290_K0.6720.33
120_D222_S0.6710.33
155_M158_G0.6700.33
23_Y300_L0.6670.33
286_S364_N0.6670.33
243_R247_L0.6650.33
95_F175_G0.6640.33
293_D364_N0.6640.33
259_S263_V0.6640.33
188_A292_S0.6620.33
25_A406_A0.6610.33
11_V320_S0.6600.32
42_F267_G0.6580.32
2_D7_N0.6580.32
211_D363_I0.6570.32
77_V281_V0.6540.32
77_V126_I0.6540.32
141_K222_S0.6530.32
293_D392_N0.6530.32
162_E314_L0.6510.32
23_Y42_F0.6510.32
22_L368_K0.6510.32
23_Y48_D0.6490.32
19_A113_L0.6480.32
23_Y155_M0.6450.31
14_I271_V0.6450.31
178_N250_G0.6420.31
22_L273_D0.6410.31
31_A412_S0.6400.31
362_N397_V0.6400.31
101_M155_M0.6400.31
251_V318_V0.6380.31
350_Q402_G0.6380.31
185_L212_G0.6360.31
145_V297_D0.6340.31
276_E367_K0.6320.30
257_E261_S0.6310.30
290_K312_V0.6300.30
338_S360_P0.6300.30
27_N32_P0.6290.30
145_V171_V0.6290.30
286_S298_I0.6280.30
75_V133_V0.6270.30
153_S190_V0.6270.30
32_P136_Q0.6270.30
192_L195_A0.6270.30
46_T75_V0.6270.30
147_V283_L0.6260.30
44_T111_V0.6250.30
183_I219_V0.6250.30
82_S128_P0.6250.30
149_Y192_L0.6240.30
365_K369_S0.6240.30
340_Q382_D0.6240.30
300_L307_I0.6230.30
46_T49_E0.6220.30
7_N385_H0.6220.30
337_S340_Q0.6210.30
33_T265_V0.6210.30
66_Y104_L0.6190.30
109_H115_A0.6180.30
136_Q176_S0.6180.30
12_K394_P0.6180.30
77_V216_P0.6160.29
354_V367_K0.6150.29
223_V297_D0.6150.29
345_L407_K0.6150.29
21_L191_N0.6130.29
265_V335_G0.6110.29
50_A97_I0.6100.29
16_L310_S0.6100.29
186_V371_I0.6100.29
210_K302_D0.6090.29
230_V397_V0.6080.29
297_D311_K0.6080.29
164_P228_V0.6050.29
254_A319_D0.6050.29
109_H135_I0.6050.29
32_P48_D0.6040.29
159_Y162_E0.6040.29
3_K279_D0.6030.29
373_L387_V0.6020.28
92_T239_F0.6010.28
343_E409_K0.6000.28
95_F128_P0.5980.28
84_S113_L0.5970.28
174_T218_D0.5970.28
269_Q412_S0.5960.28
276_E381_E0.5960.28
25_A66_Y0.5960.28
183_I331_I0.5930.28
176_S374_Y0.5930.28
14_I37_P0.5910.28
375_V407_K0.5910.28
113_L126_I0.5910.28
208_Y213_N0.5900.28
271_V274_S0.5900.28
156_K173_I0.5900.28
356_A397_V0.5890.28
20_L397_V0.5880.28
31_A136_Q0.5860.27
383_G410_L0.5860.27
197_E220_E0.5860.27
197_E283_L0.5840.27
171_V279_D0.5830.27
159_Y226_I0.5830.27
8_R136_Q0.5820.27
362_N396_N0.5800.27
223_V350_Q0.5800.27
244_T282_S0.5770.27
9_W12_K0.5760.27
198_T330_P0.5740.27
352_I360_P0.5740.27
9_W23_Y0.5730.27
33_T176_S0.5730.27
100_D168_P0.5730.27
38_G275_L0.5730.27
226_I341_N0.5720.27
145_V166_V0.5710.26
148_E189_S0.5710.26
369_S395_Q0.5700.26
132_T228_V0.5690.26
295_E313_T0.5680.26
141_K406_A0.5680.26
174_T183_I0.5680.26
196_D367_K0.5670.26
192_L360_P0.5660.26
100_D245_G0.5640.26
148_E283_L0.5630.26
105_K109_H0.5620.26
290_K317_E0.5610.26
287_K361_T0.5610.26
341_N411_T0.5610.26
311_K408_I0.5600.26
15_A94_N0.5600.26
324_Q356_A0.5600.26
293_D309_P0.5590.26
50_A183_I0.5590.26
75_V126_I0.5580.26
212_G395_Q0.5560.26
252_S303_G0.5540.25
273_D365_K0.5520.25
357_K400_S0.5520.25
273_D410_L0.5500.25
241_I258_S0.5500.25
120_D340_Q0.5490.25
8_R215_L0.5490.25
173_I207_V0.5470.25
13_I116_K0.5470.25
25_A149_Y0.5470.25
203_A214_A0.5460.25
201_K227_T0.5460.25
214_A283_L0.5450.25
131_T202_E0.5450.25
115_A175_G0.5440.25
259_S388_K0.5430.25
93_K159_Y0.5430.25
331_I375_V0.5430.25
276_E327_E0.5430.25
304_V311_K0.5420.25
29_N131_T0.5420.25
125_S138_R0.5410.25
83_T87_K0.5400.25
81_G85_A0.5390.25
79_I131_T0.5380.24
212_G339_S0.5380.24
344_F408_I0.5370.24
253_I310_S0.5360.24
105_K279_D0.5350.24
115_A352_I0.5340.24
33_T312_V0.5340.24
145_V224_I0.5340.24
23_Y72_P0.5330.24
82_S174_T0.5320.24
332_K372_E0.5320.24
52_L93_K0.5320.24
242_E408_I0.5310.24
100_D314_L0.5310.24
261_S331_I0.5310.24
6_N79_I0.5310.24
17_L250_G0.5310.24
159_Y233_P0.5310.24
23_Y281_V0.5300.24
234_S266_Y0.5300.24
303_G352_I0.5290.24
220_E373_L0.5290.24
357_K398_T0.5290.24
133_V284_D0.5280.24
131_T323_D0.5270.24
173_I233_P0.5260.24
48_D315_H0.5250.24
367_K405_N0.5240.24
113_L160_S0.5240.24
192_L263_V0.5240.24
298_I379_D0.5230.24
9_W64_E0.5230.24
99_A311_K0.5210.23
213_N271_V0.5210.23
47_T285_L0.5210.23
369_S405_N0.5200.23
18_F75_V0.5200.23
33_T68_V0.5190.23
312_V351_A0.5180.23
243_R253_I0.5170.23
3_K380_L0.5170.23
267_G371_I0.5160.23
46_T101_M0.5160.23
5_L331_I0.5160.23
161_P335_G0.5160.23
193_E318_V0.5160.23
284_D287_K0.5150.23
174_T370_D0.5150.23
241_I283_L0.5150.23
285_L292_S0.5140.23
268_S273_D0.5140.23
79_I354_V0.5120.23
52_L332_K0.5120.23
239_F300_L0.5110.23
171_V342_I0.5110.23
316_I323_D0.5100.23
173_I328_N0.5090.23
355_T406_A0.5090.23
281_V298_I0.5090.23
269_Q318_V0.5090.23
54_D191_N0.5080.23
181_D276_E0.5080.23
194_N384_E0.5080.23
200_E207_V0.5070.23
331_I341_N0.5050.23
171_V241_I0.5050.23
31_A99_A0.5040.23
260_P312_V0.5030.22
366_L371_I0.5030.22
81_G238_P0.5030.22
29_N190_V0.5010.22
26_V190_V0.5010.22
190_V394_P0.5010.22
285_L327_E0.5000.22
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  
4qdyA 2 0.3954 100 0.692 Contact Map
2kq1A 1 0.2422 99.8 0.823 Contact Map
2kxyA 1 0.207 99.6 0.854 Contact Map
2l3uA 1 0.2029 99.6 0.858 Contact Map
3lywA 1 0.176 99.4 0.869 Contact Map
2zjrS 1 0.3416 81.8 0.96 Contact Map
4l3aA 1 0.5735 78.6 0.961 Contact Map
1feuA 1 0.3644 67.2 0.964 Contact Map
1wlhA 2 0.4969 57.1 0.966 Contact Map
2e7mA 1 0.2153 53.7 0.967 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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