GREMLIN Database
YDIS - Type-2 restriction enzyme BsuMI component YdiS
UniProt: O34885 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 343 (262)
Sequences: 838 (669)
Seq/√Len: 41.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
146_A151_V11.4601.00
119_G128_A5.6961.00
121_F125_L4.2541.00
227_E273_L3.6991.00
52_V137_I3.3641.00
269_P272_K3.2881.00
126_I129_L3.2041.00
138_L197_F3.1901.00
131_N134_T3.1751.00
165_G192_K3.1241.00
121_F128_A3.0571.00
63_F139_I2.9741.00
222_S293_K2.7991.00
119_G125_L2.7601.00
125_L128_A2.6811.00
52_V63_F2.5981.00
135_N198_F2.4771.00
159_L199_I2.4361.00
116_F119_G2.3021.00
271_D277_F2.2851.00
116_F128_A2.2141.00
281_E289_V1.9880.99
225_Y270_E1.9720.99
118_P128_A1.9190.99
121_F193_L1.9160.99
192_K210_V1.9020.99
210_V303_F1.8980.99
62_V134_T1.8890.99
162_N169_Y1.8760.98
53_G56_F1.8700.98
124_V128_A1.8670.98
48_L139_I1.8460.98
31_P293_K1.8370.98
52_V139_I1.8230.98
122_I128_A1.7980.98
72_Y150_S1.7820.98
67_T157_Q1.7490.98
211_L304_K1.7390.97
124_V138_L1.6820.97
131_N136_F1.6570.97
122_I125_L1.6350.96
119_G122_I1.6340.96
118_P122_I1.5800.96
64_T127_K1.5540.95
73_T150_S1.5460.95
55_I137_I1.5320.95
51_E54_K1.5090.94
120_P128_A1.4760.94
79_G187_K1.4640.93
110_P128_A1.4580.93
278_F289_V1.4180.92
124_V197_F1.4110.92
181_L187_K1.4030.92
145_R219_R1.3890.91
143_I203_M1.3600.90
137_I198_F1.3520.90
114_Y128_A1.3500.90
56_F62_V1.3410.90
53_G57_G1.3400.90
165_G170_P1.3290.89
181_L186_I1.3290.89
140_I199_I1.3170.89
172_T190_M1.2980.88
210_V304_K1.2950.88
229_E232_R1.2870.88
68_F77_F1.2810.87
214_D219_R1.2600.87
125_L193_L1.2510.86
223_F296_Y1.2100.84
143_I201_A1.2060.84
112_I128_A1.2000.84
56_F137_I1.1900.83
145_R153_G1.1870.83
119_G124_V1.1660.82
206_A215_T1.1650.82
120_P125_L1.1580.82
310_D318_S1.1470.81
203_M214_D1.1380.80
33_N309_I1.1360.80
121_F124_V1.1300.80
31_P37_Y1.1290.80
31_P222_S1.1230.79
68_F140_I1.1200.79
33_N159_L1.1160.79
79_G186_I1.1040.78
250_V254_N1.1030.78
73_T76_Q1.0940.78
76_Q268_V1.0930.78
70_P78_I1.0900.77
110_P119_G1.0890.77
33_N70_P1.0820.77
75_G276_P1.0810.77
311_F314_A1.0790.77
153_G219_R1.0780.77
120_P124_V1.0760.76
144_N203_M1.0720.76
47_Y224_E1.0690.76
116_F125_L1.0670.76
114_Y124_V1.0650.76
125_L197_F1.0640.76
60_P63_F1.0630.76
193_L197_F1.0510.75
222_S292_N1.0430.74
180_Y190_M1.0410.74
225_Y299_K1.0370.74
34_R224_E1.0330.73
124_V127_K1.0330.73
274_L294_L1.0330.73
48_L52_V1.0320.73
314_A317_F1.0300.73
112_I122_I1.0210.73
66_V72_Y1.0100.72
56_F135_N1.0080.72
42_T202_T1.0070.72
64_T124_V1.0060.71
165_G195_S1.0030.71
190_M255_D0.9970.71
40_P214_D0.9940.71
139_I198_F0.9900.70
34_R136_F0.9870.70
19_G22_P0.9870.70
153_G194_P0.9790.69
156_F217_F0.9730.69
32_R198_F0.9680.68
50_R53_G0.9680.68
315_S318_S0.9570.68
224_E292_N0.9560.68
48_L70_P0.9510.67
51_E55_I0.9480.67
22_P262_K0.9450.67
145_R207_D0.9440.67
218_K301_D0.9410.66
208_Q301_D0.9340.66
51_E66_V0.9290.65
52_V55_I0.9280.65
35_I223_F0.9270.65
157_Q163_K0.9250.65
38_G44_K0.9240.65
39_A42_T0.9240.65
157_Q202_T0.9190.64
65_R141_E0.9180.64
48_L137_I0.9140.64
236_D254_N0.9110.64
147_N205_N0.9100.64
18_K21_L0.9090.64
25_S29_S0.9060.63
80_A296_Y0.9040.63
216_A219_R0.9000.63
221_W296_Y0.8990.63
64_T138_L0.8940.62
80_A209_G0.8930.62
172_T192_K0.8920.62
49_E53_G0.8910.62
116_F122_I0.8910.62
62_V136_F0.8890.62
277_F297_Y0.8860.62
75_G147_N0.8770.61
121_F131_N0.8730.60
148_A151_V0.8720.60
110_P124_V0.8710.60
207_D219_R0.8710.60
50_R132_R0.8710.60
83_P274_L0.8680.60
145_R214_D0.8660.60
40_P219_R0.8660.60
160_D205_N0.8630.59
110_P116_F0.8620.59
81_Y251_I0.8620.59
84_V139_I0.8570.59
167_S195_S0.8510.58
272_K302_V0.8470.58
153_G214_D0.8420.58
45_S221_W0.8400.57
181_L257_R0.8350.57
157_Q182_A0.8330.57
40_P277_F0.8310.57
160_D163_K0.8290.56
70_P149_A0.8250.56
110_P113_D0.8220.56
290_F304_K0.8210.56
255_D287_Q0.8190.55
74_Y214_D0.8170.55
53_G63_F0.8140.55
23_K29_S0.8120.55
124_V136_F0.8100.55
153_G207_D0.8060.54
170_P210_V0.8030.54
78_I155_I0.7960.53
69_F74_Y0.7950.53
286_N289_V0.7930.53
299_K306_N0.7910.53
128_A133_Y0.7900.53
238_W245_K0.7860.52
159_L195_S0.7860.52
57_G311_F0.7860.52
253_W281_E0.7850.52
215_T293_K0.7850.52
203_M207_D0.7830.52
155_I209_G0.7810.52
187_K190_M0.7800.52
218_K296_Y0.7800.52
216_A220_R0.7710.51
45_S160_D0.7700.51
114_Y157_Q0.7700.51
45_S157_Q0.7660.51
74_Y194_P0.7620.50
148_A213_L0.7600.50
232_R282_S0.7560.50
35_I143_I0.7550.50
263_R305_H0.7540.49
230_K258_D0.7530.49
78_I306_N0.7520.49
254_N258_D0.7490.49
76_Q316_T0.7420.48
232_R254_N0.7360.48
129_L295_L0.7340.48
311_F318_S0.7300.47
52_V56_F0.7300.47
110_P114_Y0.7280.47
40_P216_A0.7270.47
261_N264_L0.7270.47
145_R194_P0.7250.47
215_T268_V0.7230.47
231_Y258_D0.7220.46
211_L223_F0.7200.46
271_D293_K0.7180.46
74_Y153_G0.7170.46
37_Y67_T0.7160.46
156_F160_D0.7140.46
227_E270_E0.7140.46
67_T148_A0.7130.46
201_A264_L0.7130.46
141_E149_A0.7130.46
255_D258_D0.7130.46
153_G275_G0.7120.46
159_L162_N0.7080.45
33_N268_V0.7070.45
137_I200_W0.7060.45
154_D193_L0.7040.45
42_T74_Y0.7020.45
65_R155_I0.7010.45
269_P302_V0.6960.44
77_F154_D0.6950.44
117_V127_K0.6940.44
77_F214_D0.6930.44
285_W288_N0.6920.44
57_G316_T0.6920.44
259_I262_K0.6900.44
163_K297_Y0.6900.44
194_P219_R0.6890.43
157_Q217_F0.6870.43
40_P145_R0.6850.43
142_E204_N0.6840.43
76_Q200_W0.6830.43
227_E268_V0.6820.43
211_L228_L0.6810.43
182_A187_K0.6800.43
210_V266_G0.6790.43
68_F203_M0.6770.42
211_L272_K0.6750.42
77_F153_G0.6740.42
228_L269_P0.6710.42
40_P206_A0.6700.42
165_G210_V0.6660.41
118_P125_L0.6650.41
21_L26_V0.6620.41
273_L277_F0.6570.41
73_T155_I0.6570.41
114_Y125_L0.6570.41
42_T70_P0.6560.40
60_P133_Y0.6550.40
142_E207_D0.6550.40
110_P136_F0.6510.40
205_N209_G0.6500.40
251_I256_F0.6490.40
122_I129_L0.6490.40
227_E303_F0.6440.39
212_P303_F0.6380.39
76_Q150_S0.6320.38
228_L296_Y0.6290.38
304_K308_T0.6270.38
75_G154_D0.6270.38
160_D276_P0.6260.38
34_R222_S0.6230.38
113_D124_V0.6200.37
163_K182_A0.6190.37
284_L289_V0.6180.37
49_E52_V0.6170.37
64_T123_D0.6160.37
114_Y119_G0.6150.37
47_Y226_L0.6140.37
63_F198_F0.6130.37
33_N164_N0.6120.37
31_P34_R0.6120.37
128_A131_N0.6090.36
237_S248_N0.6090.36
78_I138_L0.6080.36
194_P275_G0.6080.36
69_F154_D0.6080.36
270_E306_N0.6070.36
253_W289_V0.6070.36
40_P153_G0.6040.36
200_W277_F0.6040.36
49_E63_F0.6030.36
281_E286_N0.6000.36
68_F144_N0.5970.35
307_P310_D0.5970.35
268_V314_A0.5960.35
215_T272_K0.5950.35
181_L296_Y0.5940.35
141_E191_I0.5930.35
46_N201_A0.5920.35
206_A300_E0.5910.35
144_N204_N0.5900.35
118_P121_F0.5880.35
67_T272_K0.5870.34
75_G223_F0.5870.34
80_A191_I0.5840.34
274_L297_Y0.5820.34
23_K27_L0.5820.34
134_T280_K0.5810.34
140_I152_F0.5790.34
311_F316_T0.5780.34
253_W283_E0.5780.34
109_E258_D0.5760.34
204_N220_R0.5760.34
314_A318_S0.5750.33
310_D316_T0.5710.33
26_V29_S0.5700.33
66_V136_F0.5690.33
67_T181_L0.5660.33
73_T316_T0.5650.33
33_N226_L0.5650.33
264_L269_P0.5620.32
70_P186_I0.5620.32
150_S210_V0.5620.32
251_I255_D0.5610.32
117_V128_A0.5580.32
173_F181_L0.5570.32
141_E221_W0.5570.32
130_K133_Y0.5550.32
86_I115_Q0.5550.32
297_Y301_D0.5540.32
35_I77_F0.5540.32
277_F292_N0.5540.32
170_P192_K0.5530.32
283_E287_Q0.5490.31
112_I120_P0.5490.31
273_L303_F0.5480.31
69_F214_D0.5460.31
75_G228_L0.5440.31
49_E171_V0.5400.31
76_Q303_F0.5400.31
75_G80_A0.5390.31
49_E55_I0.5380.30
24_F224_E0.5380.30
113_D287_Q0.5370.30
310_D314_A0.5360.30
36_I169_Y0.5340.30
110_P118_P0.5340.30
232_R279_L0.5330.30
62_V137_I0.5310.30
39_A205_N0.5300.30
19_G25_S0.5270.30
285_W307_P0.5240.29
39_A263_R0.5240.29
24_F288_N0.5210.29
168_D236_D0.5210.29
286_N307_P0.5190.29
150_S215_T0.5190.29
50_R54_K0.5180.29
208_Q212_P0.5180.29
203_M219_R0.5170.29
18_K60_P0.5160.29
172_T189_E0.5160.29
27_L30_I0.5140.29
53_G137_I0.5140.29
142_E145_R0.5140.29
299_K309_I0.5130.28
308_T311_F0.5130.28
230_K279_L0.5120.28
21_L24_F0.5120.28
72_Y165_G0.5120.28
48_L198_F0.5110.28
273_L291_K0.5110.28
282_S286_N0.5100.28
206_A223_F0.5090.28
157_Q164_N0.5070.28
161_R164_N0.5070.28
131_N255_D0.5060.28
78_I143_I0.5050.28
212_P300_E0.5040.28
263_R267_K0.5000.28
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  
4akgA 2 0.7872 99.9 0.761 Contact Map
3vkgA 2 0.8222 99.8 0.787 Contact Map
2r44A 1 0.7988 99.8 0.794 Contact Map
4rh7A 1 0.8222 99.7 0.8 Contact Map
4r7yA 3 0.7901 99.6 0.818 Contact Map
1g8pA 1 0.7638 99.6 0.823 Contact Map
3hwsA 3 0.7405 99.6 0.827 Contact Map
3ja83 1 0.758 99.6 0.828 Contact Map
1r6bX 1 0.7376 99.6 0.829 Contact Map
4qosA 1 0.6822 99.6 0.829 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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