GREMLIN Database
YHAM - 3'-5' exoribonuclease YhaM
UniProt: O07521 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 314 (303)
Sequences: 959 (719)
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
246_L270_L4.3991.00
115_T169_N4.2661.00
181_L269_I3.9941.00
167_M273_I3.4991.00
186_L270_L3.2081.00
167_M190_V3.1571.00
112_M165_V3.0281.00
228_K231_E2.8841.00
201_L209_Y2.8451.00
134_F229_A2.8421.00
122_E172_K2.8271.00
143_F164_V2.7081.00
166_S277_D2.7051.00
170_L174_I2.6941.00
230_A240_V2.6931.00
226_L247_I2.6761.00
202_S210_T2.6541.00
120_I136_V2.6491.00
122_E183_R2.5581.00
119_Y168_L2.4891.00
265_K280_M2.4191.00
168_L187_Y2.4141.00
171_A190_V2.3861.00
174_I276_L2.3841.00
123_M132_T2.3801.00
125_N239_E2.3741.00
224_T244_Q2.3361.00
65_T89_P2.2441.00
15_D68_K2.2121.00
129_Q133_R2.1961.00
265_K283_M2.1710.99
71_G82_L2.1140.99
15_D70_V2.0890.99
108_P111_E2.0850.99
298_R303_E2.0840.99
189_G246_L2.0750.99
168_L191_I2.0710.99
219_I259_P2.0460.99
219_I258_S2.0270.99
88_R94_E2.0220.99
97_N100_D2.0070.99
113_M144_M1.9640.99
185_L243_L1.8990.99
199_K212_E1.8910.99
116_I161_A1.8830.99
212_E241_L1.8790.98
196_G221_I1.8570.98
20_I61_Y1.8280.98
254_A261_P1.8210.98
275_N279_K1.8020.98
214_N306_S1.7760.98
156_F281_N1.7580.98
166_S177_L1.7330.97
17_Y88_R1.7170.97
172_K183_R1.6880.97
225_E228_K1.6680.97
227_S244_Q1.6430.96
138_K229_A1.6180.96
176_D183_R1.6100.96
17_Y90_V1.5990.96
115_T165_V1.5740.95
223_V244_Q1.5310.95
69_V87_I1.5190.94
276_L280_M1.5140.94
107_I112_M1.4690.93
186_L246_L1.4450.93
128_I239_E1.4180.92
131_I240_V1.3970.91
9_E12_E1.3900.91
164_V191_I1.3830.91
41_D44_G1.3600.90
139_H142_E1.3590.90
152_N301_A1.3500.90
134_F138_K1.3450.90
201_L210_T1.3370.90
132_T188_A1.3350.90
178_Y277_D1.3330.89
283_M307_F1.3300.89
127_N235_I1.3260.89
253_K261_P1.3220.89
180_S284_D1.3200.89
240_V244_Q1.3150.89
46_I71_G1.3120.89
265_K284_D1.3040.88
168_L190_V1.2990.88
121_F129_Q1.2980.88
183_R187_Y1.2960.88
242_I246_L1.2910.88
121_F133_R1.2850.88
175_A183_R1.2740.87
199_K225_E1.2730.87
123_M184_D1.2640.87
164_V168_L1.2620.87
189_G243_L1.2570.86
190_V273_I1.2440.86
185_L264_V1.2400.86
134_F232_E1.2350.85
127_N239_E1.2320.85
36_T49_K1.2300.85
200_E209_Y1.2220.85
156_F162_Y1.2120.84
203_G207_T1.2040.84
282_M301_A1.2040.84
200_E217_G1.1840.83
132_T136_V1.1760.83
39_L69_V1.1740.82
116_I168_L1.1730.82
67_V87_I1.1730.82
195_L222_M1.1650.82
199_K228_K1.1500.81
128_I188_A1.1470.81
170_L273_I1.1440.81
4_G7_L1.1430.81
51_W81_Q1.1420.81
17_Y68_K1.1400.80
14_V82_L1.1390.80
135_L229_A1.1380.80
164_V198_V1.1310.80
74_H83_K1.1200.79
131_I243_L1.1140.79
242_I264_V1.1090.79
133_R137_K1.1000.78
91_S94_E1.0980.78
211_V295_Y1.0760.76
152_N282_M1.0760.76
119_Y172_K1.0720.76
39_L48_A1.0620.76
174_I269_I1.0610.75
286_A299_V1.0590.75
269_I280_M1.0580.75
5_I46_I1.0560.75
210_T213_G1.0520.75
246_L249_S1.0490.75
181_L265_K1.0480.75
25_K33_P1.0470.74
35_L53_A1.0460.74
26_G36_T1.0450.74
196_G201_L1.0420.74
190_V270_L1.0400.74
211_V241_L1.0400.74
98_I101_F1.0380.74
14_V18_L1.0340.74
272_Y279_K1.0330.73
106_P288_E1.0220.73
112_M161_A1.0180.72
295_Y298_R1.0030.71
198_V232_E0.9960.71
110_N144_M0.9960.71
163_H193_H0.9940.71
5_I43_S0.9930.70
269_I276_L0.9930.70
194_D218_H0.9860.70
120_I191_I0.9850.70
209_Y256_W0.9780.69
35_L50_L0.9770.69
250_H274_D0.9730.69
61_Y67_V0.9710.69
102_L157_V0.9680.68
220_S248_L0.9660.68
105_A162_Y0.9590.68
126_P129_Q0.9580.68
163_H218_H0.9520.67
298_R301_A0.9510.67
128_I247_I0.9490.67
138_K225_E0.9440.67
226_L230_A0.9290.65
127_N236_D0.9290.65
117_T133_R0.9280.65
136_V191_I0.9250.65
66_I101_F0.9220.65
194_D274_D0.9150.64
172_K187_Y0.9140.64
75_H78_G0.9030.63
268_E279_K0.8920.62
224_T227_S0.8900.62
256_W279_K0.8880.62
238_E293_G0.8830.61
171_A273_I0.8690.60
173_A176_D0.8660.60
68_K88_R0.8560.59
216_L241_L0.8530.59
112_M115_T0.8530.59
220_S224_T0.8480.58
36_T47_E0.8450.58
230_A235_I0.8380.57
163_H194_D0.8360.57
169_N280_M0.8340.57
128_I243_L0.8300.57
43_S80_T0.8290.56
189_G249_S0.8280.56
112_M162_Y0.8280.56
153_H197_K0.8250.56
51_W262_P0.8240.56
254_A260_K0.8220.56
245_H249_S0.8210.56
66_I98_I0.8200.56
141_A145_D0.8190.56
193_H274_D0.8160.55
295_Y300_F0.8130.55
254_A259_P0.8120.55
111_E294_E0.8120.55
173_A177_L0.8120.55
296_T299_V0.8100.55
192_L225_E0.8100.55
290_V296_T0.8090.55
226_L231_E0.8080.54
119_Y187_Y0.8070.54
135_L192_L0.8060.54
130_R133_R0.8030.54
13_Q72_D0.8020.54
180_S265_K0.8000.54
8_H73_V0.7970.53
44_G71_G0.7970.53
302_L307_F0.7950.53
28_A31_G0.7920.53
132_T168_L0.7900.53
69_V84_L0.7890.53
106_P162_Y0.7850.52
219_I247_I0.7830.52
27_I33_P0.7810.52
163_H274_D0.7810.52
69_V73_V0.7790.52
286_A296_T0.7730.51
55_Q273_I0.7730.51
175_A181_L0.7720.51
17_Y286_A0.7700.51
223_V271_H0.7680.51
174_I273_I0.7670.51
47_E149_A0.7650.50
125_N128_I0.7640.50
48_A84_L0.7620.50
167_M268_E0.7620.50
236_D240_V0.7610.50
170_L177_L0.7600.50
149_A251_H0.7600.50
216_L249_S0.7570.50
228_K232_E0.7540.49
18_L39_L0.7520.49
123_M188_A0.7500.49
107_I162_Y0.7490.49
164_V190_V0.7490.49
281_N285_R0.7490.49
146_Y203_G0.7470.49
100_D175_A0.7460.49
218_H274_D0.7440.49
197_K274_D0.7420.48
105_A109_K0.7400.48
113_M117_T0.7370.48
193_H218_H0.7360.48
149_A274_D0.7310.47
34_F115_T0.7300.47
127_N233_L0.7300.47
223_V248_L0.7280.47
251_H274_D0.7260.47
220_S223_V0.7260.47
34_F92_E0.7240.47
117_T124_K0.7210.46
23_S37_L0.7210.46
121_F130_R0.7190.46
102_L208_S0.7190.46
50_L87_I0.7160.46
114_D118_Q0.7150.46
21_K182_D0.7150.46
213_G258_S0.7130.46
115_T118_Q0.7120.46
23_S65_T0.7110.45
154_H257_G0.7110.45
178_Y200_E0.7080.45
63_P232_E0.7070.45
116_I191_I0.7050.45
5_I18_L0.7040.45
299_V302_L0.7030.45
238_E308_Y0.7020.45
194_D197_K0.6990.44
135_L225_E0.6990.44
202_S208_S0.6980.44
22_S85_R0.6910.44
272_Y275_N0.6880.43
162_Y166_S0.6850.43
164_V273_I0.6840.43
132_T192_L0.6830.43
250_H257_G0.6800.43
229_A237_S0.6790.43
212_E291_K0.6770.42
50_L125_N0.6760.42
153_H163_H0.6740.42
61_Y89_P0.6730.42
197_K218_H0.6730.42
156_F177_L0.6700.42
12_E288_E0.6700.42
40_Q45_D0.6690.42
57_D83_K0.6690.42
151_K268_E0.6620.41
136_V143_F0.6590.41
131_I236_D0.6550.40
186_L242_I0.6540.40
33_P55_Q0.6530.40
282_M302_L0.6490.40
8_H16_Q0.6480.40
253_K275_N0.6460.40
126_P130_R0.6450.39
30_N49_K0.6450.39
72_D85_R0.6440.39
29_S77_R0.6430.39
35_L305_R0.6430.39
135_L198_V0.6410.39
204_P207_T0.6400.39
291_K294_E0.6370.39
101_F158_S0.6350.39
115_T119_Y0.6350.39
17_Y94_E0.6350.39
154_H213_G0.6350.39
19_L90_V0.6310.38
153_H218_H0.6310.38
107_I111_E0.6300.38
39_L279_K0.6290.38
109_K158_S0.6290.38
245_H267_A0.6280.38
199_K221_I0.6280.38
297_E306_S0.6280.38
212_E237_S0.6260.38
18_L44_G0.6250.38
37_L84_L0.6250.38
153_H194_D0.6220.37
181_L264_V0.6210.37
269_I305_R0.6200.37
256_W271_H0.6200.37
297_E307_F0.6190.37
254_A258_S0.6180.37
132_T167_M0.6170.37
60_T92_E0.6160.37
78_G281_N0.6140.37
150_T208_S0.6120.37
56_S59_V0.6120.37
142_E199_K0.6090.36
268_E283_M0.6080.36
248_L260_K0.6080.36
237_S240_V0.6070.36
216_L221_I0.6070.36
116_I144_M0.6060.36
166_S178_Y0.6060.36
23_S62_A0.6050.36
135_L195_L0.6050.36
139_H225_E0.6010.36
251_H257_G0.6000.36
131_I165_V0.5980.35
63_P141_A0.5970.35
130_R233_L0.5960.35
28_A32_K0.5930.35
113_M161_A0.5900.35
236_D239_E0.5900.35
6_M43_S0.5870.34
12_E179_P0.5870.34
73_V80_T0.5860.34
46_I102_L0.5850.34
70_V82_L0.5850.34
154_H218_H0.5840.34
29_S82_L0.5840.34
68_K94_E0.5830.34
157_V207_T0.5820.34
159_G193_H0.5820.34
261_P303_E0.5810.34
135_L138_K0.5810.34
123_M187_Y0.5800.34
35_L64_Q0.5790.34
232_E308_Y0.5750.33
27_I30_N0.5750.33
160_L197_K0.5730.33
66_I100_D0.5700.33
45_D276_L0.5700.33
287_L290_V0.5700.33
100_D278_A0.5690.33
64_Q174_I0.5690.33
42_Q104_T0.5680.33
21_K52_D0.5670.33
256_W261_P0.5670.33
159_G163_H0.5660.33
11_G269_I0.5660.33
142_E198_V0.5640.33
66_I205_V0.5640.33
48_A278_A0.5620.32
118_Q141_A0.5620.32
114_D117_T0.5590.32
276_L291_K0.5590.32
171_A186_L0.5570.32
44_G277_D0.5570.32
37_L190_V0.5560.32
76_Y198_V0.5560.32
124_K184_D0.5550.32
190_V282_M0.5530.32
144_M161_A0.5520.32
174_I198_V0.5500.31
275_N278_A0.5500.31
201_L256_W0.5490.31
237_S293_G0.5490.31
252_G261_P0.5460.31
45_D289_R0.5460.31
200_E250_H0.5440.31
252_G275_N0.5440.31
101_F264_V0.5420.31
169_N176_D0.5420.31
151_K288_E0.5420.31
50_L57_D0.5410.31
172_K176_D0.5400.31
68_K90_V0.5400.31
208_S214_N0.5390.31
154_H277_D0.5390.31
116_I119_Y0.5380.30
178_Y209_Y0.5380.30
12_E16_Q0.5370.30
21_K87_I0.5350.30
273_I276_L0.5340.30
159_G197_K0.5330.30
109_K113_M0.5330.30
22_S63_P0.5330.30
260_K282_M0.5320.30
159_G194_D0.5320.30
227_S240_V0.5310.30
39_L84_L0.5310.30
194_D250_H0.5300.30
10_V75_H0.5290.30
192_L229_A0.5290.30
13_Q27_I0.5270.30
13_Q102_L0.5230.29
226_L240_V0.5220.29
46_I120_I0.5220.29
82_L293_G0.5200.29
17_Y67_V0.5200.29
81_Q259_P0.5190.29
153_H159_G0.5190.29
262_P267_A0.5170.29
52_D166_S0.5150.29
99_D174_I0.5150.29
142_E206_S0.5150.29
80_T278_A0.5140.29
34_F120_I0.5130.29
228_K240_V0.5120.28
66_I263_M0.5110.28
158_S164_V0.5110.28
19_L148_A0.5110.28
196_G252_G0.5100.28
128_I184_D0.5080.28
23_S35_L0.5080.28
200_E213_G0.5070.28
71_G135_L0.5060.28
102_L145_D0.5060.28
177_L281_N0.5060.28
6_M33_P0.5050.28
41_D277_D0.5040.28
222_M225_E0.5040.28
174_I280_M0.5030.28
153_H193_H0.5030.28
128_I185_L0.5030.28
165_V273_I0.5000.28
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  
3kq5A 2 0.6656 100 0.736 Contact Map
3s4lA 1 0.5064 99.7 0.818 Contact Map
3wfpA 2 0.9013 99.7 0.823 Contact Map
3wfsC 1 0.9045 99.7 0.828 Contact Map
3wfrE 1 0.9108 99.7 0.828 Contact Map
2dqbA 4 0.6274 99.6 0.839 Contact Map
3gw7A 2 0.4522 99.6 0.843 Contact Map
2qgsA 2 0.4904 99.6 0.844 Contact Map
3wfoA 1 0.8567 99.5 0.845 Contact Map
2pjqA 2 0.4968 99.5 0.848 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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