GREMLIN Database
TF2B6 - Transcription initiation factor IIB 6
UniProt: Q9HSB3 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 319 (277)
Sequences: 1058 (664)
Seq/√Len: 39.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
237_A276_V6.1201.00
25_C46_C4.0621.00
43_C46_C3.9341.00
243_S285_E3.8951.00
143_A182_V3.8001.00
306_R309_E3.5941.00
25_C28_C3.3541.00
249_R283_T3.2881.00
289_Q304_R3.1471.00
135_A160_Y3.1071.00
32_V41_S3.0501.00
32_V50_V2.9991.00
138_E141_R2.7961.00
28_C43_C2.7921.00
142_M182_V2.7791.00
182_V198_I2.6431.00
290_A300_E2.6031.00
143_A153_R2.5071.00
25_C43_C2.4861.00
136_L157_S2.4541.00
63_A66_S2.3881.00
300_E308_H2.2451.00
142_M201_V2.1660.99
28_C46_C2.1440.99
61_W64_F2.1430.99
250_A272_A2.1430.99
35_D38_H2.1300.99
249_R252_E2.0990.99
206_K210_A2.0990.99
156_A185_A2.0830.99
273_A296_A2.0300.99
148_L182_V2.0050.99
60_E74_R1.9810.99
171_G268_P1.9010.98
152_V185_A1.8790.98
112_M115_L1.8290.98
25_C29_G1.7490.97
160_Y169_L1.7480.97
253_L279_A1.7380.97
112_M116_R1.7270.97
250_A279_A1.7110.97
155_T188_Q1.6690.96
58_G61_W1.6580.96
193_R197_E1.6410.96
60_E64_F1.6310.96
254_L271_L1.6200.96
236_F276_V1.5690.95
217_V224_V1.5620.95
270_G302_T1.5510.95
84_H87_G1.5480.94
62_R74_R1.5440.94
34_N51_E1.5120.94
288_T291_K1.5110.94
114_R298_I1.5100.94
290_A303_I1.4940.93
236_F240_L1.4810.93
135_A164_L1.4700.93
61_W72_K1.4530.92
111_K115_L1.4340.92
42_V295_V1.4270.92
270_G274_A1.4200.91
253_L275_A1.4030.91
246_A283_T1.4020.91
135_A211_R1.3910.91
158_V161_R1.3870.90
228_D231_S1.3820.90
162_R166_D1.3790.90
246_A285_E1.3780.90
184_A222_L1.3760.90
286_K291_K1.3730.90
228_D254_L1.3610.90
187_R210_A1.3460.89
155_T189_A1.3460.89
30_G45_D1.3090.88
198_I201_V1.3000.87
25_C30_G1.2920.87
197_E235_R1.2810.87
254_L275_A1.2760.86
256_T260_K1.2660.86
27_E48_L1.2530.85
280_A295_V1.2380.85
135_A303_I1.2370.85
242_L287_T1.2340.84
275_A279_A1.2330.84
218_R291_K1.2060.83
43_C47_G1.2000.83
291_K295_V1.1840.82
41_S253_L1.1790.82
195_L206_K1.1790.82
133_K137_G1.1730.81
230_E255_K1.1690.81
160_Y174_I1.1640.81
210_A236_F1.1420.79
184_A187_R1.1380.79
287_T300_E1.1300.79
273_A278_A1.1290.79
273_A303_I1.1270.78
48_L88_L1.1250.78
198_I261_G1.1230.78
31_L216_V1.0980.77
27_E30_G1.0950.76
33_V273_A1.0950.76
183_Y227_A1.0930.76
152_V191_V1.0880.76
32_V39_G1.0860.76
247_S251_R1.0840.76
139_I178_A1.0830.76
56_D60_E1.0800.75
254_L272_A1.0750.75
287_T291_K1.0650.74
244_D248_H1.0650.74
155_T158_V1.0590.74
195_L210_A1.0560.74
177_V216_V1.0550.74
143_A271_L1.0520.73
289_Q301_V1.0500.73
274_A302_T1.0490.73
132_L157_S1.0380.72
32_V37_E1.0290.72
93_D141_R1.0210.71
31_L232_Y1.0190.71
193_R235_R1.0170.71
293_S296_A1.0160.71
139_I157_S0.9960.69
170_P271_L0.9940.69
135_A274_A0.9910.69
60_E72_K0.9900.69
139_I145_A0.9890.69
26_P50_V0.9860.69
146_L259_D0.9820.68
230_E258_K0.9820.68
35_D39_G0.9750.68
198_I224_V0.9630.67
273_A293_S0.9580.66
45_D143_A0.9570.66
199_A204_V0.9570.66
242_L246_A0.9530.66
45_D149_P0.9510.66
131_N184_A0.9490.66
61_W74_R0.9480.65
63_A71_E0.9470.65
148_L186_A0.9460.65
165_E290_A0.9360.64
63_A69_K0.9330.64
24_G44_A0.9300.64
194_S198_I0.9290.64
79_T126_D0.9250.64
280_A286_K0.9220.63
29_G33_V0.9180.63
205_E208_E0.9170.63
152_V258_K0.9170.63
56_D61_W0.9110.62
135_A173_S0.9060.62
146_L172_R0.9040.62
240_L276_V0.9030.62
171_G302_T0.9030.62
69_K77_A0.9000.61
148_L312_E0.8980.61
135_A139_I0.8970.61
66_S71_E0.8970.61
55_I61_W0.8960.61
84_H304_R0.8960.61
80_T84_H0.8930.61
276_V296_A0.8920.61
41_S44_A0.8890.60
179_T186_A0.8890.60
301_V304_R0.8880.60
34_N37_E0.8860.60
153_R182_V0.8840.60
207_A308_H0.8820.60
154_E167_D0.8730.59
34_N253_L0.8720.59
64_F71_E0.8720.59
69_K72_K0.8690.59
65_D271_L0.8670.58
177_V212_T0.8550.57
157_S164_L0.8550.57
194_S197_E0.8550.57
261_G266_K0.8550.57
210_A267_S0.8540.57
89_S180_S0.8540.57
298_I303_I0.8530.57
183_Y186_A0.8520.57
226_P288_T0.8460.57
50_V267_S0.8440.56
96_D110_Q0.8400.56
29_G46_C0.8390.56
97_K139_I0.8370.56
284_N288_T0.8370.56
290_A298_I0.8320.55
186_A254_L0.8290.55
228_D258_K0.8260.55
161_R185_A0.8190.54
192_P231_S0.8180.54
173_S214_R0.8170.54
232_Y237_A0.8160.54
139_I160_Y0.8140.54
61_W78_P0.8130.54
235_R267_S0.8070.53
120_E205_E0.8070.53
60_E92_I0.8050.53
262_V280_A0.8040.53
33_V149_P0.7950.52
63_A306_R0.7930.52
49_V181_C0.7930.52
290_A305_N0.7910.52
32_V143_A0.7890.51
132_L192_P0.7850.51
127_A180_S0.7810.51
33_V44_A0.7780.50
263_H273_A0.7750.50
62_R72_K0.7740.50
257_A263_H0.7730.50
120_E133_K0.7710.50
208_E233_V0.7710.50
61_W90_T0.7690.50
63_A73_S0.7680.49
203_R273_A0.7630.49
230_E297_D0.7600.49
160_Y163_A0.7590.49
29_G225_A0.7590.49
138_E142_M0.7580.49
80_T270_G0.7570.48
134_Q258_K0.7570.48
276_V292_V0.7570.48
221_G273_A0.7550.48
138_E211_R0.7540.48
270_G306_R0.7510.48
90_T193_R0.7460.47
159_I181_C0.7440.47
161_R248_H0.7380.47
186_A227_A0.7290.46
249_R282_L0.7260.46
131_N160_Y0.7250.46
209_I255_K0.7250.46
267_S303_I0.7230.45
42_V308_H0.7230.45
255_K259_D0.7230.45
184_A280_A0.7230.45
291_K294_E0.7230.45
208_E211_R0.7220.45
74_R90_T0.7210.45
152_V189_A0.7200.45
271_L296_A0.7190.45
84_H275_A0.7170.45
253_L265_G0.7160.45
157_S161_R0.7140.45
93_D96_D0.7100.44
262_V273_A0.7090.44
272_A296_A0.7090.44
80_T95_R0.7070.44
166_D169_L0.7060.44
162_R222_L0.7050.44
205_E209_I0.6940.43
280_A285_E0.6930.43
186_A189_A0.6930.43
84_H89_S0.6920.43
192_P275_A0.6920.43
298_I302_T0.6900.42
116_R175_E0.6890.42
156_A181_C0.6870.42
179_T202_S0.6860.42
213_Y216_V0.6840.42
139_I218_R0.6840.42
213_Y270_G0.6840.42
82_T157_S0.6820.42
129_E153_R0.6800.42
199_A287_T0.6790.41
282_L307_Y0.6770.41
266_K271_L0.6720.41
216_V239_D0.6700.41
124_T139_I0.6700.41
49_V81_N0.6660.40
262_V309_E0.6630.40
65_D72_K0.6620.40
83_M95_R0.6600.40
42_V60_E0.6600.40
85_D88_L0.6580.40
93_D114_R0.6560.39
121_R265_G0.6550.39
202_S307_Y0.6540.39
170_P300_E0.6540.39
196_D206_K0.6530.39
270_G298_I0.6520.39
233_V305_N0.6510.39
135_A143_A0.6510.39
238_S273_A0.6510.39
74_R92_I0.6500.39
289_Q293_S0.6490.39
26_P276_V0.6490.39
135_A299_S0.6470.39
35_D243_S0.6470.39
253_L308_H0.6440.38
132_L136_L0.6430.38
198_I208_E0.6400.38
295_V303_I0.6400.38
69_K230_E0.6380.38
59_P63_A0.6370.38
151_N238_S0.6320.37
64_F72_K0.6310.37
288_T304_R0.6300.37
210_A213_Y0.6300.37
30_G46_C0.6290.37
38_H296_A0.6260.37
24_G29_G0.6260.37
160_Y306_R0.6250.37
127_A309_E0.6210.36
95_R129_E0.6200.36
77_A273_A0.6180.36
129_E166_D0.6180.36
163_A222_L0.6130.36
250_A254_L0.6120.36
160_Y213_Y0.6100.35
53_D59_P0.6100.35
286_K295_V0.6080.35
50_V204_V0.6060.35
178_A223_E0.6060.35
278_A292_V0.6050.35
220_L302_T0.6050.35
77_A271_L0.6040.35
307_Y311_L0.6020.35
34_N40_E0.6020.35
157_S162_R0.6020.35
78_P240_L0.6010.35
288_T300_E0.5990.35
59_P277_Y0.5990.35
155_T226_P0.5980.34
128_K241_G0.5920.34
34_N230_E0.5910.34
52_E57_R0.5900.34
80_T157_S0.5900.34
150_D223_E0.5850.33
75_V82_T0.5830.33
206_K290_A0.5800.33
236_F295_V0.5800.33
197_E208_E0.5790.33
246_A275_A0.5790.33
271_L293_S0.5770.33
90_T236_F0.5770.33
24_G31_L0.5770.33
147_G184_A0.5750.33
267_S277_Y0.5740.32
127_A215_Y0.5710.32
255_K297_D0.5710.32
38_H304_R0.5700.32
28_C44_A0.5690.32
273_A277_Y0.5670.32
133_K254_L0.5650.32
146_L257_A0.5640.32
72_K76_G0.5620.32
198_I234_P0.5600.31
160_Y223_E0.5590.31
183_Y224_V0.5580.31
98_D140_D0.5560.31
41_S50_V0.5560.31
172_R195_L0.5550.31
66_S269_V0.5530.31
216_V269_V0.5520.31
98_D254_L0.5510.31
153_R292_V0.5510.31
145_A201_V0.5500.31
233_V254_L0.5490.31
270_G299_S0.5490.31
34_N41_S0.5480.30
110_Q113_Q0.5480.30
260_K297_D0.5470.30
178_A250_A0.5460.30
156_A262_V0.5450.30
210_A284_N0.5450.30
139_I156_A0.5450.30
130_R138_E0.5440.30
51_E57_R0.5440.30
29_G67_K0.5430.30
200_D297_D0.5430.30
42_V221_G0.5390.30
209_I273_A0.5360.30
163_A229_P0.5360.30
154_E157_S0.5360.30
98_D112_M0.5360.30
240_L292_V0.5350.29
221_G241_G0.5320.29
176_G180_S0.5320.29
213_Y265_G0.5310.29
220_L281_L0.5310.29
32_V140_D0.5310.29
253_L282_L0.5310.29
33_V39_G0.5300.29
98_D113_Q0.5270.29
52_E278_A0.5260.29
215_Y253_L0.5260.29
173_S268_P0.5240.29
211_R215_Y0.5240.29
24_G32_V0.5220.28
212_T303_I0.5200.28
64_F76_G0.5200.28
132_L302_T0.5190.28
177_V203_R0.5190.28
180_S233_V0.5180.28
157_S211_R0.5160.28
172_R220_L0.5160.28
97_K209_I0.5160.28
131_N141_R0.5150.28
63_A72_K0.5150.28
146_L201_V0.5140.28
77_A86_K0.5110.28
148_L180_S0.5110.28
132_L161_R0.5090.27
246_A250_A0.5080.27
31_L178_A0.5070.27
36_E140_D0.5070.27
67_K74_R0.5060.27
276_V297_D0.5050.27
166_D216_V0.5040.27
109_R143_A0.5040.27
39_G148_L0.5010.27
162_R208_E0.5000.27
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  
4bbrM 1 0.5893 100 0.263 Contact Map
1aisB 1 0.5925 100 0.596 Contact Map
1c9bA 1 0.6019 100 0.604 Contact Map
2pk2A 3 0.6803 99.9 0.719 Contact Map
2w96A 1 0.7147 99.9 0.725 Contact Map
4f6uB 1 0.7147 99.9 0.726 Contact Map
3g33B 2 0.6771 99.9 0.731 Contact Map
2b9rA 1 0.6865 99.9 0.732 Contact Map
3k1fM 1 0.1661 99.9 0.736 Contact Map
4eojB 1 0.6991 99.9 0.736 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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