GREMLIN Database
TF2B7 - Transcription initiation factor IIB 7
UniProt: Q9HSF7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 323 (279)
Sequences: 1064 (673)
Seq/√Len: 40.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
242_C281_I6.6981.00
148_A187_L4.1291.00
248_T290_E4.0621.00
48_C51_C4.0601.00
29_C51_C3.9061.00
311_R314_E3.5681.00
29_C32_C3.4461.00
254_K288_C3.4151.00
294_Q309_R3.4011.00
140_A165_Y3.1161.00
147_M187_L2.9151.00
32_C48_C2.9111.00
40_S43_R2.8121.00
143_E146_R2.8071.00
37_L46_L2.7921.00
37_L55_V2.7731.00
187_L203_I2.5951.00
148_A158_R2.5731.00
295_R305_E2.5111.00
141_L162_S2.4701.00
32_C51_C2.3941.00
65_E79_R2.3581.00
29_C48_C2.3451.00
278_A301_A2.2521.00
161_A190_A2.2381.00
68_A71_H2.1300.99
176_G273_P2.0890.99
211_R215_G2.0690.99
254_K257_E2.0570.99
153_V187_L2.0430.99
147_M206_V2.0160.99
29_C33_G1.9600.99
258_I284_A1.8440.98
305_E313_Q1.8380.98
295_R308_I1.7900.98
160_V193_K1.7860.98
157_V190_A1.7820.98
89_H92_G1.7700.98
241_F245_L1.7650.97
241_F281_I1.7350.97
255_A277_A1.7050.97
140_A216_R1.6380.96
255_A284_A1.6150.96
258_I280_A1.6140.96
47_V300_V1.6020.96
36_N50_D1.5520.95
198_R202_E1.5280.94
259_I276_Y1.5270.94
275_G307_T1.5130.94
293_T296_E1.5130.94
37_L42_D1.5110.94
222_S229_M1.5090.94
165_Y174_I1.4820.93
203_I206_V1.4790.93
160_V194_E1.4790.93
140_A169_L1.4690.93
163_V166_R1.4690.93
259_I280_A1.4600.93
189_A227_L1.4510.92
233_D236_K1.4510.92
251_V288_C1.4410.92
48_C52_G1.4220.92
66_W77_K1.4060.91
275_G279_A1.3880.91
251_V290_E1.3730.90
65_E77_K1.3710.90
167_R171_E1.3700.90
192_R215_G1.3660.90
36_N49_N1.3650.90
303_V308_I1.3590.90
261_T265_E1.3320.89
76_E81_G1.3080.88
34_S50_D1.3020.88
63_G66_W1.2970.87
140_A144_I1.2940.87
202_E240_R1.2900.87
151_L264_E1.2880.87
29_C34_S1.2870.87
285_S300_V1.2850.87
247_L292_K1.2720.86
67_R79_R1.2630.86
291_K296_E1.2630.86
144_I183_A1.2520.85
223_Q296_E1.2460.85
235_K260_E1.2350.85
189_A192_R1.2340.85
237_Y242_C1.2150.84
127_I184_T1.2140.84
66_W69_F1.2110.84
200_L215_G1.2060.83
31_E53_L1.1980.83
294_Q306_V1.1860.82
39_K56_E1.1840.82
278_A283_A1.1810.82
252_Q256_N1.1790.82
46_L258_I1.1720.81
233_D259_I1.1660.81
89_H309_R1.1550.80
138_Q142_S1.1490.80
215_G241_F1.1400.80
280_A284_A1.1370.79
296_E300_V1.1340.79
68_A73_E1.1310.79
50_D148_A1.1200.78
117_M120_L1.1100.78
200_L211_R1.0950.77
245_L281_I1.0870.76
266_G271_K1.0780.76
160_V163_V1.0770.76
292_K305_E1.0610.74
65_E69_F1.0600.74
203_I266_G1.0570.74
40_S44_A1.0480.74
30_P55_V1.0400.73
278_A308_I1.0360.73
158_R187_L1.0360.73
242_C245_L1.0350.73
259_I277_A1.0290.72
281_I301_A1.0280.72
137_L162_S1.0250.72
203_I229_M1.0240.72
140_A279_A1.0200.71
298_A301_A1.0170.71
50_D154_P1.0170.71
123_W126_R1.0170.71
165_Y179_I1.0170.71
278_A298_A1.0130.71
182_V221_I1.0120.71
61_D65_E1.0120.71
188_Y232_V1.0090.71
47_V313_Q1.0050.70
199_S202_E1.0030.70
95_T198_R1.0030.70
148_A276_Y0.9920.69
55_V272_S0.9910.69
215_G272_S0.9830.69
292_K296_E0.9820.69
31_E34_S0.9750.68
157_V196_I0.9680.67
66_W83_P0.9650.67
140_A308_I0.9620.67
136_N189_A0.9570.67
83_P90_D0.9510.66
28_E49_N0.9500.66
98_D146_R0.9470.66
247_L251_V0.9460.66
37_L44_A0.9360.65
39_K144_I0.9280.64
267_L278_A0.9190.63
204_S209_V0.9170.63
80_V87_T0.9150.63
39_K235_K0.9100.63
166_R190_A0.9030.62
283_A297_V0.8980.62
199_S203_I0.8950.61
176_G307_T0.8950.61
88_M100_K0.8920.61
204_S292_K0.8880.61
182_V217_T0.8820.60
189_A285_S0.8770.60
134_E171_E0.8770.60
90_D93_L0.8750.60
267_L314_E0.8720.59
285_S290_E0.8720.59
125_E138_Q0.8720.59
79_R95_T0.8720.59
210_E213_E0.8710.59
175_R305_E0.8700.59
254_K287_L0.8670.59
295_R303_V0.8650.59
144_I162_S0.8630.58
95_T241_F0.8630.58
38_V278_A0.8630.58
164_I186_A0.8590.58
198_R240_R0.8570.58
267_L285_S0.8550.58
277_A301_A0.8530.58
170_K295_R0.8450.57
100_K134_E0.8440.57
85_T89_H0.8430.57
306_V309_R0.8420.57
235_K302_Q0.8400.56
103_D122_K0.8370.56
289_N293_T0.8330.56
157_V263_A0.8310.56
133_G246_E0.8310.56
162_S166_R0.8300.55
137_L197_P0.8290.55
140_A304_T0.8250.55
153_V317_E0.8250.55
46_L49_N0.8200.55
68_A76_E0.8190.54
143_E216_R0.8150.54
30_P281_I0.8150.54
92_G98_D0.8140.54
178_S219_R0.8130.54
235_K263_A0.8120.54
151_L262_T0.8100.54
69_F241_F0.8100.54
82_A91_K0.8090.54
33_G51_C0.8090.54
60_I78_S0.8070.53
188_Y191_C0.8060.53
208_R278_A0.7990.53
140_A168_A0.7960.52
191_C232_V0.7930.52
94_T185_S0.7910.52
35_D221_I0.7880.52
258_I313_Q0.7880.52
153_V185_S0.7790.51
55_V209_V0.7780.51
157_V194_E0.7770.51
175_R227_L0.7750.50
212_K313_Q0.7740.50
118_H122_K0.7720.50
162_S169_L0.7720.50
153_V191_C0.7670.50
271_K291_K0.7650.50
213_E216_R0.7620.49
69_F81_G0.7610.49
119_R123_W0.7600.49
233_D263_A0.7550.49
124_Q148_A0.7520.48
275_G311_R0.7490.48
165_Y228_E0.7490.48
215_G218_Y0.7470.48
76_E268_L0.7460.48
240_R272_S0.7440.48
60_I66_W0.7420.47
144_I165_Y0.7420.47
39_K45_E0.7390.47
175_R276_Y0.7380.47
272_S308_I0.7370.47
281_I297_V0.7370.47
127_I130_K0.7360.47
161_A186_A0.7340.47
279_A307_T0.7330.47
98_D229_M0.7320.46
53_L93_L0.7310.46
63_G308_I0.7290.46
144_I150_A0.7290.46
275_G303_V0.7260.46
41_S56_E0.7220.46
295_R310_N0.7210.45
39_K46_L0.7170.45
79_R97_I0.7170.45
132_A314_E0.7150.45
164_I190_A0.7150.45
271_K276_Y0.7140.45
55_V213_E0.7120.45
70_N276_Y0.7040.44
250_E288_C0.7030.44
100_K124_Q0.6990.43
276_Y301_A0.6920.43
121_R124_Q0.6870.42
265_E289_N0.6850.42
172_D275_G0.6820.42
184_T191_C0.6820.42
251_V255_A0.6810.42
127_I192_R0.6780.42
203_I213_E0.6780.42
52_G270_G0.6770.42
218_Y275_G0.6730.41
255_A259_I0.6730.41
139_F263_A0.6720.41
197_P236_K0.6720.41
120_L206_V0.6660.41
119_R124_Q0.6660.41
71_H76_E0.6650.40
68_A77_K0.6620.40
126_R270_G0.6590.40
218_Y221_I0.6570.40
214_I260_E0.6550.40
300_V308_I0.6520.39
97_I102_K0.6510.39
258_I270_G0.6500.39
287_L312_Y0.6490.39
153_V164_I0.6440.39
171_E296_E0.6430.39
166_R306_V0.6390.38
197_P280_A0.6390.38
44_A59_Q0.6390.38
243_S278_A0.6360.38
116_Q120_L0.6360.38
117_M142_S0.6350.38
81_G191_C0.6340.38
191_C259_I0.6340.38
69_F77_K0.6340.38
143_E147_M0.6320.38
183_A187_L0.6310.37
134_E158_R0.6300.37
101_D167_R0.6290.37
121_R135_R0.6270.37
132_A220_Y0.6260.37
249_E253_S0.6250.37
151_L255_A0.6250.37
67_R77_K0.6250.37
230_K236_K0.6230.37
303_V307_T0.6220.37
90_D294_Q0.6200.37
33_G230_K0.6190.36
83_P245_L0.6150.36
285_S291_K0.6140.36
238_V259_I0.6130.36
239_P252_Q0.6120.36
136_N146_R0.6110.36
85_T100_K0.6090.36
70_N73_E0.6070.35
165_Y311_R0.6060.35
140_A179_I0.6060.35
235_K250_E0.6040.35
150_A206_V0.6020.35
178_S273_P0.5980.35
226_G246_E0.5980.35
96_T124_Q0.5960.35
54_V191_C0.5960.35
137_L141_L0.5960.35
57_E62_P0.5950.34
165_Y218_Y0.5950.34
184_T207_S0.5940.34
144_I223_Q0.5930.34
232_V274_T0.5920.34
155_R228_E0.5920.34
30_P51_C0.5900.34
187_L194_E0.5900.34
58_E64_P0.5890.34
54_V86_Q0.5880.34
70_N199_S0.5870.34
140_A178_S0.5860.34
251_V270_G0.5860.34
118_H232_V0.5860.34
36_N59_Q0.5860.34
38_V49_N0.5850.34
53_L243_S0.5830.33
39_K124_Q0.5830.33
202_E307_T0.5820.33
158_R264_E0.5800.33
61_D64_P0.5770.33
201_E211_R0.5760.33
125_E184_T0.5750.33
66_W79_R0.5720.33
207_S312_Y0.5710.32
221_I274_T0.5700.32
93_L96_T0.5700.32
262_T268_L0.5680.32
188_Y218_Y0.5660.32
203_I239_P0.5650.32
91_K173_L0.5650.32
134_E175_R0.5650.32
75_Q84_T0.5630.32
187_L266_G0.5630.32
123_W165_Y0.5610.32
202_E312_Y0.5590.31
166_R253_S0.5590.31
276_Y298_A0.5590.31
38_V46_L0.5580.31
28_E33_G0.5570.31
123_W164_I0.5560.31
28_E37_L0.5560.31
56_E300_V0.5550.31
61_D67_R0.5530.31
155_R159_E0.5520.31
167_R213_E0.5510.31
218_Y270_G0.5470.31
238_V310_N0.5460.30
207_S232_V0.5460.30
151_L177_R0.5440.30
147_M170_K0.5430.30
129_T144_I0.5420.30
205_E318_A0.5420.30
221_I244_E0.5390.30
278_A282_Y0.5380.30
296_E299_D0.5380.30
94_T102_K0.5380.30
32_C49_N0.5380.30
220_Y258_I0.5370.30
230_K241_F0.5360.30
185_S238_V0.5350.30
42_D45_E0.5350.30
119_R173_L0.5350.30
217_T308_I0.5340.30
183_A228_E0.5330.29
251_V280_A0.5310.29
181_G185_S0.5310.29
162_S167_R0.5310.29
164_I205_E0.5300.29
140_A177_R0.5280.29
168_A173_L0.5280.29
92_G151_L0.5240.29
62_P212_K0.5240.29
54_V196_I0.5240.29
43_R301_A0.5230.29
182_V245_L0.5210.29
85_T275_G0.5210.29
57_E283_A0.5180.28
272_S282_Y0.5140.28
118_H172_D0.5140.28
40_S53_L0.5140.28
90_D309_R0.5120.28
223_Q243_S0.5110.28
267_L316_I0.5110.28
44_A153_V0.5090.28
161_A189_A0.5090.28
127_I159_E0.5080.28
36_N42_D0.5080.28
260_E264_E0.5070.28
123_W224_E0.5070.28
101_D251_V0.5040.27
272_S275_G0.5030.27
152_G189_A0.5030.27
29_C53_L0.5020.27
168_A218_Y0.5020.27
29_C37_L0.5020.27
68_A78_S0.5020.27
83_P89_H0.5010.27
56_E62_P0.5010.27
69_F72_Q0.5000.27
227_L259_I0.5000.27
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 0.5851 100 0.267 Contact Map
1aisB 1 0.582 100 0.594 Contact Map
1c9bA 1 0.5913 100 0.616 Contact Map
2pk2A 3 0.6687 99.9 0.712 Contact Map
4f6uB 1 0.7028 99.9 0.723 Contact Map
2w96A 1 0.7028 99.9 0.726 Contact Map
2b9rA 1 0.6533 99.9 0.735 Contact Map
4eojB 1 0.6625 99.9 0.738 Contact Map
3g33B 2 0.6687 99.9 0.739 Contact Map
3k1fM 1 0.1672 99.9 0.739 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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