GREMLIN Database
TF2B1 - Transcription initiation factor IIB 1
UniProt: P58111 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 309 (277)
Sequences: 1030 (673)
Seq/√Len: 40.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
225_A264_I6.4411.00
31_C34_T3.9271.00
131_G170_I3.6851.00
294_R297_E3.6181.00
123_A148_Y3.5401.00
231_S273_E3.5301.00
12_S34_T3.4031.00
237_T271_H3.3921.00
277_Q292_R3.3051.00
23_D26_R2.8571.00
126_E129_R2.7831.00
278_K288_E2.7031.00
124_M145_A2.6251.00
131_G141_K2.5881.00
130_I170_I2.5711.00
59_K64_G2.4681.00
51_A54_P2.4161.00
170_I186_I2.4151.00
20_I29_Y2.3901.00
48_E62_R2.3681.00
12_S15_C2.3261.00
237_T240_E2.2961.00
15_C31_C2.2681.00
194_R198_A2.2041.00
144_A173_A2.1670.99
136_L170_I2.1490.99
288_E296_K2.0440.99
20_I38_L2.0360.99
159_G256_P1.9960.99
143_E176_R1.9870.99
130_I189_Y1.9650.99
12_S31_C1.9510.99
238_A267_A1.8860.98
238_A260_A1.8850.98
72_H75_G1.8850.98
12_S16_P1.8600.98
140_V173_A1.8540.98
19_K33_E1.7500.97
224_I228_L1.7460.97
278_K291_V1.7160.97
15_C34_T1.7160.97
181_R185_E1.6530.96
241_I267_A1.6240.96
224_I264_I1.6210.96
123_A199_R1.6100.96
186_I189_Y1.5850.95
205_L212_V1.5760.95
241_I263_A1.5680.95
83_K117_D1.5540.95
50_R62_R1.5310.94
48_E60_R1.5280.94
242_I259_L1.5060.94
258_G262_A1.4900.93
258_G290_T1.4890.93
51_A56_E1.4840.93
175_R198_A1.4660.93
148_Y157_V1.4550.93
261_A284_A1.4390.92
146_L149_R1.4200.92
218_K243_D1.4200.92
46_G49_W1.4080.91
150_K154_K1.3950.91
100_A103_W1.3770.90
268_S283_V1.3700.90
216_D219_D1.3680.90
276_T279_E1.3670.90
242_I263_A1.3640.90
72_H292_R1.3620.90
230_L275_R1.3570.90
279_E283_V1.3540.90
274_R279_E1.3420.89
234_V271_H1.3270.89
183_L194_R1.3010.88
185_E223_R1.3000.88
234_V273_E1.2950.87
220_Y225_A1.2890.87
33_E131_G1.2880.87
60_R64_G1.2880.87
143_E177_M1.2820.87
31_C35_G1.2810.87
275_R279_E1.2740.87
172_A210_V1.2670.86
264_I284_A1.2520.86
120_L145_A1.2430.85
277_Q289_V1.2400.85
29_Y241_I1.2320.85
186_I212_V1.2260.84
204_L227_L1.2250.84
19_K32_S1.2190.84
14_P17_P1.2190.84
172_A175_R1.2040.83
250_L268_S1.1880.82
61_S64_G1.1800.82
198_A224_I1.1740.82
52_F224_I1.1730.82
263_A267_A1.1660.81
14_P36_E1.1650.81
121_A125_N1.1520.80
123_A152_V1.1370.80
106_W148_Y1.1370.80
123_A127_L1.1260.79
183_L198_A1.1250.79
262_A290_T1.1250.79
272_D276_T1.1250.79
68_N83_K1.1140.78
11_V32_S1.1110.78
131_G259_L1.1090.78
171_Y215_S1.0980.77
21_I261_A1.0940.77
64_G80_I1.0930.77
167_A174_C1.0930.77
242_I260_A1.0860.76
49_W60_R1.0810.76
232_G236_K1.0800.76
110_A167_A1.0710.75
235_M239_A1.0700.75
149_R173_A1.0660.75
216_D246_K1.0630.75
51_A59_K1.0600.75
216_D242_I1.0590.74
49_W52_F1.0590.74
140_V179_L1.0580.74
158_R288_E1.0580.74
30_I296_K1.0510.74
206_R279_E1.0510.74
20_I25_E1.0480.74
286_V291_V1.0470.74
143_E146_L1.0360.73
148_Y162_I1.0280.72
66_P72_H1.0270.72
22_F39_E1.0250.72
186_I249_G1.0230.72
33_E137_P1.0230.72
165_V200_C1.0140.71
140_V246_K1.0110.71
76_L80_I1.0020.70
181_R223_R0.9980.70
30_I283_V0.9980.70
261_A291_V0.9950.70
115_S168_A0.9930.70
119_N172_A0.9890.69
49_W66_P0.9870.69
102_R106_W0.9870.69
136_L300_Q0.9760.68
16_P213_P0.9730.68
66_P73_D0.9730.68
165_V204_L0.9730.68
264_I280_I0.9690.68
254_K259_L0.9680.68
79_L107_Q0.9630.67
258_G286_V0.9560.67
268_S274_R0.9540.66
237_T270_L0.9450.66
68_N258_G0.9340.65
193_N197_V0.9330.65
145_A149_R0.9320.65
195_K296_K0.9320.65
23_D27_G0.9300.64
244_K248_S0.9250.64
136_L174_C0.9240.64
117_D154_K0.9210.64
78_T107_Q0.9210.64
158_R259_L0.9190.64
37_V169_A0.9100.63
13_T264_I0.9020.62
153_E278_K0.9000.62
44_D48_E0.8990.62
145_A152_V0.8930.61
171_Y174_C0.8910.61
26_R284_A0.8840.60
218_K285_G0.8830.60
151_A210_V0.8810.60
221_V242_I0.8800.60
172_A268_S0.8780.60
231_S234_V0.8760.60
180_A219_D0.8760.60
36_E76_L0.8760.60
48_E52_F0.8710.59
22_F28_E0.8670.59
141_K170_I0.8670.59
193_N196_E0.8640.59
144_A169_A0.8630.59
275_R288_E0.8610.58
109_R253_G0.8610.58
243_D247_G0.8600.58
127_L166_V0.8550.58
63_V79_L0.8540.58
281_A284_A0.8510.58
214_V276_T0.8490.57
123_A262_A0.8460.57
127_L148_Y0.8430.57
150_K210_V0.8420.57
54_P59_K0.8390.56
53_T56_E0.8360.56
100_A125_N0.8340.56
198_A255_D0.8340.56
182_T185_E0.8240.55
12_S17_P0.8210.55
20_I27_G0.8180.55
110_A142_D0.8120.54
37_V69_N0.8110.54
19_K77_S0.8110.54
258_G294_R0.8030.53
123_A162_I0.8000.53
11_V20_I0.7980.53
29_Y32_S0.7920.52
218_K246_K0.7910.52
210_V242_I0.7890.52
223_R255_D0.7830.51
123_A151_A0.7830.51
37_V179_L0.7830.51
119_N148_Y0.7810.51
197_V243_D0.7800.51
159_G290_T0.7790.51
278_K286_V0.7770.51
105_K185_E0.7770.51
201_Y253_G0.7760.51
134_L247_G0.7730.50
40_D45_Q0.7720.50
230_L273_E0.7690.50
16_P34_T0.7670.50
182_T186_I0.7660.50
140_V177_M0.7650.50
126_E199_R0.7630.49
289_V292_R0.7630.49
76_L79_L0.7570.49
78_T181_R0.7570.49
30_I110_A0.7520.48
101_L105_K0.7500.48
142_D145_A0.7470.48
126_E130_I0.7420.48
259_L294_R0.7390.47
38_L192_A0.7370.47
187_A192_A0.7300.46
238_A242_I0.7300.46
75_G80_I0.7270.46
250_L297_E0.7230.46
283_V291_V0.7160.45
21_I137_P0.7140.45
56_E279_E0.7100.45
107_Q131_G0.7080.44
228_L264_I0.7080.44
127_L145_A0.7050.44
138_K211_S0.7050.44
16_P21_I0.7040.44
165_V191_K0.7010.44
86_D100_A0.6990.44
127_L133_L0.6990.44
108_I121_A0.6980.44
123_A160_R0.6980.44
108_I162_I0.6920.43
255_D291_V0.6910.43
46_G65_G0.6860.42
86_D106_W0.6860.42
120_L124_M0.6860.42
241_I253_G0.6860.42
38_L255_D0.6830.42
63_V72_H0.6830.42
187_A199_R0.6800.42
110_A113_Q0.6790.42
62_R78_T0.6790.42
72_H77_S0.6790.42
201_Y258_G0.6780.42
268_S273_E0.6780.42
85_K197_V0.6780.42
274_R283_V0.6770.42
197_V261_A0.6770.42
17_P33_E0.6750.41
123_A161_S0.6740.41
136_L168_A0.6740.41
123_A291_V0.6730.41
198_A201_Y0.6700.41
133_L189_Y0.6700.41
190_T295_Y0.6670.41
230_L264_I0.6670.41
53_T182_T0.6660.41
27_G42_I0.6650.41
148_Y294_R0.6640.40
41_K47_P0.6610.40
168_A221_V0.6600.40
270_L295_Y0.6590.40
53_T259_L0.6590.40
190_T215_S0.6570.40
41_K190_T0.6570.40
150_K176_R0.6560.40
164_S168_A0.6560.40
228_L280_I0.6560.40
266_I280_I0.6550.40
192_A227_L0.6500.39
148_Y211_S0.6490.39
130_I153_E0.6460.39
81_D212_V0.6430.39
201_Y204_L0.6420.39
62_R80_I0.6420.39
106_W109_R0.6390.38
144_A172_A0.6380.38
129_R235_M0.6330.38
134_L160_R0.6310.38
115_S203_L0.6290.37
40_D266_I0.6250.37
266_I296_K0.6250.37
118_R126_E0.6250.37
225_A234_V0.6210.37
151_A284_A0.6200.37
147_I169_A0.6190.37
261_A266_I0.6180.36
166_V211_S0.6180.36
163_E166_V0.6180.36
166_V170_I0.6160.36
17_P41_K0.6140.36
186_I222_T0.6090.36
259_L284_A0.6070.36
136_L147_I0.6060.35
106_W207_E0.6030.35
123_A287_T0.6020.35
49_W62_R0.6010.35
103_W107_Q0.6010.35
73_D277_Q0.5990.35
134_L245_A0.5980.35
121_A242_I0.5960.35
145_A199_R0.5940.34
67_L114_S0.5930.34
75_G145_A0.5890.34
113_Q241_I0.5880.34
196_E199_R0.5880.34
241_I296_K0.5880.34
124_M195_K0.5860.34
115_S297_E0.5860.34
116_I229_G0.5850.34
13_T38_L0.5830.34
43_I49_W0.5820.33
249_G254_K0.5770.33
65_G72_H0.5770.33
81_D129_R0.5760.33
80_I132_N0.5760.33
22_F127_L0.5750.33
154_K204_L0.5750.33
75_G292_R0.5730.33
127_L206_R0.5730.33
46_G51_A0.5730.33
200_C291_V0.5710.33
168_A239_A0.5710.33
44_D47_P0.5700.32
52_F228_L0.5680.32
250_L261_A0.5660.32
234_V238_A0.5650.32
122_Q246_K0.5650.32
278_K293_N0.5640.32
254_K274_R0.5640.32
286_V290_T0.5610.32
234_V263_A0.5590.32
276_T292_R0.5580.32
28_E292_R0.5570.31
161_S202_R0.5570.31
204_L274_R0.5560.31
44_D54_P0.5550.31
295_Y299_T0.5540.31
77_S130_I0.5540.31
23_D36_E0.5530.31
161_S256_P0.5530.31
174_C215_S0.5530.31
184_D194_R0.5520.31
236_K272_D0.5520.31
188_Q301_E0.5510.31
47_P51_A0.5490.31
279_E282_Q0.5480.31
21_I32_S0.5460.31
35_G253_G0.5440.30
209_D261_A0.5440.30
130_I146_L0.5430.30
185_E196_E0.5430.30
148_Y151_A0.5410.30
117_D141_K0.5410.30
196_E221_V0.5410.30
35_G171_Y0.5390.30
26_R42_I0.5380.30
259_L281_A0.5370.30
260_A284_A0.5360.30
102_R107_Q0.5360.30
234_V267_A0.5340.30
14_P20_I0.5340.30
129_R207_E0.5340.30
105_K191_K0.5320.29
198_A272_D0.5320.29
143_E214_V0.5290.29
170_I249_G0.5260.29
73_D76_L0.5260.29
192_A255_D0.5260.29
39_E45_Q0.5250.29
254_K267_A0.5240.29
46_G291_V0.5210.29
151_A204_L0.5200.29
203_L241_I0.5190.28
222_T235_M0.5190.28
32_S135_N0.5190.28
120_L149_R0.5170.28
167_A190_T0.5170.28
73_D80_I0.5170.28
151_A217_P0.5150.28
263_A282_Q0.5130.28
80_I118_R0.5110.28
155_G233_A0.5100.28
127_L144_A0.5100.28
11_V19_K0.5090.28
60_R65_G0.5090.28
245_A251_T0.5080.28
84_D234_V0.5080.28
191_K261_A0.5050.27
152_V263_A0.5050.27
163_E295_Y0.5040.27
148_Y201_Y0.5020.27
83_K191_K0.5010.27
80_I85_K0.5010.27
22_F218_K0.5010.27
78_T109_R0.5010.27
18_D204_L0.5000.27
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 0.6117 100 0.245 Contact Map
1aisB 1 0.6181 100 0.581 Contact Map
1c9bA 1 0.6278 100 0.587 Contact Map
2pk2A 3 0.7055 99.9 0.702 Contact Map
4f6uB 1 0.7443 99.9 0.707 Contact Map
2w96A 1 0.7443 99.9 0.71 Contact Map
2b9rA 1 0.6926 99.9 0.719 Contact Map
4eojB 1 0.7023 99.9 0.721 Contact Map
3g33B 2 0.7023 99.9 0.722 Contact Map
2i53A 1 0.7282 99.9 0.726 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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