GREMLIN Database
TF2B4 - Transcription initiation factor IIB 4
UniProt: Q9HR45 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 328 (279)
Sequences: 1068 (671)
Seq/√Len: 40.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
244_C283_V6.5421.00
39_L57_V3.8911.00
32_C53_C3.8901.00
50_C53_C3.8491.00
256_R290_T3.6861.00
313_R316_E3.6301.00
250_S292_E3.5981.00
150_A189_L3.5881.00
142_A167_Y3.2861.00
296_Q311_R3.2341.00
39_L48_T3.1591.00
32_C35_C2.8491.00
149_M189_L2.8361.00
297_N307_E2.7041.00
35_C50_C2.6701.00
150_A160_R2.6321.00
145_E148_R2.5641.00
143_L164_S2.5551.00
189_L205_V2.5371.00
32_C50_C2.3441.00
42_D45_R2.2291.00
163_A192_A2.2181.00
149_M208_V2.1990.99
257_A286_A2.1700.99
256_R259_D2.1610.99
307_E315_H2.1580.99
213_R217_A2.1520.99
67_E81_R2.1330.99
280_A303_A2.1040.99
70_A73_A2.0270.99
178_G275_P1.9930.99
35_C53_C1.9910.99
162_T195_Q1.9820.99
167_Y176_L1.9610.99
159_V192_A1.9030.98
155_L189_L1.8920.98
118_K122_L1.8830.98
257_A279_A1.8410.98
119_M122_L1.8070.98
119_M123_R1.8070.98
243_F283_V1.7940.98
115_Q118_K1.7690.98
32_C36_N1.7500.97
42_D46_G1.7290.97
297_N310_I1.6470.96
260_L286_A1.6400.96
200_R204_E1.5990.95
38_D52_E1.5860.95
277_G309_T1.5730.95
224_A231_V1.5690.95
165_V168_R1.5660.95
194_R217_A1.5500.95
261_L278_L1.5470.95
142_A171_L1.5420.94
205_V208_V1.5240.94
249_L294_V1.5130.94
162_T196_A1.5080.94
68_W79_K1.5050.94
142_A218_R1.4630.93
253_V290_T1.4490.92
70_A75_E1.4320.92
260_L282_S1.4290.92
295_T298_E1.4150.91
277_G281_A1.4130.91
305_V310_I1.3990.91
91_H94_G1.3990.91
225_R298_E1.3960.91
287_A302_V1.3880.91
65_G68_W1.3830.90
91_H311_R1.3800.90
243_F247_L1.3550.90
38_D51_G1.3270.89
300_S303_A1.3170.88
191_A229_L1.3110.88
36_N40_V1.3090.88
204_E242_R1.2920.87
261_L282_S1.2880.87
202_L217_A1.2670.86
281_A309_T1.2620.86
298_E302_V1.2560.86
67_E79_K1.2520.85
69_R81_R1.2500.85
253_V292_E1.2490.85
283_V303_A1.2460.85
50_C54_G1.2320.84
169_R173_E1.2280.84
296_Q308_V1.2260.84
235_D261_L1.2240.84
237_A262_A1.2040.83
282_S286_A1.1850.82
48_T260_L1.1830.82
159_V198_T1.1800.82
235_D238_S1.1740.81
81_R97_T1.1600.81
162_T165_V1.1590.81
217_A243_F1.1550.80
205_V231_V1.1440.80
294_V298_E1.1440.80
140_K144_G1.1420.80
280_A310_I1.1380.79
280_A285_A1.1270.79
142_A180_S1.1230.78
291_N295_T1.1210.78
263_A267_A1.1130.78
52_E150_A1.1100.78
190_Y234_T1.1020.77
191_A194_R1.1020.77
63_D67_E1.1020.77
202_L213_R1.0930.77
142_A146_I1.0890.76
294_V307_E1.0880.76
41_T58_E1.0810.76
146_I164_S1.0770.75
34_E55_L1.0740.75
164_S171_L1.0680.75
261_L279_A1.0670.75
254_E258_R1.0660.75
146_I185_A1.0640.75
131_T146_I1.0560.74
235_D265_A1.0560.74
68_W71_F1.0520.74
70_A78_E1.0460.73
33_P57_V1.0400.73
153_F266_D1.0330.72
68_W85_P1.0320.72
33_P283_V1.0310.72
49_T302_V1.0290.72
56_V188_A1.0170.71
40_V51_G1.0150.71
308_V311_R1.0150.71
214_G315_H1.0030.70
41_T47_E0.9960.70
31_G36_N0.9900.69
172_G297_N0.9860.69
39_L44_D0.9840.69
41_T48_T0.9840.69
293_R298_E0.9810.68
128_R272_G0.9700.68
155_L319_D0.9660.67
139_L164_S0.9550.66
95_L98_N0.9540.66
177_P307_E0.9520.66
52_E156_P0.9500.66
115_Q119_M0.9490.66
199_P238_S0.9490.66
167_Y181_I0.9430.65
150_A278_L0.9400.65
256_R289_L0.9360.65
86_T133_N0.9330.64
163_A188_A0.9300.64
217_A220_Y0.9220.64
39_L46_G0.9200.63
249_L253_V0.9200.63
184_V223_V0.9190.63
168_R192_A0.9160.63
185_A230_E0.9140.63
102_Q136_E0.9130.63
274_S310_I0.9000.62
186_T193_A0.8990.62
87_T91_H0.8930.61
67_E71_F0.8910.61
31_G51_G0.8860.60
200_R242_R0.8860.60
212_D215_E0.8840.60
215_E218_R0.8820.60
177_P229_L0.8800.60
273_K286_A0.8780.60
201_S204_E0.8750.59
155_L193_A0.8700.59
280_A300_S0.8630.58
153_F179_R0.8610.58
90_M102_Q0.8590.58
247_L283_V0.8560.58
164_S168_R0.8550.58
277_G305_V0.8540.58
40_V280_A0.8470.57
100_G231_V0.8450.57
277_G313_R0.8440.57
159_V265_A0.8400.56
179_R227_L0.8330.56
146_I152_A0.8310.55
71_F243_F0.8300.55
160_R189_L0.8250.55
59_E64_H0.8210.55
180_S221_R0.8150.54
68_W81_R0.8150.54
40_V48_T0.8120.54
48_T51_G0.8100.54
145_E218_R0.8060.53
37_G223_V0.8050.53
295_T307_E0.8030.53
115_Q212_D0.7990.53
138_N191_A0.7980.52
264_A270_T0.7950.52
217_A291_N0.7940.52
206_A211_V0.7930.52
201_S205_V0.7890.52
217_A274_S0.7880.52
41_T260_L0.7850.51
36_N53_C0.7830.51
56_V88_N0.7830.51
240_V261_L0.7790.51
244_C247_L0.7680.50
237_A304_N0.7670.50
239_Y244_C0.7660.50
212_D216_I0.7650.49
268_G273_K0.7640.49
145_E149_M0.7620.49
166_I188_A0.7610.49
297_N305_V0.7600.49
220_Y277_G0.7580.49
177_P278_L0.7560.49
138_N167_Y0.7560.49
220_Y223_V0.7550.49
134_S187_S0.7540.48
242_R274_S0.7540.48
279_A303_A0.7530.48
82_V205_V0.7520.48
191_A287_A0.7490.48
210_R280_A0.7480.48
193_A261_L0.7420.47
99_I137_R0.7400.47
219_T310_I0.7390.47
32_C55_L0.7380.47
65_G310_I0.7370.47
72_N278_L0.7360.47
170_A229_L0.7350.47
190_Y193_A0.7320.46
123_R255_R0.7260.46
57_V274_S0.7260.46
47_E121_R0.7250.46
56_V198_T0.7240.46
295_T311_R0.7240.46
203_D213_R0.7240.46
205_V268_G0.7180.45
216_I262_A0.7160.45
237_A265_A0.7150.45
297_N312_N0.7100.44
142_A181_I0.7090.44
209_S234_T0.7040.44
225_R245_S0.7020.44
65_G70_A0.7020.44
247_L299_V0.7020.44
178_G309_T0.6990.43
281_A286_A0.6980.43
142_A306_S0.6970.43
142_A281_A0.6960.43
211_V246_D0.6930.43
228_S248_E0.6890.43
73_A78_E0.6890.43
167_Y313_R0.6880.42
46_G61_G0.6870.42
87_T102_Q0.6850.42
249_L292_E0.6810.42
141_Q265_A0.6790.42
269_I280_A0.6780.42
185_A257_A0.6760.41
74_Q319_D0.6750.41
72_N75_E0.6740.41
209_S314_Y0.6740.41
193_A196_A0.6720.41
62_I68_W0.6690.41
287_A293_R0.6690.41
184_V219_T0.6680.41
178_G305_V0.6670.41
229_L261_L0.6660.40
260_L272_G0.6610.40
199_P282_S0.6560.40
82_V211_V0.6560.40
36_N232_A0.6540.39
142_A150_A0.6540.39
34_E52_E0.6530.39
139_L143_L0.6520.39
273_K278_L0.6520.39
83_G99_I0.6510.39
240_V312_N0.6510.39
60_D66_P0.6500.39
96_S149_M0.6490.39
77_D86_T0.6490.39
49_T315_H0.6460.39
179_R286_A0.6460.39
287_A292_E0.6460.39
232_A244_C0.6460.39
167_Y170_A0.6440.39
163_A269_I0.6360.38
87_T277_G0.6350.38
139_L168_R0.6300.37
269_I287_A0.6300.37
305_V309_T0.6290.37
157_D161_E0.6280.37
36_N137_R0.6280.37
146_I225_R0.6280.37
92_D296_Q0.6280.37
155_L187_S0.6270.37
96_S187_S0.6220.37
58_E64_H0.6220.37
251_G255_R0.6210.37
146_I163_A0.6200.36
187_S258_R0.6190.36
92_D95_L0.6190.36
117_R120_Q0.6180.36
278_L303_A0.6170.36
167_Y220_Y0.6170.36
104_K291_N0.6140.36
137_R145_E0.6120.36
72_N201_S0.6110.36
140_K261_L0.6110.36
183_G187_S0.6100.36
182_E185_A0.6100.36
49_T198_T0.6090.36
193_A234_T0.6080.35
89_M92_D0.6050.35
285_A299_V0.6040.35
97_T137_R0.6030.35
70_A76_Q0.6000.35
136_E160_R0.5970.35
135_K248_E0.5970.35
269_I318_L0.5970.35
223_V276_V0.5970.35
159_V196_A0.5950.34
269_I316_E0.5920.34
121_R305_V0.5920.34
51_G262_A0.5910.34
219_T233_P0.5890.34
170_A175_L0.5850.34
97_T200_R0.5840.33
82_V88_N0.5830.33
205_V320_A0.5830.33
48_T57_V0.5820.33
35_C51_G0.5800.33
293_R302_V0.5790.33
153_F264_A0.5780.33
190_Y220_Y0.5760.33
40_V156_P0.5760.33
220_Y272_G0.5760.33
40_V46_G0.5760.33
139_L199_P0.5750.33
253_V257_A0.5740.33
216_I280_A0.5740.33
138_N180_S0.5730.33
87_T90_M0.5730.33
82_V89_M0.5730.33
207_S320_A0.5730.33
49_T228_S0.5720.32
74_Q284_Y0.5710.32
134_S316_E0.5710.32
164_S169_R0.5700.32
186_T209_S0.5700.32
187_S280_A0.5670.32
152_A208_V0.5670.32
189_L268_G0.5660.32
91_H95_L0.5660.32
60_D209_S0.5650.32
161_E164_S0.5640.32
283_V299_V0.5630.32
154_G191_A0.5620.32
57_V211_V0.5600.32
52_E84_A0.5590.31
75_E298_E0.5580.31
216_I234_T0.5580.31
146_I167_Y0.5550.31
88_N161_E0.5530.31
243_F273_K0.5530.31
70_A79_K0.5520.31
270_T280_A0.5480.31
207_S304_N0.5480.31
314_Y318_L0.5470.31
63_D69_R0.5460.30
180_S275_P0.5450.30
142_A310_I0.5450.30
283_V304_N0.5440.30
253_V272_G0.5440.30
142_A170_A0.5400.30
298_E301_T0.5400.30
257_A261_L0.5390.30
38_D61_G0.5360.30
153_F208_V0.5310.29
264_A320_A0.5310.29
188_A268_G0.5310.29
92_D96_S0.5310.29
41_T146_I0.5300.29
161_E174_D0.5300.29
192_A196_A0.5300.29
44_D47_E0.5290.29
85_P295_T0.5290.29
91_H161_E0.5290.29
262_A266_D0.5280.29
103_D253_V0.5240.29
308_V312_N0.5240.29
153_F226_E0.5240.29
32_C39_L0.5210.29
133_N181_I0.5200.28
280_A284_Y0.5190.28
76_Q84_A0.5190.28
79_K186_T0.5180.28
71_F247_L0.5170.28
173_E298_E0.5170.28
41_T237_A0.5160.28
254_E298_E0.5150.28
139_L309_T0.5140.28
198_T225_R0.5130.28
234_T276_V0.5130.28
175_L223_V0.5130.28
100_G148_R0.5130.28
289_L314_Y0.5130.28
143_L214_G0.5130.28
46_G155_L0.5120.28
54_G272_G0.5110.28
55_L144_G0.5110.28
199_P261_L0.5110.28
63_D66_P0.5100.28
186_T205_V0.5050.27
163_A191_A0.5040.27
41_T49_T0.5040.27
144_G299_V0.5040.27
186_T199_P0.5030.27
68_W247_L0.5010.27
199_P297_N0.5000.27
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 0.5732 100 0.28 Contact Map
1aisB 1 0.5823 100 0.603 Contact Map
1c9bA 1 0.5915 100 0.616 Contact Map
2pk2A 3 0.6677 99.9 0.721 Contact Map
4f6uB 1 0.7012 99.9 0.726 Contact Map
2w96A 1 0.7012 99.9 0.728 Contact Map
3g33B 2 0.6585 99.9 0.737 Contact Map
2b9rA 1 0.6738 99.9 0.74 Contact Map
4eojB 1 0.686 99.9 0.743 Contact Map
2i53A 1 0.6799 99.9 0.743 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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