GREMLIN Database
TF2B1 - Transcription initiation factor IIB 1
UniProt: Q9HNA2 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 287 (271)
Sequences: 1050 (688)
Seq/√Len: 41.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
211_A250_L6.7091.00
117_I156_V4.3951.00
217_P259_H4.0241.00
23_C26_C3.8191.00
280_T283_N3.6831.00
263_Q278_R3.6211.00
223_Q257_T3.4711.00
109_G134_F3.1861.00
7_C26_C2.9501.00
110_F131_C2.8971.00
117_I127_R2.8091.00
116_L156_V2.7501.00
122_I156_V2.6891.00
112_E115_R2.6711.00
264_S274_P2.4521.00
126_L159_T2.4521.00
247_A270_A2.2341.00
156_V172_I2.2311.00
223_Q226_E2.2291.00
130_A159_T2.1931.00
180_R184_T2.1831.00
10_C23_C2.0890.99
43_T46_D2.0830.99
51_A56_G2.0540.99
145_G242_P2.0010.99
274_P282_Q1.9840.99
224_A246_A1.8790.99
7_C23_C1.8770.99
113_I152_A1.8650.98
40_E54_R1.8390.98
210_Y214_L1.8080.98
224_A253_A1.7880.98
264_S277_L1.7820.98
167_R171_E1.7750.98
7_C10_C1.7740.98
134_F143_L1.7320.97
244_G276_T1.7190.97
53_E56_G1.6890.97
227_L253_A1.6820.97
116_L175_A1.6660.97
161_R184_T1.6340.96
228_V249_C1.6200.96
202_D205_E1.6100.96
43_T48_P1.5800.96
129_Q162_T1.5690.95
41_W52_P1.5620.95
210_Y250_L1.5500.95
23_C27_G1.4740.94
216_L261_V1.4690.94
109_G138_Q1.4570.93
38_G41_W1.4390.93
220_I259_H1.4390.93
41_W58_P1.4390.93
262_T265_A1.4370.93
220_I257_T1.4230.92
132_T135_A1.4050.92
41_W44_F1.3750.91
107_I111_T1.3690.91
261_V265_A1.3690.91
254_A269_V1.3630.91
129_Q163_N1.3620.91
227_L249_C1.3550.90
158_A196_L1.3540.90
228_V245_V1.3520.90
248_G276_T1.3500.90
204_R229_A1.3400.90
9_E28_L1.3340.90
169_L184_T1.3320.90
64_H67_G1.3160.89
42_R54_R1.3030.89
113_I131_C1.2970.88
86_F89_L1.2940.88
230_A234_D1.2920.88
236_L254_A1.2870.88
263_Q275_V1.2860.88
184_T210_Y1.2670.87
54_R72_I1.2620.87
244_G248_G1.2400.86
73_G198_T1.2350.86
65_D68_L1.2280.85
172_I175_A1.2260.85
171_E209_R1.2240.85
8_P30_V1.2230.85
15_R19_T1.2230.85
109_G113_I1.2190.85
191_N198_T1.2180.85
129_Q132_T1.2170.85
127_R156_V1.2150.85
202_D228_V1.1950.84
179_T182_E1.1940.84
16_E19_T1.1880.84
109_G185_T1.1870.83
260_A265_A1.1850.83
36_D40_E1.1800.83
221_E225_R1.1800.83
247_A252_T1.1780.83
25_D117_I1.1780.83
247_A277_L1.1540.82
157_Y201_I1.1510.82
54_R70_T1.1510.82
94_K178_A1.1380.81
60_T244_G1.1310.80
192_R265_A1.1270.80
249_C253_A1.1220.80
272_V277_L1.1190.80
12_G25_D1.1170.80
22_V269_V1.1090.79
11_D14_I1.1060.79
105_N158_A1.1020.79
219_R257_T1.0970.78
169_L180_R1.0920.78
167_R209_R1.0910.78
22_V282_Q1.0910.78
40_E52_P1.0870.78
7_C11_D1.0860.78
261_V274_P1.0770.77
265_A269_V1.0670.76
158_A161_R1.0630.76
22_V96_A1.0590.76
258_D262_T1.0590.76
14_I222_R1.0480.75
94_K107_I1.0460.75
10_C26_C1.0430.75
264_S272_V1.0280.74
52_P56_G1.0270.73
228_V246_A1.0270.73
101_K154_A1.0260.73
139_T264_S1.0250.73
21_H227_L1.0110.72
202_D232_E1.0090.72
87_A91_R1.0020.72
9_E12_G1.0000.71
145_G276_T1.0000.71
14_I21_H0.9970.71
168_T171_E0.9870.70
92_Q134_F0.9870.70
267_A270_A0.9860.70
178_A213_A0.9830.70
151_F186_A0.9770.70
275_V278_R0.9740.69
126_L165_V0.9700.69
173_A178_A0.9690.69
134_F148_I0.9660.69
6_R24_A0.9580.68
209_R241_N0.9550.68
151_F190_M0.9530.68
147_T188_D0.9530.68
135_A159_T0.9520.68
131_C138_Q0.9430.67
96_A99_P0.9430.67
109_G248_G0.9420.67
96_A153_A0.9410.67
106_R131_C0.9390.67
43_T280_T0.9340.66
236_L247_A0.9280.66
68_L72_I0.9240.65
252_T266_A0.9230.65
6_R11_D0.9220.65
250_L266_A0.9200.65
137_A190_M0.9170.65
206_Y211_A0.9070.64
166_T205_E0.9060.64
32_D37_H0.9040.64
131_C135_A0.9010.63
184_T187_Y0.8960.63
40_E44_F0.8940.63
35_I41_W0.8880.62
46_D51_A0.8870.62
105_N134_F0.8870.62
182_E207_L0.8850.62
21_H24_A0.8850.62
109_G137_A0.8840.62
75_S93_H0.8830.62
95_R146_R0.8790.61
251_Y255_T0.8650.60
168_T172_I0.8620.60
109_G117_I0.8560.59
227_L239_G0.8540.59
246_A270_A0.8500.59
218_A222_R0.8380.58
133_L155_G0.8370.58
45_S52_P0.8370.58
65_D72_I0.8360.58
254_A260_A0.8350.57
106_R166_T0.8340.57
120_F231_L0.8280.57
113_I134_F0.8260.57
144_H196_L0.8220.56
117_I245_V0.8190.56
44_F210_Y0.8190.56
245_V280_T0.8170.56
187_Y244_G0.8150.56
247_A267_A0.8140.55
130_A155_G0.8130.55
160_C228_V0.8120.55
181_P282_Q0.8090.55
40_E70_T0.8090.55
90_R134_F0.8080.55
109_G147_T0.8050.55
204_R271_D0.8050.55
177_R247_A0.7990.54
253_A258_D0.7940.54
158_A254_A0.7930.54
120_F233_T0.7920.53
254_A259_H0.7920.53
102_A215_S0.7900.53
113_I119_T0.7890.53
126_L232_E0.7880.53
64_H68_L0.7870.53
223_Q256_E0.7860.53
30_V241_N0.7830.53
236_L283_N0.7830.53
88_R142_L0.7790.52
88_R92_Q0.7790.52
108_Y232_E0.7760.52
263_Q267_A0.7710.51
47_D54_R0.7700.51
15_R24_A0.7700.51
92_Q95_R0.7690.51
15_R21_H0.7640.51
136_S140_A0.7630.51
200_P207_L0.7610.51
55_T278_R0.7570.50
104_Y112_E0.7560.50
15_R31_T0.7560.50
75_S103_D0.7530.50
31_T37_H0.7510.50
29_V155_G0.7510.50
183_L229_A0.7490.49
196_L228_V0.7480.49
204_R232_E0.7470.49
58_P65_D0.7460.49
176_A281_Y0.7460.49
216_L220_I0.7450.49
64_H128_D0.7440.49
33_A39_P0.7370.48
122_I160_C0.7330.48
27_G157_Y0.7290.48
157_Y160_C0.7290.48
153_A160_C0.7270.47
172_I235_G0.7270.47
43_T51_A0.7210.47
63_R69_S0.7200.47
45_S48_P0.7180.47
240_R253_A0.7160.46
200_P210_Y0.7130.46
40_E56_G0.7060.45
116_L162_T0.7050.45
195_G247_A0.7050.45
244_G280_T0.7040.45
120_F146_R0.7040.45
128_D141_G0.7020.45
171_E182_E0.7010.45
91_R171_E0.7000.45
172_I198_T0.6990.45
240_R245_V0.6980.45
62_S65_D0.6970.45
32_D35_I0.6950.44
250_L270_A0.6930.44
229_A271_D0.6920.44
160_C201_I0.6920.44
241_N277_L0.6910.44
160_C163_N0.6880.44
64_H278_R0.6880.44
59_L100_S0.6870.44
56_G160_C0.6870.44
30_V178_A0.6860.44
29_V61_R0.6850.43
106_R135_A0.6850.43
67_G131_C0.6840.43
122_I133_L0.6730.42
121_G158_A0.6710.42
207_L225_R0.6700.42
207_L228_V0.6680.42
134_F197_P0.6670.42
28_L212_D0.6660.42
214_L250_L0.6640.42
249_C268_A0.6610.41
244_G272_V0.6600.41
256_E281_Y0.6590.41
58_P64_H0.6560.41
14_I274_P0.6560.41
99_P103_D0.6550.41
173_A261_V0.6550.41
36_D39_P0.6550.41
240_R260_A0.6540.41
192_R212_D0.6540.41
60_T85_K0.6520.40
112_E185_T0.6520.40
43_T53_E0.6510.40
29_V56_G0.6460.40
11_D199_G0.6440.40
103_D127_R0.6430.40
86_F111_T0.6410.39
156_V198_T0.6400.39
8_P250_L0.6390.39
101_K189_A0.6380.39
184_T241_N0.6350.39
101_K283_N0.6330.39
47_D106_R0.6310.39
137_A270_A0.6250.38
109_G277_L0.6210.38
115_R221_E0.6210.38
63_R75_S0.6210.38
179_T183_L0.6200.38
127_R233_T0.6180.37
74_Y277_L0.6160.37
260_A269_V0.6140.37
220_I224_A0.6130.37
114_R131_C0.6110.37
159_T163_N0.6100.37
109_G152_A0.6080.37
144_H245_V0.6070.36
174_A209_R0.6060.36
229_A233_T0.6060.36
60_T63_R0.6050.36
60_T64_H0.6040.36
190_M213_A0.6030.36
95_R239_G0.6020.36
27_G239_G0.6010.36
39_P43_T0.6000.36
137_A203_P0.6000.36
55_T71_E0.5980.36
239_G248_G0.5980.36
105_N147_T0.5970.36
18_D34_P0.5970.36
136_S182_E0.5950.35
16_E22_V0.5930.35
76_A136_S0.5920.35
75_S139_T0.5920.35
220_I239_G0.5890.35
171_E226_E0.5880.35
52_P57_A0.5870.35
182_E185_T0.5820.34
187_Y239_G0.5820.34
7_C12_G0.5820.34
60_T145_G0.5810.34
190_M243_S0.5800.34
113_I192_R0.5800.34
210_Y240_R0.5780.34
210_Y269_V0.5770.34
169_L173_A0.5760.34
140_A190_M0.5760.34
109_G273_T0.5750.34
248_G253_A0.5750.34
134_F280_T0.5720.33
224_A252_T0.5720.33
158_A185_T0.5700.33
17_T20_E0.5670.33
21_H34_P0.5650.33
137_A187_Y0.5650.33
186_A277_L0.5630.33
6_R233_T0.5610.33
39_P150_G0.5590.32
130_A158_A0.5580.32
250_L271_D0.5580.32
214_L247_A0.5570.32
44_F240_R0.5550.32
175_A247_A0.5540.32
230_A255_T0.5540.32
217_P220_I0.5530.32
220_I249_C0.5530.32
176_A232_E0.5480.32
13_T190_M0.5480.32
39_P251_Y0.5480.32
25_D123_G0.5470.31
14_I17_T0.5460.31
55_T62_S0.5450.31
128_D131_C0.5450.31
180_R264_S0.5440.31
264_S279_A0.5440.31
235_G240_R0.5440.31
45_S245_V0.5410.31
199_G205_E0.5400.31
153_A176_A0.5370.31
29_V165_V0.5370.31
11_D26_C0.5360.31
57_A64_H0.5340.30
158_A231_L0.5320.30
137_A196_L0.5290.30
135_A222_R0.5290.30
44_F52_P0.5290.30
131_C185_T0.5290.30
134_F137_A0.5260.30
73_G115_R0.5230.30
252_T282_Q0.5230.30
45_S168_T0.5230.30
179_T264_S0.5190.29
30_V235_G0.5170.29
231_L237_V0.5170.29
172_I208_P0.5170.29
211_A214_L0.5140.29
65_D278_R0.5140.29
10_C13_T0.5130.29
85_K179_T0.5120.29
187_Y190_M0.5110.29
43_T52_P0.5100.29
67_G122_I0.5100.29
225_R229_A0.5070.28
44_F47_D0.5070.28
47_D260_A0.5060.28
140_A265_A0.5040.28
144_H274_P0.5020.28
147_T242_P0.5010.28
178_A241_N0.5010.28
134_F138_Q0.5000.28
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  
4bbrM 1 0.6481 100 0.218 Contact Map
1aisB 1 0.6376 100 0.558 Contact Map
1c9bA 1 0.6481 100 0.573 Contact Map
2pk2A 3 0.7352 99.9 0.685 Contact Map
4f6uB 1 0.7735 99.9 0.693 Contact Map
2w96A 1 0.7735 99.9 0.695 Contact Map
2b9rA 1 0.7422 99.9 0.704 Contact Map
4eojB 1 0.7561 99.9 0.706 Contact Map
3g33B 2 0.7422 99.9 0.707 Contact Map
2i53A 1 0.7561 99.9 0.709 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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