GREMLIN Database
TF2B5 - Transcription initiation factor IIB 5
UniProt: Q9HHH8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 307 (275)
Sequences: 1037 (664)
Seq/√Len: 40.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
229_A268_L6.5951.00
135_A174_V4.1031.00
23_C42_C3.9531.00
39_C42_C3.9091.00
235_T277_A3.9061.00
57_W60_D3.3971.00
298_H301_R3.3921.00
31_R34_S3.3751.00
241_R275_H3.3581.00
281_Q296_R3.3331.00
127_G152_F2.9931.00
134_I174_V2.8401.00
26_C39_C2.8121.00
282_A292_V2.7601.00
130_E133_R2.7211.00
90_D93_G2.6541.00
23_C39_C2.5401.00
135_A145_R2.5321.00
30_V37_T2.4961.00
128_L149_C2.4911.00
23_C26_C2.4831.00
148_A177_A2.4161.00
174_V190_V2.3391.00
140_L174_V2.3021.00
59_R62_A2.2731.00
56_E67_R2.1640.99
198_Q202_E2.1610.99
134_I193_M2.1090.99
242_A264_A2.0860.99
265_A288_A2.0720.99
245_L271_A2.0360.99
26_C42_C1.9850.99
292_V300_D1.9830.99
163_G260_P1.9830.99
241_R244_E1.9460.99
31_R35_A1.8760.98
58_H67_R1.8450.98
23_C27_G1.8120.98
144_V177_A1.7920.98
228_L268_L1.6740.96
228_L232_L1.6570.96
242_A271_A1.6260.96
38_V287_A1.6130.96
147_Q180_C1.6120.96
104_L107_M1.6050.96
152_F161_L1.5970.95
185_W189_D1.5880.95
60_D67_R1.5850.95
246_V267_C1.5840.95
150_Q153_R1.5500.95
262_G294_T1.5450.94
29_P208_L1.5430.94
190_V193_M1.5230.94
127_G203_N1.5200.94
245_L267_C1.4990.94
222_D247_V1.4910.93
282_A295_I1.4900.93
280_T283_D1.4840.93
56_E65_A1.4710.93
209_N216_T1.4420.92
54_G57_W1.4420.92
210_E283_D1.4210.92
238_V277_A1.3990.91
88_G92_R1.3960.91
220_S223_Q1.3940.91
246_V263_F1.3790.90
190_V253_G1.3620.90
279_L283_D1.3560.89
179_R202_E1.3400.89
39_C43_G1.3390.89
55_P59_R1.3290.89
189_D227_R1.3280.88
278_P283_D1.3140.88
127_G156_Q1.3120.88
262_G266_A1.3090.88
116_W131_I1.3060.88
25_E44_L1.2850.87
52_D56_E1.2840.87
267_C271_A1.2770.86
37_T245_L1.2750.86
238_V275_H1.2720.86
272_A287_A1.2700.86
281_Q293_E1.2660.86
202_E228_L1.2650.86
52_D57_W1.2650.86
234_C279_L1.2620.86
147_Q181_N1.2320.84
57_W65_A1.2310.84
56_E60_D1.2240.84
220_S246_V1.2240.84
248_Q252_A1.2130.83
28_G41_D1.1940.82
38_V300_D1.1940.82
25_E28_G1.1870.82
114_G179_R1.1750.81
82_S269_Y1.1690.81
131_I170_A1.1670.81
89_Q93_G1.1590.81
124_L149_C1.1580.80
144_V250_V1.1540.80
131_I149_C1.1370.79
176_G214_L1.1230.78
41_D135_A1.1120.78
125_G129_T1.1030.77
61_D279_L1.1010.77
153_R177_A1.1000.77
239_R243_E1.0990.77
61_D263_F1.0980.77
27_G30_V1.0890.76
232_L268_L1.0710.75
187_I198_Q1.0680.75
283_D287_A1.0670.75
290_V295_I1.0640.74
60_D63_D1.0620.74
176_G179_R1.0580.74
162_K263_F1.0450.73
135_A263_F1.0450.73
187_I202_E1.0440.73
282_A290_V1.0410.73
56_E68_T1.0370.73
279_L292_V1.0320.72
265_A270_M1.0290.72
41_D141_A1.0260.72
154_T158_E1.0240.72
268_L288_A1.0210.71
138_L251_D1.0170.71
171_A178_C1.0110.71
149_C156_Q1.0060.70
258_V263_F1.0040.70
236_D240_R0.9960.69
190_V216_T0.9930.69
147_Q150_Q0.9750.68
285_A288_A0.9720.68
45_I74_P0.9650.67
144_V183_E0.9580.66
234_C238_V0.9570.66
185_W227_R0.9540.66
197_G201_V0.9520.66
163_G294_T0.9480.66
59_R64_T0.9410.65
73_T76_R0.9380.65
152_F166_I0.9330.64
57_W67_R0.9280.64
37_T40_A0.9240.64
175_F178_C0.9230.63
23_C28_G0.9190.63
131_I137_A0.9190.63
199_N300_D0.9180.63
127_G266_A0.9140.63
224_F229_A0.9120.63
46_I259_H0.9080.62
22_P40_A0.9050.62
82_S134_I0.9030.62
169_M208_L0.9020.62
176_G272_A0.8970.61
169_M204_A0.8960.61
112_S125_G0.8920.61
220_S250_V0.8920.61
191_A196_V0.8910.61
202_E259_H0.8910.61
253_G258_V0.8900.61
127_G295_I0.8880.60
265_A295_I0.8870.60
266_A294_T0.8800.60
30_V292_V0.8690.59
48_E53_R0.8680.59
259_H295_I0.8680.59
24_P46_I0.8630.58
110_E152_F0.8610.58
184_S223_Q0.8580.58
262_G290_V0.8490.57
175_F219_V0.8460.57
246_V264_A0.8450.57
196_V231_D0.8420.56
157_N282_A0.8410.56
127_G131_I0.8340.56
114_G171_A0.8300.55
123_N176_G0.8300.55
148_A173_S0.8290.55
45_I173_S0.8240.55
124_L184_S0.8240.55
88_G121_E0.8190.54
258_V278_P0.8170.54
120_K233_G0.8140.54
262_G298_H0.8110.54
86_G216_T0.8110.54
145_R174_V0.8080.53
58_H64_T0.8070.53
205_Y262_G0.8060.53
105_A109_R0.8050.53
184_S267_C0.8040.53
195_Q265_A0.8020.53
77_H296_R0.8000.53
254_I272_A0.7990.52
57_W71_P0.7970.52
167_E170_A0.7970.52
27_G42_C0.7900.52
186_L189_D0.7900.52
113_R257_G0.7850.51
83_T185_W0.7840.51
197_G200_R0.7820.51
138_L164_R0.7740.50
49_Q194_A0.7680.50
254_I265_A0.7660.49
276_D280_T0.7640.49
222_D250_V0.7520.48
49_Q55_P0.7510.48
290_V294_T0.7500.48
126_H250_V0.7490.48
77_H80_G0.7480.48
293_E296_R0.7480.48
119_T301_R0.7470.48
283_D286_A0.7460.48
127_G165_S0.7450.47
200_R203_N0.7430.47
113_R164_R0.7420.47
280_T292_V0.7410.47
165_S206_T0.7410.47
58_H65_A0.7390.47
272_A277_A0.7380.47
268_L284_A0.7370.47
61_D186_L0.7360.47
162_K292_V0.7350.47
222_D289_G0.7320.46
272_A278_P0.7300.46
119_T172_A0.7300.46
130_E134_I0.7280.46
24_P268_L0.7280.46
131_I152_F0.7270.46
130_E203_N0.7250.46
265_A285_A0.7250.46
70_A269_Y0.7190.45
162_K214_L0.7190.45
202_E205_Y0.7170.45
282_A297_S0.7110.44
30_V240_R0.7060.44
140_L172_A0.7030.44
227_R259_H0.7030.44
59_R298_H0.7020.44
228_L258_V0.7000.43
121_E158_E0.6970.43
241_R274_V0.6950.43
41_D70_A0.6920.43
86_G142_D0.6860.42
89_Q187_I0.6860.42
140_L178_C0.6820.42
131_I148_A0.6780.41
88_G93_G0.6770.41
168_A172_A0.6730.41
200_R225_V0.6730.41
196_V259_H0.6710.41
38_V114_G0.6700.41
204_A295_I0.6690.41
274_V299_R0.6680.41
152_F298_H0.6660.40
45_I183_E0.6630.40
85_I90_D0.6630.40
201_V247_V0.6620.40
146_D149_C0.6590.40
207_V245_L0.6590.40
194_A299_R0.6590.40
30_V45_I0.6570.40
149_C153_R0.6550.39
123_N152_F0.6550.39
127_G291_T0.6550.39
152_F205_Y0.6530.39
31_R162_K0.6530.39
110_E113_R0.6520.39
208_L231_D0.6480.39
217_P229_A0.6430.38
70_A263_F0.6410.38
137_A193_M0.6400.38
249_A255_T0.6400.38
254_I301_R0.6390.38
68_T196_V0.6390.38
55_P67_R0.6390.38
88_G111_Q0.6380.38
268_L289_G0.6370.38
78_D281_Q0.6360.38
242_A246_V0.6350.38
155_A214_L0.6350.38
61_D65_A0.6330.37
104_L108_R0.6330.37
71_P77_H0.6320.37
119_T207_V0.6240.37
56_E66_K0.6210.36
144_V181_N0.6210.36
171_A257_G0.6210.36
278_P287_A0.6210.36
41_D87_S0.6200.36
264_A288_A0.6190.36
127_G155_A0.6180.36
172_A225_V0.6170.36
210_E230_S0.6170.36
103_R107_M0.6130.36
156_Q267_C0.6120.36
53_R199_N0.6100.36
205_Y208_L0.6080.35
171_A190_V0.6040.35
47_D287_A0.6040.35
191_A279_L0.6030.35
75_A262_G0.6030.35
169_M195_Q0.6030.35
238_V271_A0.6020.35
151_L173_S0.5980.35
177_A291_T0.5970.34
27_G217_P0.5960.34
263_F288_A0.5940.34
158_E208_L0.5940.34
138_L249_A0.5930.34
33_N36_E0.5930.34
29_P167_E0.5910.34
238_V267_C0.5880.34
22_P46_I0.5870.34
280_T285_A0.5860.34
204_A218_P0.5850.33
251_D283_D0.5850.33
69_G178_C0.5850.33
106_R110_E0.5840.33
73_T229_A0.5830.33
54_G59_R0.5790.33
114_G219_V0.5780.33
109_R189_D0.5770.33
32_T153_R0.5750.33
106_R109_R0.5750.33
52_D55_P0.5740.33
266_A275_H0.5740.33
138_L193_M0.5730.32
60_D66_K0.5700.32
76_R272_A0.5690.32
40_A139_G0.5660.32
170_A174_V0.5660.32
121_E145_R0.5660.32
265_A269_Y0.5650.32
131_I210_E0.5650.32
142_D146_D0.5640.32
64_T83_T0.5640.32
208_L261_S0.5640.32
30_V35_A0.5630.32
31_R44_L0.5620.32
130_E165_S0.5620.32
165_S260_P0.5620.32
192_P221_L0.5610.32
106_R160_L0.5600.31
225_V297_S0.5600.31
155_A160_L0.5590.31
148_A176_G0.5580.31
55_P65_A0.5570.31
225_V243_E0.5540.31
245_L300_D0.5540.31
147_Q182_G0.5530.31
186_L190_V0.5530.31
190_V226_P0.5520.31
22_P27_G0.5520.31
84_V107_M0.5500.31
28_G42_C0.5500.31
266_A271_A0.5490.31
171_A194_A0.5460.30
194_A219_V0.5450.30
214_L246_V0.5440.30
63_D119_T0.5430.30
282_A286_A0.5410.30
106_R164_R0.5410.30
147_Q218_P0.5400.30
226_P239_R0.5390.30
72_L76_R0.5370.30
117_R263_F0.5340.29
90_D201_V0.5330.29
87_S287_A0.5330.29
26_C40_A0.5330.29
54_G295_I0.5330.29
78_D82_S0.5330.29
35_A50_S0.5320.29
155_A208_L0.5310.29
29_P170_A0.5310.29
218_P225_V0.5300.29
151_L192_P0.5300.29
178_C246_V0.5280.29
149_C154_T0.5270.29
287_A295_I0.5260.29
142_D215_P0.5250.29
152_F155_A0.5240.29
270_M300_D0.5230.29
60_D65_A0.5230.29
154_T214_L0.5230.29
164_R175_F0.5230.29
64_T67_R0.5210.28
127_G135_A0.5190.28
83_T153_R0.5180.28
64_T291_T0.5180.28
155_A205_Y0.5150.28
73_T262_G0.5150.28
84_V111_Q0.5150.28
45_I178_C0.5140.28
182_G218_P0.5140.28
174_V181_N0.5130.28
110_E151_L0.5130.28
229_A238_V0.5130.28
47_D53_R0.5120.28
175_F216_T0.5120.28
72_L79_R0.5110.28
76_R87_S0.5080.27
24_P42_C0.5070.27
124_L153_R0.5070.27
145_R284_A0.5050.27
32_T47_D0.5050.27
25_E296_R0.5020.27
140_L151_L0.5010.27
27_G38_V0.5010.27
45_I144_V0.5000.27
153_R240_R0.5000.27
73_T77_H0.5000.27
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 0.5961 100 0.262 Contact Map
1aisB 1 0.6026 100 0.577 Contact Map
1c9bA 1 0.6124 100 0.594 Contact Map
2pk2A 3 0.6938 99.9 0.699 Contact Map
2w96A 1 0.7296 99.9 0.71 Contact Map
4f6uB 1 0.7296 99.9 0.711 Contact Map
2b9rA 1 0.7003 99.9 0.719 Contact Map
4eojB 1 0.7134 99.9 0.721 Contact Map
3g33B 2 0.7003 99.9 0.722 Contact Map
2i53A 1 0.7166 99.9 0.723 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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