TF2B7 - HALSA - GREMLIN Contacts

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TF2B7 - Transcription initiation factor IIB 7

UniProt:	Q9HSF7	Sequences: MTRSTRQRERETAAKQEEEEDSEEGVRECPECGSDNLVKSSDRAELVCNDCGLVVEEEQIDPGPEWRAFNHQERQEKSRVGAPTTQTMHDKGLTTTIDWKDKDAYGRSISSKKRSQMHRLRKWQERIRTKDAGERNLQFALSEIDRMASALGVPRSVREVASVIYRRALKEDLIRGRSIEGVATSALYAACRKEGIPRSLEEISEVSRVERKEIGRTYRYISQELGLEMKPVDPKKYVPRFCSELELTEEVQSKANEIIETTAEEGLLSGKSPTGYAAAAIYAASLLCNEKKTQREVADVAQVTEVTIRNRYQEQIEAMGIHG	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

HALSA - TF2B7 TF2B4 TF2B3 TF2B2 TF2B6 TF2B5 TF2B1
SULSO - TF2B1 TF2B2

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_C	281_I	6.698	1.00
148_A	187_L	4.129	1.00
248_T	290_E	4.062	1.00
48_C	51_C	4.060	1.00
29_C	51_C	3.906	1.00
311_R	314_E	3.568	1.00
29_C	32_C	3.446	1.00
254_K	288_C	3.415	1.00
294_Q	309_R	3.401	1.00
140_A	165_Y	3.116	1.00
147_M	187_L	2.915	1.00
32_C	48_C	2.911	1.00
40_S	43_R	2.812	1.00
143_E	146_R	2.807	1.00
37_L	46_L	2.792	1.00
37_L	55_V	2.773	1.00
187_L	203_I	2.595	1.00
148_A	158_R	2.573	1.00
295_R	305_E	2.511	1.00
141_L	162_S	2.470	1.00
32_C	51_C	2.394	1.00
65_E	79_R	2.358	1.00
29_C	48_C	2.345	1.00
278_A	301_A	2.252	1.00
161_A	190_A	2.238	1.00
68_A	71_H	2.130	0.99
176_G	273_P	2.089	0.99
211_R	215_G	2.069	0.99
254_K	257_E	2.057	0.99
153_V	187_L	2.043	0.99
147_M	206_V	2.016	0.99
29_C	33_G	1.960	0.99
258_I	284_A	1.844	0.98
305_E	313_Q	1.838	0.98
295_R	308_I	1.790	0.98
160_V	193_K	1.786	0.98
157_V	190_A	1.782	0.98
89_H	92_G	1.770	0.98
241_F	245_L	1.765	0.97
241_F	281_I	1.735	0.97
255_A	277_A	1.705	0.97
140_A	216_R	1.638	0.96
255_A	284_A	1.615	0.96
258_I	280_A	1.614	0.96
47_V	300_V	1.602	0.96
36_N	50_D	1.552	0.95
198_R	202_E	1.528	0.94
259_I	276_Y	1.527	0.94
275_G	307_T	1.513	0.94
293_T	296_E	1.513	0.94
37_L	42_D	1.511	0.94
222_S	229_M	1.509	0.94
165_Y	174_I	1.482	0.93
203_I	206_V	1.479	0.93
160_V	194_E	1.479	0.93
140_A	169_L	1.469	0.93
163_V	166_R	1.469	0.93
259_I	280_A	1.460	0.93
189_A	227_L	1.451	0.92
233_D	236_K	1.451	0.92
251_V	288_C	1.441	0.92
48_C	52_G	1.422	0.92
66_W	77_K	1.406	0.91
275_G	279_A	1.388	0.91
251_V	290_E	1.373	0.90
65_E	77_K	1.371	0.90
167_R	171_E	1.370	0.90
192_R	215_G	1.366	0.90
36_N	49_N	1.365	0.90
303_V	308_I	1.359	0.90
261_T	265_E	1.332	0.89
76_E	81_G	1.308	0.88
34_S	50_D	1.302	0.88
63_G	66_W	1.297	0.87
140_A	144_I	1.294	0.87
202_E	240_R	1.290	0.87
151_L	264_E	1.288	0.87
29_C	34_S	1.287	0.87
285_S	300_V	1.285	0.87
247_L	292_K	1.272	0.86
67_R	79_R	1.263	0.86
291_K	296_E	1.263	0.86
144_I	183_A	1.252	0.85
223_Q	296_E	1.246	0.85
235_K	260_E	1.235	0.85
189_A	192_R	1.234	0.85
237_Y	242_C	1.215	0.84
127_I	184_T	1.214	0.84
66_W	69_F	1.211	0.84
200_L	215_G	1.206	0.83
31_E	53_L	1.198	0.83
294_Q	306_V	1.186	0.82
39_K	56_E	1.184	0.82
278_A	283_A	1.181	0.82
252_Q	256_N	1.179	0.82
46_L	258_I	1.172	0.81
233_D	259_I	1.166	0.81
89_H	309_R	1.155	0.80
138_Q	142_S	1.149	0.80
215_G	241_F	1.140	0.80
280_A	284_A	1.137	0.79
296_E	300_V	1.134	0.79
68_A	73_E	1.131	0.79
50_D	148_A	1.120	0.78
117_M	120_L	1.110	0.78
200_L	211_R	1.095	0.77
245_L	281_I	1.087	0.76
266_G	271_K	1.078	0.76
160_V	163_V	1.077	0.76
292_K	305_E	1.061	0.74
65_E	69_F	1.060	0.74
203_I	266_G	1.057	0.74
40_S	44_A	1.048	0.74
30_P	55_V	1.040	0.73
278_A	308_I	1.036	0.73
158_R	187_L	1.036	0.73
242_C	245_L	1.035	0.73
259_I	277_A	1.029	0.72
281_I	301_A	1.028	0.72
137_L	162_S	1.025	0.72
203_I	229_M	1.024	0.72
140_A	279_A	1.020	0.71
298_A	301_A	1.017	0.71
50_D	154_P	1.017	0.71
123_W	126_R	1.017	0.71
165_Y	179_I	1.017	0.71
278_A	298_A	1.013	0.71
182_V	221_I	1.012	0.71
61_D	65_E	1.012	0.71
188_Y	232_V	1.009	0.71
47_V	313_Q	1.005	0.70
199_S	202_E	1.003	0.70
95_T	198_R	1.003	0.70
148_A	276_Y	0.992	0.69
55_V	272_S	0.991	0.69
215_G	272_S	0.983	0.69
292_K	296_E	0.982	0.69
31_E	34_S	0.975	0.68
157_V	196_I	0.968	0.67
66_W	83_P	0.965	0.67
140_A	308_I	0.962	0.67
136_N	189_A	0.957	0.67
83_P	90_D	0.951	0.66
28_E	49_N	0.950	0.66
98_D	146_R	0.947	0.66
247_L	251_V	0.946	0.66
37_L	44_A	0.936	0.65
39_K	144_I	0.928	0.64
267_L	278_A	0.919	0.63
204_S	209_V	0.917	0.63
80_V	87_T	0.915	0.63
39_K	235_K	0.910	0.63
166_R	190_A	0.903	0.62
283_A	297_V	0.898	0.62
199_S	203_I	0.895	0.61
176_G	307_T	0.895	0.61
88_M	100_K	0.892	0.61
204_S	292_K	0.888	0.61
182_V	217_T	0.882	0.60
189_A	285_S	0.877	0.60
134_E	171_E	0.877	0.60
90_D	93_L	0.875	0.60
267_L	314_E	0.872	0.59
285_S	290_E	0.872	0.59
125_E	138_Q	0.872	0.59
79_R	95_T	0.872	0.59
210_E	213_E	0.871	0.59
175_R	305_E	0.870	0.59
254_K	287_L	0.867	0.59
295_R	303_V	0.865	0.59
144_I	162_S	0.863	0.58
95_T	241_F	0.863	0.58
38_V	278_A	0.863	0.58
164_I	186_A	0.859	0.58
198_R	240_R	0.857	0.58
267_L	285_S	0.855	0.58
277_A	301_A	0.853	0.58
170_K	295_R	0.845	0.57
100_K	134_E	0.844	0.57
85_T	89_H	0.843	0.57
306_V	309_R	0.842	0.57
235_K	302_Q	0.840	0.56
103_D	122_K	0.837	0.56
289_N	293_T	0.833	0.56
157_V	263_A	0.831	0.56
133_G	246_E	0.831	0.56
162_S	166_R	0.830	0.55
137_L	197_P	0.829	0.55
140_A	304_T	0.825	0.55
153_V	317_E	0.825	0.55
46_L	49_N	0.820	0.55
68_A	76_E	0.819	0.54
143_E	216_R	0.815	0.54
30_P	281_I	0.815	0.54
92_G	98_D	0.814	0.54
178_S	219_R	0.813	0.54
235_K	263_A	0.812	0.54
151_L	262_T	0.810	0.54
69_F	241_F	0.810	0.54
82_A	91_K	0.809	0.54
33_G	51_C	0.809	0.54
60_I	78_S	0.807	0.53
188_Y	191_C	0.806	0.53
208_R	278_A	0.799	0.53
140_A	168_A	0.796	0.52
191_C	232_V	0.793	0.52
94_T	185_S	0.791	0.52
35_D	221_I	0.788	0.52
258_I	313_Q	0.788	0.52
153_V	185_S	0.779	0.51
55_V	209_V	0.778	0.51
157_V	194_E	0.777	0.51
175_R	227_L	0.775	0.50
212_K	313_Q	0.774	0.50
118_H	122_K	0.772	0.50
162_S	169_L	0.772	0.50
153_V	191_C	0.767	0.50
271_K	291_K	0.765	0.50
213_E	216_R	0.762	0.49
69_F	81_G	0.761	0.49
119_R	123_W	0.760	0.49
233_D	263_A	0.755	0.49
124_Q	148_A	0.752	0.48
275_G	311_R	0.749	0.48
165_Y	228_E	0.749	0.48
215_G	218_Y	0.747	0.48
76_E	268_L	0.746	0.48
240_R	272_S	0.744	0.48
60_I	66_W	0.742	0.47
144_I	165_Y	0.742	0.47
39_K	45_E	0.739	0.47
175_R	276_Y	0.738	0.47
272_S	308_I	0.737	0.47
281_I	297_V	0.737	0.47
127_I	130_K	0.736	0.47
161_A	186_A	0.734	0.47
279_A	307_T	0.733	0.47
98_D	229_M	0.732	0.46
53_L	93_L	0.731	0.46
63_G	308_I	0.729	0.46
144_I	150_A	0.729	0.46
275_G	303_V	0.726	0.46
41_S	56_E	0.722	0.46
295_R	310_N	0.721	0.45
39_K	46_L	0.717	0.45
79_R	97_I	0.717	0.45
132_A	314_E	0.715	0.45
164_I	190_A	0.715	0.45
271_K	276_Y	0.714	0.45
55_V	213_E	0.712	0.45
70_N	276_Y	0.704	0.44
250_E	288_C	0.703	0.44
100_K	124_Q	0.699	0.43
276_Y	301_A	0.692	0.43
121_R	124_Q	0.687	0.42
265_E	289_N	0.685	0.42
172_D	275_G	0.682	0.42
184_T	191_C	0.682	0.42
251_V	255_A	0.681	0.42
127_I	192_R	0.678	0.42
203_I	213_E	0.678	0.42
52_G	270_G	0.677	0.42
218_Y	275_G	0.673	0.41
255_A	259_I	0.673	0.41
139_F	263_A	0.672	0.41
197_P	236_K	0.672	0.41
120_L	206_V	0.666	0.41
119_R	124_Q	0.666	0.41
71_H	76_E	0.665	0.40
68_A	77_K	0.662	0.40
126_R	270_G	0.659	0.40
218_Y	221_I	0.657	0.40
214_I	260_E	0.655	0.40
300_V	308_I	0.652	0.39
97_I	102_K	0.651	0.39
258_I	270_G	0.650	0.39
287_L	312_Y	0.649	0.39
153_V	164_I	0.644	0.39
171_E	296_E	0.643	0.39
166_R	306_V	0.639	0.38
197_P	280_A	0.639	0.38
44_A	59_Q	0.639	0.38
243_S	278_A	0.636	0.38
116_Q	120_L	0.636	0.38
117_M	142_S	0.635	0.38
81_G	191_C	0.634	0.38
191_C	259_I	0.634	0.38
69_F	77_K	0.634	0.38
143_E	147_M	0.632	0.38
183_A	187_L	0.631	0.37
134_E	158_R	0.630	0.37
101_D	167_R	0.629	0.37
121_R	135_R	0.627	0.37
132_A	220_Y	0.626	0.37
249_E	253_S	0.625	0.37
151_L	255_A	0.625	0.37
67_R	77_K	0.625	0.37
230_K	236_K	0.623	0.37
303_V	307_T	0.622	0.37
90_D	294_Q	0.620	0.37
33_G	230_K	0.619	0.36
83_P	245_L	0.615	0.36
285_S	291_K	0.614	0.36
238_V	259_I	0.613	0.36
239_P	252_Q	0.612	0.36
136_N	146_R	0.611	0.36
85_T	100_K	0.609	0.36
70_N	73_E	0.607	0.35
165_Y	311_R	0.606	0.35
140_A	179_I	0.606	0.35
235_K	250_E	0.604	0.35
150_A	206_V	0.602	0.35
178_S	273_P	0.598	0.35
226_G	246_E	0.598	0.35
96_T	124_Q	0.596	0.35
54_V	191_C	0.596	0.35
137_L	141_L	0.596	0.35
57_E	62_P	0.595	0.34
165_Y	218_Y	0.595	0.34
184_T	207_S	0.594	0.34
144_I	223_Q	0.593	0.34
232_V	274_T	0.592	0.34
155_R	228_E	0.592	0.34
30_P	51_C	0.590	0.34
187_L	194_E	0.590	0.34
58_E	64_P	0.589	0.34
54_V	86_Q	0.588	0.34
70_N	199_S	0.587	0.34
140_A	178_S	0.586	0.34
251_V	270_G	0.586	0.34
118_H	232_V	0.586	0.34
36_N	59_Q	0.586	0.34
38_V	49_N	0.585	0.34
53_L	243_S	0.583	0.33
39_K	124_Q	0.583	0.33
202_E	307_T	0.582	0.33
158_R	264_E	0.580	0.33
61_D	64_P	0.577	0.33
201_E	211_R	0.576	0.33
125_E	184_T	0.575	0.33
66_W	79_R	0.572	0.33
207_S	312_Y	0.571	0.32
221_I	274_T	0.570	0.32
93_L	96_T	0.570	0.32
262_T	268_L	0.568	0.32
188_Y	218_Y	0.566	0.32
203_I	239_P	0.565	0.32
91_K	173_L	0.565	0.32
134_E	175_R	0.565	0.32
75_Q	84_T	0.563	0.32
187_L	266_G	0.563	0.32
123_W	165_Y	0.561	0.32
202_E	312_Y	0.559	0.31
166_R	253_S	0.559	0.31
276_Y	298_A	0.559	0.31
38_V	46_L	0.558	0.31
28_E	33_G	0.557	0.31
123_W	164_I	0.556	0.31
28_E	37_L	0.556	0.31
56_E	300_V	0.555	0.31
61_D	67_R	0.553	0.31
155_R	159_E	0.552	0.31
167_R	213_E	0.551	0.31
218_Y	270_G	0.547	0.31
238_V	310_N	0.546	0.30
207_S	232_V	0.546	0.30
151_L	177_R	0.544	0.30
147_M	170_K	0.543	0.30
129_T	144_I	0.542	0.30
205_E	318_A	0.542	0.30
221_I	244_E	0.539	0.30
278_A	282_Y	0.538	0.30
296_E	299_D	0.538	0.30
94_T	102_K	0.538	0.30
32_C	49_N	0.538	0.30
220_Y	258_I	0.537	0.30
230_K	241_F	0.536	0.30
185_S	238_V	0.535	0.30
42_D	45_E	0.535	0.30
119_R	173_L	0.535	0.30
217_T	308_I	0.534	0.30
183_A	228_E	0.533	0.29
251_V	280_A	0.531	0.29
181_G	185_S	0.531	0.29
162_S	167_R	0.531	0.29
164_I	205_E	0.530	0.29
140_A	177_R	0.528	0.29
168_A	173_L	0.528	0.29
92_G	151_L	0.524	0.29
62_P	212_K	0.524	0.29
54_V	196_I	0.524	0.29
43_R	301_A	0.523	0.29
182_V	245_L	0.521	0.29
85_T	275_G	0.521	0.29
57_E	283_A	0.518	0.28
272_S	282_Y	0.514	0.28
118_H	172_D	0.514	0.28
40_S	53_L	0.514	0.28
90_D	309_R	0.512	0.28
223_Q	243_S	0.511	0.28
267_L	316_I	0.511	0.28
44_A	153_V	0.509	0.28
161_A	189_A	0.509	0.28
127_I	159_E	0.508	0.28
36_N	42_D	0.508	0.28
260_E	264_E	0.507	0.28
123_W	224_E	0.507	0.28
101_D	251_V	0.504	0.27
272_S	275_G	0.503	0.27
152_G	189_A	0.503	0.27
29_C	53_L	0.502	0.27
168_A	218_Y	0.502	0.27
29_C	37_L	0.502	0.27
68_A	78_S	0.502	0.27
83_P	89_H	0.501	0.27
56_E	62_P	0.501	0.27
69_F	72_Q	0.500	0.27
227_L	259_I	0.500	0.27

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

Text file of predictions (all 3L/2 predictions)
Generate restraints for ROSETTA Structure Modeling
Upload PDB model overlay contacts on the model

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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