Q9HRI5 - HALSA - GREMLIN Contacts

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Q9HRI5 - Farnesyl-diphosphate farnesyltransferase

UniProt:	Q9HRI5	Sequences: MLCRSALYCWHPGTPSRGAMIAVGDGSTPQPLLYSPTLARPRVMDGRQSHQPTASDREWCHSAVQDVSRTFALTIDALEEPMATRICVGYLLCRVADTVEDATAMPPTEQAQLLETYDAALDPDCGTTVAEFQAAVGDHVPSEPNADWRVVANTTRVVSAFESLDDAAKAAIRPTVREMATGMASFVQRYADAGGLRIQSPTELEEYCWYVAGTVGELVTELLARDAPSDAAAAMRENARSFALLLQLVNVAKDVRPDYEEENNVYLPQEWLDDHDLAPEDVADPEHAGRVASVVERVTDRARGYVADAQRWLEVMPTSQGNTLAAWAVPFLLAVGTMRELGNRPADVVREGDVKVDREEVHAVIGLVADDFDRSAIDSVRERIATESLS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	390 (297)
Sequences:	1063 (601)
Seq/√Len:	34.9

BACSU - YISP
HALSA - Q9HRI5 Q9HPE1 Q9HPV3
SULSO - Q97UT8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
200_S	203_E	5.813	1.00
275_H	297_R	5.501	1.00
56_D	159_S	5.044	1.00
274_D	297_R	4.633	1.00
275_H	293_S	3.402	1.00
271_W	298_V	3.222	1.00
82_M	222_L	3.020	1.00
182_G	211_V	3.018	1.00
199_Q	203_E	2.860	1.00
336_G	364_V	2.754	1.00
252_A	341_L	2.709	1.00
241_S	308_D	2.571	1.00
115_E	184_A	2.553	1.00
292_A	345_P	2.510	1.00
90_Y	94_R	2.490	1.00
86_I	219_V	2.438	1.00
163_S	167_A	2.402	1.00
256_R	260_E	2.390	1.00
212_A	216_G	2.364	0.99
59_W	62_S	2.357	0.99
211_V	251_V	2.339	0.99
97_D	258_D	2.286	0.99
212_A	215_V	2.265	0.99
209_W	240_R	2.260	0.99
57_R	84_T	2.202	0.99
118_D	184_A	2.169	0.99
71_F	212_A	2.161	0.99
212_A	250_N	2.078	0.99
185_S	206_E	2.076	0.99
122_D	173_R	2.074	0.99
68_S	71_F	2.051	0.98
189_R	203_E	2.012	0.98
288_A	351_E	1.975	0.98
300_D	342_G	1.955	0.98
247_Q	250_N	1.927	0.98
90_Y	250_N	1.913	0.98
199_Q	269_Q	1.896	0.97
71_F	215_V	1.888	0.97
243_A	253_K	1.879	0.97
212_A	247_Q	1.830	0.97
271_W	275_H	1.828	0.97
271_W	297_R	1.792	0.96
97_D	254_D	1.789	0.96
96_A	117_Y	1.773	0.96
254_D	258_D	1.772	0.96
174_P	178_E	1.687	0.95
249_V	338_M	1.682	0.95
85_R	168_A	1.681	0.95
346_A	352_G	1.680	0.95
253_K	264_N	1.669	0.95
161_F	165_D	1.646	0.94
208_C	213_G	1.640	0.94
109_E	112_Q	1.624	0.94
90_Y	216_G	1.617	0.94
115_E	185_S	1.561	0.92
333_L	356_V	1.561	0.92
182_G	251_V	1.537	0.92
57_R	163_S	1.534	0.92
249_V	306_V	1.515	0.91
94_R	216_G	1.513	0.91
243_A	250_N	1.500	0.91
211_V	215_V	1.499	0.91
71_F	211_V	1.491	0.91
93_C	218_L	1.476	0.90
71_F	250_N	1.464	0.90
118_D	177_R	1.460	0.90
252_A	338_M	1.453	0.89
65_Q	72_A	1.450	0.89
95_V	157_V	1.446	0.89
95_V	155_T	1.439	0.89
179_M	183_M	1.426	0.88
334_A	337_T	1.401	0.88
45_D	48_Q	1.391	0.87
90_Y	212_A	1.366	0.86
106_P	109_E	1.355	0.86
69_R	355_K	1.351	0.86
165_D	168_A	1.337	0.85
276_D	281_D	1.333	0.85
94_R	250_N	1.323	0.84
340_E	354_V	1.319	0.84
303_R	342_G	1.299	0.83
85_R	249_V	1.288	0.83
271_W	294_V	1.283	0.82
70_T	73_L	1.280	0.82
250_N	337_T	1.274	0.82
72_A	302_A	1.255	0.81
248_L	301_R	1.241	0.80
71_F	182_G	1.234	0.80
71_F	216_G	1.230	0.80
359_E	366_G	1.227	0.80
94_R	212_A	1.227	0.80
197_R	279_P	1.226	0.79
285_P	289_G	1.222	0.79
216_G	250_N	1.222	0.79
125_C	316_M	1.220	0.79
68_S	211_V	1.218	0.79
68_S	213_G	1.217	0.79
64_V	91_L	1.205	0.78
59_W	153_N	1.193	0.78
313_L	327_W	1.192	0.77
205_E	244_L	1.189	0.77
301_R	304_G	1.181	0.77
223_L	323_T	1.181	0.77
168_A	226_D	1.180	0.77
94_R	97_D	1.173	0.76
93_C	215_V	1.164	0.76
296_E	343_N	1.160	0.76
160_A	163_S	1.157	0.75
71_F	246_L	1.146	0.75
68_S	215_V	1.121	0.73
127_T	140_V	1.120	0.73
64_V	68_S	1.117	0.73
239_A	243_A	1.102	0.72
97_D	101_D	1.098	0.71
90_Y	97_D	1.097	0.71
71_F	90_Y	1.094	0.71
253_K	334_A	1.088	0.71
90_Y	254_D	1.087	0.71
116_T	119_A	1.084	0.70
90_Y	247_Q	1.082	0.70
179_M	215_V	1.081	0.70
241_S	305_Y	1.081	0.70
120_A	123_P	1.080	0.70
280_E	293_S	1.074	0.70
92_L	176_V	1.071	0.69
70_T	253_K	1.066	0.69
95_V	158_V	1.056	0.68
122_D	286_E	1.054	0.68
66_D	363_A	1.050	0.68
51_Q	54_A	1.049	0.68
181_T	206_E	1.046	0.68
175_T	214_T	1.041	0.67
68_S	182_G	1.040	0.67
256_R	348_V	1.039	0.67
73_L	356_V	1.039	0.67
101_D	258_D	1.039	0.67
278_A	281_D	1.034	0.67
59_W	67_V	1.033	0.67
90_Y	258_D	1.029	0.66
276_D	282_V	1.024	0.66
101_D	254_D	1.020	0.66
256_R	352_G	1.018	0.65
292_A	296_E	1.018	0.65
182_G	212_A	1.016	0.65
219_V	327_W	1.014	0.65
277_L	294_V	1.012	0.65
275_H	290_R	1.010	0.65
179_M	213_G	1.002	0.64
174_P	221_E	0.999	0.64
79_E	82_M	0.982	0.63
94_R	258_D	0.977	0.62
82_M	317_P	0.976	0.62
245_L	306_V	0.975	0.62
65_Q	76_D	0.964	0.61
68_S	246_L	0.962	0.61
295_V	316_M	0.960	0.61
277_L	281_D	0.950	0.60
247_Q	254_D	0.948	0.60
263_N	348_V	0.941	0.59
275_H	294_V	0.941	0.59
49_S	52_P	0.938	0.59
216_G	247_Q	0.935	0.59
97_D	247_Q	0.932	0.59
70_T	242_F	0.930	0.58
297_R	307_A	0.928	0.58
122_D	177_R	0.924	0.58
201_P	301_R	0.922	0.58
286_E	316_M	0.922	0.58
247_Q	258_D	0.914	0.57
347_D	350_R	0.913	0.57
281_D	302_A	0.913	0.57
238_N	315_V	0.912	0.57
71_F	208_C	0.910	0.57
248_L	305_Y	0.909	0.57
46_G	49_S	0.902	0.56
105_M	113_L	0.896	0.56
304_G	307_A	0.896	0.56
68_S	212_A	0.895	0.55
60_C	338_M	0.892	0.55
243_A	247_Q	0.892	0.55
259_Y	263_N	0.886	0.55
78_L	207_Y	0.884	0.55
94_R	254_D	0.884	0.55
166_D	170_A	0.881	0.54
363_A	367_L	0.876	0.54
182_G	213_G	0.859	0.52
306_V	334_A	0.859	0.52
68_S	93_C	0.858	0.52
212_A	243_A	0.849	0.52
318_T	324_L	0.847	0.51
47_R	50_H	0.843	0.51
182_G	247_Q	0.839	0.51
312_W	337_T	0.833	0.50
71_F	94_R	0.833	0.50
182_G	246_L	0.832	0.50
90_Y	243_A	0.831	0.50
216_G	239_A	0.829	0.50
62_S	360_E	0.828	0.50
108_T	119_A	0.828	0.50
59_W	63_A	0.827	0.50
62_S	66_D	0.824	0.49
219_V	326_A	0.824	0.49
271_W	274_D	0.823	0.49
215_V	250_N	0.821	0.49
77_A	325_A	0.820	0.49
248_L	272_L	0.819	0.49
121_L	161_F	0.817	0.49
337_T	355_K	0.815	0.49
90_Y	246_L	0.812	0.48
303_R	339_R	0.811	0.48
94_R	215_V	0.811	0.48
153_N	156_R	0.810	0.48
179_M	257_P	0.809	0.48
102_A	110_Q	0.808	0.48
182_G	215_V	0.808	0.48
371_D	375_S	0.807	0.48
213_G	251_V	0.802	0.48
213_G	243_A	0.802	0.48
336_G	356_V	0.802	0.48
88_V	163_S	0.800	0.47
72_A	75_I	0.798	0.47
64_V	211_V	0.796	0.47
367_L	372_F	0.794	0.47
256_R	353_D	0.791	0.47
94_R	247_Q	0.781	0.46
272_L	294_V	0.779	0.46
323_T	327_W	0.779	0.46
312_W	334_A	0.778	0.45
207_Y	247_Q	0.776	0.45
62_S	289_G	0.773	0.45
98_T	337_T	0.772	0.45
200_S	375_S	0.768	0.45
79_E	159_S	0.767	0.45
250_N	254_D	0.764	0.44
209_W	214_T	0.762	0.44
317_P	323_T	0.761	0.44
312_W	326_A	0.760	0.44
370_D	373_D	0.759	0.44
180_A	184_A	0.759	0.44
121_L	154_T	0.756	0.44
99_V	114_L	0.755	0.44
200_S	270_E	0.752	0.43
71_F	213_G	0.750	0.43
269_Q	273_D	0.750	0.43
202_T	205_E	0.750	0.43
48_Q	53_T	0.749	0.43
50_H	341_L	0.748	0.43
301_R	347_D	0.744	0.43
64_V	326_A	0.744	0.43
220_T	233_A	0.742	0.42
201_P	298_V	0.732	0.42
186_F	266_Y	0.731	0.42
98_T	334_A	0.729	0.41
79_E	318_T	0.727	0.41
368_V	372_F	0.726	0.41
291_V	348_V	0.720	0.41
259_Y	373_D	0.720	0.41
367_L	373_D	0.718	0.40
91_L	98_T	0.716	0.40
90_Y	266_Y	0.715	0.40
70_T	250_N	0.714	0.40
179_M	251_V	0.710	0.40
100_E	183_M	0.709	0.40
181_T	185_S	0.706	0.39
288_A	345_P	0.703	0.39
48_Q	52_P	0.702	0.39
81_P	177_R	0.700	0.39
267_L	348_V	0.698	0.39
56_D	126_G	0.697	0.39
68_S	94_R	0.696	0.39
68_S	216_G	0.695	0.39
55_S	285_P	0.694	0.38
71_F	247_Q	0.690	0.38
114_L	264_N	0.689	0.38
197_R	263_N	0.689	0.38
75_I	326_A	0.687	0.38
179_M	218_L	0.681	0.37
179_M	208_C	0.681	0.37
68_S	90_Y	0.681	0.37
90_Y	207_Y	0.681	0.37
212_A	266_Y	0.680	0.37
94_R	207_Y	0.680	0.37
97_D	250_N	0.675	0.37
94_R	183_M	0.673	0.37
103_T	153_N	0.672	0.37
99_V	125_C	0.672	0.37
127_T	152_A	0.671	0.37
156_R	159_S	0.669	0.36
198_I	265_V	0.669	0.36
289_G	343_N	0.668	0.36
50_H	170_A	0.668	0.36
127_T	155_T	0.668	0.36
250_N	258_D	0.661	0.36
226_D	239_A	0.661	0.36
201_P	297_R	0.659	0.36
312_W	330_P	0.656	0.35
88_V	160_A	0.655	0.35
69_R	214_T	0.655	0.35
90_Y	183_M	0.655	0.35
103_T	126_G	0.654	0.35
179_M	246_L	0.654	0.35
46_G	51_Q	0.653	0.35
69_R	337_T	0.652	0.35
91_L	326_A	0.651	0.35
250_N	334_A	0.650	0.35
127_T	153_N	0.649	0.35
99_V	113_L	0.647	0.35
90_Y	215_V	0.647	0.35
108_T	112_Q	0.646	0.35
75_I	100_E	0.646	0.35
347_D	354_V	0.645	0.35
332_L	357_D	0.644	0.35
184_A	187_V	0.643	0.34
372_F	375_S	0.631	0.34
76_D	322_N	0.631	0.34
329_V	333_L	0.630	0.33
182_G	208_C	0.627	0.33
88_V	161_F	0.621	0.33
159_S	316_M	0.620	0.33
243_A	251_V	0.618	0.33
260_E	351_E	0.617	0.32
120_A	158_V	0.616	0.32
75_I	251_V	0.615	0.32
340_E	360_E	0.614	0.32
119_A	284_D	0.613	0.32
315_V	365_I	0.611	0.32
162_E	357_D	0.610	0.32
324_L	330_P	0.607	0.32
96_A	183_M	0.607	0.32
70_T	183_M	0.602	0.31
94_R	266_Y	0.600	0.31
270_E	364_V	0.599	0.31
292_A	341_L	0.598	0.31
46_G	55_S	0.598	0.31
206_E	210_Y	0.598	0.31
75_I	183_M	0.597	0.31
160_A	353_D	0.597	0.31
86_I	183_M	0.596	0.31
366_G	370_D	0.596	0.31
100_E	208_C	0.595	0.31
243_A	334_A	0.594	0.31
107_P	302_A	0.591	0.31
211_V	216_G	0.590	0.30
69_R	250_N	0.589	0.30
74_T	242_F	0.589	0.30
68_S	330_P	0.588	0.30
180_A	333_L	0.588	0.30
242_F	253_K	0.588	0.30
259_Y	282_V	0.587	0.30
108_T	284_D	0.587	0.30
63_A	67_V	0.586	0.30
323_T	326_A	0.586	0.30
183_M	212_A	0.584	0.30
168_A	299_T	0.583	0.30
179_M	211_V	0.583	0.30
203_E	323_T	0.582	0.30
277_L	290_R	0.582	0.30
47_R	51_Q	0.577	0.30
93_C	211_V	0.577	0.30
305_Y	309_A	0.577	0.30
178_E	316_M	0.576	0.29
179_M	182_G	0.576	0.29
211_V	253_K	0.572	0.29
53_T	163_S	0.570	0.29
104_A	140_V	0.567	0.29
208_C	298_V	0.567	0.29
250_N	253_K	0.565	0.29
255_V	360_E	0.565	0.29
265_V	279_P	0.564	0.29
177_R	181_T	0.562	0.28
91_L	183_M	0.562	0.28
208_C	215_V	0.560	0.28
100_E	312_W	0.558	0.28
182_G	210_Y	0.558	0.28
344_R	354_V	0.556	0.28
244_L	256_R	0.556	0.28
215_V	251_V	0.555	0.28
100_E	179_M	0.555	0.28
50_H	317_P	0.554	0.28
215_V	247_Q	0.553	0.28
102_A	219_V	0.553	0.28
213_G	244_L	0.552	0.28
107_P	265_V	0.550	0.28
201_P	270_E	0.548	0.27
336_G	360_E	0.546	0.27
118_D	181_T	0.546	0.27
323_T	330_P	0.544	0.27
205_E	305_Y	0.542	0.27
276_D	311_R	0.542	0.27
107_P	188_Q	0.541	0.27
271_W	301_R	0.540	0.27
47_R	368_V	0.540	0.27
98_T	219_V	0.536	0.27
326_A	334_A	0.536	0.27
189_R	197_R	0.535	0.27
211_V	250_N	0.532	0.26
172_I	330_P	0.532	0.26
242_F	361_V	0.531	0.26
247_Q	251_V	0.530	0.26
81_P	168_A	0.530	0.26
97_D	211_V	0.529	0.26
55_S	119_A	0.528	0.26
89_G	253_K	0.526	0.26
158_V	179_M	0.526	0.26
334_A	361_V	0.526	0.26
74_T	330_P	0.525	0.26
183_M	216_G	0.525	0.26
357_D	370_D	0.524	0.26
83_A	371_D	0.524	0.26
298_V	301_R	0.524	0.26
81_P	205_E	0.523	0.26
93_C	248_L	0.522	0.26
179_M	210_Y	0.520	0.26
197_R	265_V	0.520	0.26
83_A	253_K	0.520	0.26
100_E	337_T	0.519	0.26
86_I	171_A	0.518	0.25
175_T	218_L	0.517	0.25
350_R	354_V	0.516	0.25
242_F	264_N	0.516	0.25
67_V	73_L	0.516	0.25
205_E	255_V	0.516	0.25
367_L	371_D	0.515	0.25
244_L	340_E	0.514	0.25
101_D	207_Y	0.513	0.25
249_V	263_N	0.511	0.25
68_S	247_Q	0.510	0.25
62_S	307_A	0.510	0.25
101_D	247_Q	0.509	0.25
207_Y	216_G	0.509	0.25
325_A	329_V	0.509	0.25
91_L	172_I	0.508	0.25
69_R	330_P	0.508	0.25
88_V	164_L	0.507	0.25
140_V	151_V	0.507	0.25
67_V	98_T	0.506	0.25
105_M	140_V	0.506	0.25
247_Q	264_N	0.505	0.25
114_L	176_V	0.505	0.25
61_H	84_T	0.504	0.25
211_V	247_Q	0.503	0.25
336_G	340_E	0.502	0.24
220_T	223_L	0.502	0.24
59_W	156_R	0.500	0.24
62_S	363_A	0.500	0.24
98_T	330_P	0.500	0.24

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
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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
3vj8A	1	0.8077	100	0.324	Contact Map
4hd1A	1	0.6744	100	0.339	Contact Map
3wcaA	1	0.7872	100	0.342	Contact Map
3acxA	1	0.7282	100	0.357	Contact Map
3we9A	1	0.6333	100	0.374	Contact Map
3lmdA	2	0.7077	96.9	0.923	Contact Map
3oyrA	2	0.7333	96.5	0.926	Contact Map
3rmgA	2	0.6897	96.3	0.928	Contact Map
1wy0A	2	0.7231	96.3	0.928	Contact Map
3mzvA	2	0.7308	96.2	0.929	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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