Mu-like_gpT - PFAM28P - GREMLIN Contacts

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Mu-like_gpT - Mu-like prophage major head subunit gpT

PFAM:	PF10124	Sequences: LAALFTGFKAAFQKGLAGAPSQYEKIATTVPSTTASNTYGWLGQFPGLREWIGDRVIKNLAAHGYTIKNKKFESTVGVDRDDIEDDNLGIYSPLFQEMGRAAAAHPDELVFGLLKAGFTTLCYDGQYFFDTDHPVLDGTGAATSVSNMQGGAGTPWFLLDTSRALKPLIFQERKKPEFVAMDDPTDENVFMRDEFLYGVDARCNAGFGFWQLAYGSKATLTAANYAAARAAMMSFKGDGGRPLGIRPTLLVVPPSLEAAARKLLEAELLAGGASNIWYGTAELLVVPWL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	289 (289)
Sequences:	1019 (786)
Seq/√Len:	46.2
META:	0.687

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
253_P	256_L	3.991	1.00
71_K	81_D	3.904	1.00
50_E	70_K	3.503	1.00
23_Y	29_T	3.483	1.00
71_K	193_D	3.444	1.00
264_L	283_L	2.765	1.00
181_M	187_E	2.745	1.00
149_Q	214_Y	2.685	1.00
84_E	174_K	2.643	1.00
249_L	284_L	2.626	1.00
266_A	276_I	2.616	1.00
118_F	215_G	2.595	1.00
114_L	168_L	2.480	1.00
172_E	175_K	2.439	1.00
35_A	82_D	2.404	1.00
267_E	278_Y	2.399	1.00
221_T	224_N	2.387	1.00
161_T	249_L	2.317	1.00
225_Y	280_T	2.236	1.00
126_Q	130_D	2.224	1.00
162_S	248_T	2.207	1.00
225_Y	229_R	2.198	1.00
161_T	248_T	2.132	1.00
113_L	207_F	2.120	1.00
150_G	218_A	2.101	1.00
54_D	192_R	2.086	1.00
229_R	257_E	2.042	0.99
260_A	283_L	2.037	0.99
25_K	282_E	2.034	0.99
149_Q	218_A	2.026	0.99
154_T	253_P	1.985	0.99
77_G	194_E	1.937	0.99
225_Y	281_A	1.929	0.99
174_K	200_D	1.896	0.99
170_F	203_C	1.866	0.99
269_L	273_A	1.860	0.99
47_G	108_E	1.859	0.99
145_V	210_W	1.857	0.99
28_T	165_L	1.829	0.99
181_M	196_L	1.823	0.99
118_F	217_K	1.818	0.99
262_K	276_I	1.809	0.99
57_I	77_G	1.783	0.99
14_K	96_Q	1.766	0.98
265_E	279_G	1.731	0.98
97_E	100_R	1.685	0.98
229_R	280_T	1.674	0.98
29_T	172_E	1.666	0.98
176_P	201_A	1.648	0.98
193_D	200_D	1.598	0.97
225_Y	277_W	1.595	0.97
105_H	176_P	1.583	0.97
229_R	281_A	1.579	0.97
132_D	144_S	1.575	0.97
262_K	268_L	1.556	0.96
146_S	149_Q	1.551	0.96
277_W	281_A	1.539	0.96
270_A	273_A	1.533	0.96
22_Q	111_F	1.525	0.96
232_M	235_F	1.516	0.96
154_T	256_L	1.504	0.96
268_L	273_A	1.503	0.96
261_R	265_E	1.503	0.96
15_G	96_Q	1.501	0.96
265_E	278_Y	1.468	0.95
236_K	242_P	1.458	0.95
146_S	214_Y	1.451	0.95
97_E	163_R	1.446	0.95
108_E	241_R	1.436	0.94
209_F	212_L	1.420	0.94
57_I	191_M	1.415	0.94
81_D	193_D	1.407	0.94
148_M	215_G	1.405	0.94
268_L	271_G	1.400	0.94
48_L	176_P	1.387	0.93
79_D	193_D	1.386	0.93
127_Y	130_D	1.381	0.93
188_N	196_L	1.376	0.93
183_D	186_D	1.364	0.93
116_A	120_T	1.361	0.93
191_M	196_L	1.356	0.93
100_R	104_A	1.352	0.92
176_P	203_C	1.334	0.92
9_K	37_N	1.331	0.92
226_A	277_W	1.323	0.92
177_E	184_P	1.304	0.91
170_F	201_A	1.257	0.89
277_W	280_T	1.257	0.89
233_M	287_P	1.246	0.89
100_R	164_A	1.246	0.89
64_G	68_K	1.244	0.89
148_M	214_Y	1.221	0.88
109_L	205_A	1.215	0.88
149_Q	224_N	1.215	0.88
67_I	206_G	1.208	0.87
127_Y	131_T	1.206	0.87
36_S	66_T	1.204	0.87
79_D	82_D	1.201	0.87
257_E	280_T	1.201	0.87
257_E	281_A	1.196	0.87
257_E	285_V	1.195	0.87
37_N	87_N	1.192	0.87
187_E	196_L	1.191	0.87
110_V	168_L	1.185	0.86
267_E	274_S	1.180	0.86
81_D	174_K	1.173	0.86
43_G	63_H	1.173	0.86
5_F	62_A	1.171	0.86
225_Y	257_E	1.164	0.85
70_K	204_N	1.163	0.85
257_E	261_R	1.162	0.85
120_T	207_F	1.156	0.85
268_L	274_S	1.155	0.85
219_T	223_A	1.149	0.85
8_F	95_F	1.147	0.85
126_Q	132_D	1.144	0.84
261_R	283_L	1.139	0.84
257_E	277_W	1.125	0.83
226_A	262_K	1.118	0.83
160_D	248_T	1.113	0.83
258_A	277_W	1.113	0.83
11_A	92_S	1.112	0.83
24_E	29_T	1.112	0.83
261_R	277_W	1.107	0.82
90_I	93_P	1.107	0.82
219_T	259_A	1.099	0.82
226_A	257_E	1.089	0.81
69_N	85_D	1.084	0.81
79_D	194_E	1.084	0.81
120_T	127_Y	1.079	0.81
266_A	273_A	1.066	0.80
121_L	127_Y	1.064	0.80
101_A	108_E	1.059	0.79
226_A	230_A	1.058	0.79
159_L	251_V	1.056	0.79
226_A	258_A	1.056	0.79
136_L	239_G	1.046	0.79
221_T	263_L	1.044	0.79
25_K	249_L	1.043	0.78
57_I	75_T	1.031	0.78
118_F	157_F	1.030	0.78
232_M	247_P	1.028	0.77
72_F	203_C	1.025	0.77
32_S	69_N	1.025	0.77
23_Y	27_A	1.023	0.77
105_H	203_C	1.023	0.77
127_Y	132_D	1.022	0.77
229_R	277_W	1.021	0.77
44_Q	79_D	1.011	0.76
48_L	105_H	1.004	0.76
188_N	194_E	1.002	0.76
184_P	195_F	1.000	0.75
97_E	101_A	0.995	0.75
4_L	83_I	0.978	0.74
117_G	207_F	0.974	0.73
112_G	116_A	0.972	0.73
214_Y	231_A	0.971	0.73
71_K	200_D	0.956	0.72
258_A	262_K	0.951	0.72
174_K	193_D	0.947	0.71
97_E	164_A	0.946	0.71
25_K	248_T	0.944	0.71
261_R	280_T	0.944	0.71
233_M	254_P	0.944	0.71
106_P	170_F	0.944	0.71
135_V	145_V	0.943	0.71
232_M	245_I	0.938	0.71
154_T	255_S	0.937	0.71
160_D	246_R	0.934	0.70
74_S	101_A	0.932	0.70
38_T	64_G	0.931	0.70
81_D	84_E	0.931	0.70
11_A	15_G	0.928	0.70
116_A	207_F	0.926	0.70
46_P	74_S	0.922	0.69
258_A	276_I	0.918	0.69
155_P	217_K	0.915	0.69
165_L	212_L	0.913	0.69
22_Q	286_V	0.912	0.68
152_A	219_T	0.912	0.68
36_S	68_K	0.899	0.67
105_H	201_A	0.897	0.67
237_G	241_R	0.896	0.67
15_G	99_G	0.889	0.66
76_V	95_F	0.888	0.66
264_L	281_A	0.887	0.66
67_I	204_N	0.883	0.66
80_R	177_E	0.880	0.66
162_S	246_R	0.875	0.65
187_E	192_R	0.874	0.65
80_R	195_F	0.872	0.65
150_G	214_Y	0.872	0.65
261_R	264_L	0.871	0.65
58_K	74_S	0.871	0.65
28_T	212_L	0.867	0.64
159_L	213_A	0.863	0.64
118_F	148_M	0.859	0.64
46_P	58_K	0.859	0.64
188_N	192_R	0.858	0.64
179_V	200_D	0.856	0.63
174_K	184_P	0.855	0.63
6_T	38_T	0.854	0.63
114_L	251_V	0.850	0.63
21_S	107_D	0.849	0.63
242_P	288_W	0.848	0.63
81_D	200_D	0.845	0.62
3_A	38_T	0.844	0.62
82_D	87_N	0.842	0.62
172_E	176_P	0.839	0.62
80_R	84_E	0.839	0.62
71_K	174_K	0.837	0.62
118_F	155_P	0.835	0.62
179_V	184_P	0.834	0.61
218_A	227_A	0.832	0.61
16_L	103_A	0.825	0.61
234_S	255_S	0.822	0.60
174_K	179_V	0.818	0.60
155_P	215_G	0.815	0.60
10_A	14_K	0.812	0.59
28_T	209_F	0.810	0.59
258_A	278_Y	0.810	0.59
177_E	200_D	0.806	0.59
149_Q	217_K	0.805	0.59
77_G	196_L	0.804	0.59
148_M	218_A	0.801	0.58
227_A	231_A	0.800	0.58
46_P	97_E	0.798	0.58
150_G	153_G	0.798	0.58
216_S	228_A	0.793	0.58
233_M	257_E	0.791	0.57
137_D	143_T	0.786	0.57
214_Y	245_I	0.779	0.56
266_A	274_S	0.775	0.56
226_A	229_R	0.774	0.56
157_F	215_G	0.773	0.56
95_F	178_F	0.766	0.55
55_R	200_D	0.765	0.55
48_L	101_A	0.763	0.55
138_G	239_G	0.762	0.55
86_D	89_G	0.758	0.54
50_E	204_N	0.757	0.54
110_V	205_A	0.752	0.54
58_K	239_G	0.751	0.53
95_F	99_G	0.750	0.53
82_D	91_Y	0.749	0.53
266_A	277_W	0.748	0.53
15_G	209_F	0.747	0.53
226_A	281_A	0.747	0.53
82_D	88_L	0.745	0.53
263_L	279_G	0.745	0.53
7_G	37_N	0.743	0.53
34_T	87_N	0.739	0.52
48_L	74_S	0.739	0.52
128_F	207_F	0.739	0.52
44_Q	97_E	0.737	0.52
19_A	22_Q	0.737	0.52
212_L	245_I	0.734	0.52
230_A	234_S	0.733	0.52
174_K	177_E	0.733	0.52
158_L	229_R	0.731	0.52
175_K	201_A	0.730	0.51
13_Q	17_A	0.728	0.51
172_E	203_C	0.728	0.51
65_Y	209_F	0.723	0.51
214_Y	235_F	0.722	0.51
101_A	241_R	0.722	0.51
24_E	103_A	0.720	0.50
181_M	191_M	0.719	0.50
181_M	186_D	0.715	0.50
74_S	98_M	0.710	0.49
214_Y	232_M	0.705	0.49
96_Q	164_A	0.703	0.49
25_K	161_T	0.698	0.48
75_T	190_F	0.697	0.48
21_S	103_A	0.697	0.48
180_A	183_D	0.697	0.48
8_F	40_G	0.694	0.48
262_K	273_A	0.694	0.48
218_A	224_N	0.694	0.48
46_P	101_A	0.692	0.48
48_L	199_V	0.691	0.48
153_G	217_K	0.690	0.47
57_I	196_L	0.688	0.47
35_A	87_N	0.687	0.47
48_L	201_A	0.687	0.47
21_S	24_E	0.686	0.47
72_F	204_N	0.682	0.47
261_R	276_I	0.680	0.46
250_L	264_L	0.678	0.46
274_S	278_Y	0.678	0.46
85_D	202_R	0.678	0.46
45_F	58_K	0.674	0.46
63_H	123_Y	0.671	0.46
37_N	69_N	0.670	0.46
214_Y	228_A	0.669	0.45
1_L	195_F	0.668	0.45
222_A	262_K	0.663	0.45
50_E	72_F	0.662	0.45
44_Q	94_L	0.659	0.44
158_L	281_A	0.658	0.44
135_V	236_K	0.658	0.44
45_F	97_E	0.656	0.44
219_T	224_N	0.656	0.44
34_T	37_N	0.656	0.44
137_D	239_G	0.652	0.44
45_F	98_M	0.652	0.44
184_P	197_Y	0.650	0.44
224_N	227_A	0.650	0.44
234_S	254_P	0.646	0.43
15_G	18_G	0.646	0.43
208_G	212_L	0.645	0.43
225_Y	258_A	0.641	0.43
62_A	91_Y	0.641	0.43
261_R	278_Y	0.639	0.42
262_K	278_Y	0.637	0.42
110_V	114_L	0.637	0.42
221_T	259_A	0.637	0.42
39_Y	171_Q	0.628	0.41
268_L	278_Y	0.627	0.41
187_E	191_M	0.625	0.41
244_G	287_P	0.619	0.41
261_R	266_A	0.617	0.40
190_F	198_G	0.617	0.40
179_V	193_D	0.616	0.40
118_F	149_Q	0.615	0.40
113_L	204_N	0.608	0.40
105_H	170_F	0.607	0.39
80_R	200_D	0.606	0.39
158_L	225_Y	0.606	0.39
115_K	157_F	0.606	0.39
144_S	210_W	0.605	0.39
150_G	154_T	0.604	0.39
251_V	284_L	0.604	0.39
127_Y	144_S	0.603	0.39
19_A	35_A	0.600	0.39
266_A	271_G	0.600	0.39
40_G	88_L	0.597	0.39
44_Q	100_R	0.596	0.38
44_Q	82_D	0.595	0.38
49_R	54_D	0.593	0.38
269_L	278_Y	0.591	0.38
94_L	97_E	0.591	0.38
264_L	280_T	0.590	0.38
4_L	8_F	0.588	0.38
158_L	228_A	0.588	0.38
264_L	279_G	0.588	0.38
237_G	243_L	0.587	0.38
2_A	6_T	0.586	0.37
70_K	112_G	0.584	0.37
103_A	106_P	0.580	0.37
258_A	281_A	0.580	0.37
9_K	177_E	0.578	0.37
35_A	68_K	0.577	0.37
43_G	123_Y	0.576	0.37
226_A	280_T	0.574	0.36
264_L	278_Y	0.573	0.36
29_T	170_F	0.572	0.36
149_Q	227_A	0.571	0.36
34_T	38_T	0.571	0.36
26_I	110_V	0.570	0.36
185_T	188_N	0.569	0.36
153_G	219_T	0.568	0.36
32_S	37_N	0.568	0.36
265_E	276_I	0.568	0.36
137_D	140_G	0.568	0.36
5_F	87_N	0.567	0.36
69_N	171_Q	0.566	0.36
48_L	57_I	0.566	0.36
32_S	39_Y	0.565	0.36
135_V	238_D	0.565	0.36
128_F	213_A	0.565	0.36
174_K	201_A	0.561	0.35
214_Y	224_N	0.560	0.35
38_T	66_T	0.559	0.35
137_D	141_A	0.558	0.35
222_A	269_L	0.558	0.35
252_V	285_V	0.556	0.35
94_L	163_R	0.553	0.34
131_T	148_M	0.552	0.34
186_D	196_L	0.551	0.34
2_A	5_F	0.550	0.34
261_R	281_A	0.549	0.34
233_M	247_P	0.549	0.34
190_F	196_L	0.548	0.34
257_E	279_G	0.545	0.34
262_K	269_L	0.543	0.34
45_F	74_S	0.542	0.34
104_A	163_R	0.542	0.34
146_S	224_N	0.541	0.33
222_A	277_W	0.538	0.33
130_D	144_S	0.538	0.33
162_S	249_L	0.536	0.33
259_A	262_K	0.536	0.33
48_L	58_K	0.535	0.33
60_L	94_L	0.535	0.33
163_R	244_G	0.535	0.33
132_D	151_G	0.534	0.33
226_A	261_R	0.534	0.33
181_M	188_N	0.534	0.33
13_Q	16_L	0.533	0.33
222_A	263_L	0.528	0.32
12_F	98_M	0.528	0.32
52_I	209_F	0.528	0.32
117_G	129_F	0.527	0.32
182_D	197_Y	0.526	0.32
214_Y	218_A	0.525	0.32
229_R	233_M	0.522	0.32
71_K	79_D	0.521	0.32
9_K	92_S	0.520	0.32
258_A	280_T	0.519	0.32
49_R	53_G	0.515	0.31
180_A	197_Y	0.515	0.31
35_A	81_D	0.515	0.31
26_I	286_V	0.513	0.31
230_A	277_W	0.513	0.31
225_Y	263_L	0.513	0.31
96_Q	100_R	0.512	0.31
128_F	159_L	0.511	0.31
80_R	174_K	0.510	0.31
113_L	205_A	0.510	0.31
266_A	278_Y	0.510	0.31
265_E	282_E	0.510	0.31
268_L	272_G	0.510	0.31
30_V	37_N	0.509	0.31
46_P	76_V	0.509	0.31
266_A	269_L	0.508	0.31
63_H	90_I	0.507	0.31
48_L	72_F	0.506	0.30
168_L	205_A	0.506	0.30
92_S	96_Q	0.504	0.30
63_H	66_T	0.502	0.30
84_E	200_D	0.501	0.30
32_S	85_D	0.500	0.30
138_G	141_A	0.500	0.30

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
3vwcA	1	0.4221	31.1	0.974	Contact Map
4gwgA	2	0.4118	17.8	0.976	Contact Map
5cd6A	2	0.4152	16.6	0.977	Contact Map
7ceiB	1	0.0657	14.7	0.977	Contact Map
4v0pA	2	0.564	12.1	0.978	Contact Map
2cjrA	2	0.2976	11.9	0.978	Contact Map
2xwsA	2	0.2318	11.7	0.978	Contact Map
4pmoA	1	0.2768	11.3	0.978	Contact Map
3i3wA	2	0.2664	11	0.979	Contact Map
2wa0A	1	0.5329	9.7	0.979	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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