DUF3731 - PFAM28P - GREMLIN Contacts

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DUF3731 - DNA-K related protein

PFAM:	PF12531	Sequences: SAAHEARWLNLAGFCLRPGFGDPLDDWRIEQLWRLYAAGLQFPNEVQCWAEWWILWRRVAGGLNAGQQQQLFQRLAPLLLPRGKKKKKKPKRLNPQELREMWRLAASLERLPVETKIELGDWLLKRLKKGPEDPQLLWALGRLGARVPLYGPLNTVVPPETAERWLEALLALDWKKPEPAAFALAQLARRTGDRARDLDDALRERVAARLEAAGAPERWLRLVREVVELDEAEEARVFGESLPPGLRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	248 (248)
Sequences:	2178 (1484)
Seq/√Len:	94.2
META:	0.896

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
221_R	225_E	4.545	1.00
163_E	199_D	3.647	1.00
162_A	187_L	3.391	1.00
121_D	161_T	3.371	1.00
20_F	61_G	3.300	1.00
120_G	165_W	2.986	1.00
193_D	196_R	2.838	1.00
120_G	144_G	2.832	1.00
167_E	205_R	2.823	1.00
104_L	108_L	2.791	1.00
211_E	224_R	2.633	1.00
166_L	184_L	2.597	1.00
117_I	158_P	2.595	1.00
166_L	198_L	2.560	1.00
184_L	206_V	2.440	1.00
147_V	191_T	2.308	1.00
24_L	27_W	2.289	1.00
22_D	26_D	2.274	1.00
144_G	187_L	2.272	1.00
49_W	97_E	2.271	1.00
144_G	165_W	2.245	1.00
188_A	206_V	2.204	1.00
47_Q	51_E	2.198	1.00
1_S	4_H	2.126	1.00
128_K	168_A	2.037	1.00
72_F	76_A	2.022	1.00
192_G	226_V	1.975	1.00
198_L	202_L	1.959	1.00
204_E	208_A	1.946	1.00
32_L	59_V	1.932	1.00
36_Y	74_R	1.918	1.00
36_Y	52_W	1.870	1.00
73_Q	115_T	1.842	1.00
207_A	220_L	1.826	1.00
121_D	164_R	1.825	1.00
105_A	119_L	1.819	1.00
206_V	223_V	1.813	1.00
27_W	31_Q	1.796	1.00
12_A	32_L	1.781	1.00
42_F	48_C	1.775	1.00
185_A	223_V	1.762	1.00
113_V	158_P	1.746	1.00
216_P	219_W	1.723	1.00
200_D	204_E	1.695	1.00
52_W	56_W	1.686	1.00
190_R	226_V	1.672	1.00
188_A	198_L	1.662	1.00
113_V	117_I	1.650	1.00
167_E	171_A	1.649	1.00
61_G	150_Y	1.644	1.00
72_F	119_L	1.629	1.00
64_N	67_Q	1.613	1.00
69_Q	73_Q	1.595	1.00
79_L	105_A	1.557	1.00
190_R	203_R	1.546	1.00
32_L	55_L	1.537	1.00
208_A	211_E	1.536	1.00
39_G	52_W	1.523	1.00
113_V	116_K	1.520	1.00
106_A	139_A	1.490	1.00
45_E	48_C	1.488	1.00
40_L	48_C	1.486	1.00
7_R	10_N	1.465	1.00
71_L	108_L	1.464	1.00
167_E	202_L	1.443	1.00
163_E	202_L	1.390	0.99
181_A	215_A	1.386	0.99
205_R	208_A	1.379	0.99
190_R	198_L	1.378	0.99
207_A	224_R	1.376	0.99
161_T	164_R	1.372	0.99
148_P	153_L	1.371	0.99
53_W	101_M	1.370	0.99
190_R	223_V	1.350	0.99
211_E	217_E	1.334	0.99
166_L	188_A	1.307	0.99
207_A	210_L	1.303	0.99
36_Y	39_G	1.295	0.99
157_V	162_A	1.280	0.99
163_E	198_L	1.266	0.99
166_L	206_V	1.264	0.99
243_P	246_L	1.260	0.99
123_L	136_L	1.248	0.99
75_L	101_M	1.246	0.99
174_W	184_L	1.244	0.99
83_G	86_K	1.219	0.98
79_L	143_L	1.216	0.98
69_Q	112_P	1.212	0.98
168_A	171_A	1.207	0.98
5_E	9_L	1.206	0.98
149_L	237_V	1.195	0.98
69_Q	115_T	1.193	0.98
61_G	151_G	1.190	0.98
189_R	194_R	1.184	0.98
65_A	69_Q	1.178	0.98
230_D	233_E	1.164	0.98
159_P	163_E	1.156	0.98
51_E	55_L	1.154	0.98
174_W	209_R	1.154	0.98
70_Q	74_R	1.142	0.98
31_Q	34_R	1.114	0.97
116_K	157_V	1.108	0.97
200_D	203_R	1.077	0.96
218_R	229_L	1.076	0.96
68_Q	107_S	1.069	0.96
87_K	90_P	1.068	0.96
233_E	236_R	1.062	0.96
36_Y	71_L	1.061	0.96
57_R	99_R	1.041	0.96
170_L	202_L	1.037	0.96
203_R	207_A	1.036	0.96
120_G	187_L	1.033	0.95
239_G	243_P	1.026	0.95
106_A	120_G	1.023	0.95
86_K	89_K	1.021	0.95
8_W	12_A	1.016	0.95
204_E	224_R	1.013	0.95
185_A	210_L	1.010	0.95
124_L	168_A	1.008	0.95
192_G	197_D	1.003	0.95
184_L	209_R	1.002	0.95
215_A	220_L	0.997	0.95
203_R	223_V	0.984	0.94
116_K	229_L	0.981	0.94
70_Q	73_Q	0.976	0.94
10_N	51_E	0.971	0.94
207_A	211_E	0.969	0.94
9_L	55_L	0.962	0.93
56_W	59_V	0.961	0.93
86_K	90_P	0.961	0.93
220_L	223_V	0.946	0.93
209_R	213_A	0.938	0.93
144_G	157_V	0.937	0.93
159_P	195_A	0.935	0.92
84_K	87_K	0.921	0.92
121_D	124_L	0.920	0.92
141_G	237_V	0.917	0.92
215_A	219_W	0.915	0.92
218_R	233_E	0.912	0.91
108_L	190_R	0.912	0.91
18_P	21_G	0.908	0.91
97_E	152_P	0.908	0.91
117_I	161_T	0.907	0.91
30_E	67_Q	0.907	0.91
47_Q	52_W	0.904	0.91
170_L	209_R	0.901	0.91
29_I	59_V	0.897	0.91
97_E	102_W	0.895	0.91
222_L	226_V	0.894	0.91
72_F	111_L	0.891	0.90
158_P	161_T	0.888	0.90
83_G	87_K	0.886	0.90
81_P	85_K	0.881	0.90
190_R	200_D	0.879	0.90
117_I	164_R	0.878	0.90
215_A	222_L	0.878	0.90
97_E	100_E	0.875	0.90
111_L	115_T	0.866	0.89
185_A	222_L	0.854	0.89
50_A	94_N	0.852	0.88
218_R	222_L	0.849	0.88
198_L	203_R	0.846	0.88
99_R	122_W	0.845	0.88
220_L	224_R	0.843	0.88
103_R	135_Q	0.841	0.88
183_A	187_L	0.833	0.87
16_L	32_L	0.830	0.87
21_G	25_D	0.828	0.87
81_P	84_K	0.828	0.87
245_G	248_L	0.823	0.87
116_K	129_K	0.822	0.87
122_W	125_K	0.818	0.86
184_L	187_L	0.817	0.86
243_P	248_L	0.815	0.86
33_W	67_Q	0.814	0.86
159_P	202_L	0.814	0.86
147_V	189_R	0.813	0.86
120_G	145_A	0.813	0.86
181_A	213_A	0.810	0.86
94_N	97_E	0.807	0.86
171_A	205_R	0.806	0.86
200_D	207_A	0.805	0.85
193_D	197_D	0.796	0.85
174_W	177_P	0.796	0.85
223_V	226_V	0.788	0.84
16_L	59_V	0.780	0.84
102_W	152_P	0.775	0.83
56_W	63_L	0.766	0.82
103_R	107_S	0.765	0.82
138_W	142_R	0.764	0.82
242_L	245_G	0.764	0.82
174_W	206_V	0.763	0.82
219_W	222_L	0.762	0.82
221_R	227_V	0.761	0.82
166_L	170_L	0.758	0.82
231_E	234_E	0.757	0.82
57_R	194_R	0.756	0.82
2_A	45_E	0.752	0.81
202_L	205_R	0.750	0.81
164_R	168_A	0.747	0.81
210_L	215_A	0.746	0.81
3_A	7_R	0.744	0.81
26_D	34_R	0.739	0.80
159_P	187_L	0.738	0.80
117_I	121_D	0.736	0.80
13_G	17_R	0.734	0.80
7_R	152_P	0.734	0.80
67_Q	104_L	0.731	0.79
76_A	118_E	0.731	0.79
185_A	207_A	0.731	0.79
127_L	132_E	0.728	0.79
118_E	122_W	0.727	0.79
211_E	220_L	0.725	0.79
103_R	138_W	0.724	0.79
132_E	135_Q	0.723	0.79
65_A	155_T	0.715	0.78
216_P	222_L	0.715	0.78
25_D	28_R	0.714	0.78
240_E	243_P	0.703	0.77
207_A	223_V	0.700	0.76
231_E	235_A	0.699	0.76
98_L	105_A	0.697	0.76
229_L	234_E	0.697	0.76
40_L	43_P	0.696	0.76
17_R	21_G	0.694	0.76
214_G	218_R	0.689	0.75
6_A	49_W	0.686	0.75
140_L	143_L	0.675	0.74
19_G	25_D	0.675	0.74
66_G	140_L	0.674	0.74
217_E	221_R	0.674	0.74
79_L	140_L	0.669	0.73
139_A	241_S	0.668	0.73
68_Q	73_Q	0.667	0.73
97_E	126_R	0.666	0.73
222_L	227_V	0.666	0.73
54_I	57_R	0.666	0.73
148_P	196_R	0.666	0.73
162_A	166_L	0.662	0.72
166_L	202_L	0.659	0.72
183_A	196_R	0.653	0.71
124_L	161_T	0.653	0.71
210_L	220_L	0.653	0.71
80_L	122_W	0.649	0.71
54_I	143_L	0.648	0.71
82_R	89_K	0.647	0.71
182_F	236_R	0.646	0.71
113_V	143_L	0.644	0.70
227_V	233_E	0.644	0.70
60_A	107_S	0.642	0.70
88_K	92_R	0.642	0.70
75_L	78_L	0.642	0.70
164_R	167_E	0.640	0.70
99_R	135_Q	0.639	0.70
33_W	36_Y	0.639	0.70
45_E	49_W	0.638	0.70
124_L	238_F	0.638	0.70
40_L	187_L	0.636	0.69
137_L	141_G	0.630	0.69
199_D	204_E	0.629	0.69
99_R	103_R	0.628	0.68
218_R	238_F	0.627	0.68
239_G	248_L	0.624	0.68
82_R	85_K	0.621	0.68
127_L	136_L	0.621	0.68
151_G	155_T	0.620	0.67
49_W	78_L	0.619	0.67
222_L	230_D	0.618	0.67
13_G	18_P	0.613	0.67
98_L	107_S	0.612	0.66
72_F	115_T	0.609	0.66
51_E	54_I	0.607	0.66
122_W	126_R	0.606	0.66
104_L	141_G	0.601	0.65
221_R	224_R	0.600	0.65
18_P	25_D	0.596	0.64
215_A	218_R	0.596	0.64
174_W	179_P	0.593	0.64
91_K	181_A	0.593	0.64
4_H	127_L	0.591	0.64
74_R	116_K	0.591	0.64
60_A	108_L	0.590	0.64
3_A	95_P	0.590	0.64
12_A	15_C	0.589	0.63
20_F	149_L	0.589	0.63
199_D	217_E	0.588	0.63
33_W	70_Q	0.588	0.63
16_L	29_I	0.587	0.63
125_K	128_K	0.584	0.63
67_Q	144_G	0.583	0.63
162_A	183_A	0.580	0.62
14_F	43_P	0.577	0.62
53_W	63_L	0.577	0.62
37_A	70_Q	0.575	0.62
201_A	214_G	0.574	0.62
9_L	52_W	0.573	0.61
43_P	49_W	0.569	0.61
229_L	237_V	0.569	0.61
81_P	90_P	0.567	0.61
59_V	181_A	0.567	0.61
23_P	26_D	0.566	0.60
68_Q	150_Y	0.565	0.60
66_G	100_E	0.564	0.60
175_K	179_P	0.563	0.60
5_E	13_G	0.556	0.59
148_P	190_R	0.554	0.59
9_L	12_A	0.554	0.59
199_D	202_L	0.553	0.59
110_R	150_Y	0.552	0.59
75_L	104_L	0.552	0.59
182_F	186_Q	0.551	0.58
99_R	154_N	0.551	0.58
15_C	32_L	0.546	0.58
102_W	136_L	0.546	0.58
201_A	204_E	0.545	0.58
33_W	57_R	0.542	0.57
10_N	14_F	0.542	0.57
199_D	208_A	0.540	0.57
182_F	222_L	0.540	0.57
110_R	152_P	0.540	0.57
6_A	48_C	0.539	0.57
229_L	233_E	0.538	0.57
156_V	174_W	0.538	0.57
140_L	144_G	0.537	0.56
97_E	154_N	0.537	0.56
100_E	152_P	0.537	0.56
29_I	110_R	0.531	0.56
50_A	96_Q	0.531	0.56
10_N	52_W	0.531	0.56
181_A	184_L	0.528	0.55
6_A	12_A	0.528	0.55
130_G	133_D	0.527	0.55
5_E	8_W	0.525	0.55
29_I	33_W	0.525	0.55
218_R	227_V	0.524	0.55
40_L	75_L	0.523	0.55
66_G	70_Q	0.523	0.55
95_P	100_E	0.522	0.54
168_A	172_L	0.522	0.54
211_E	221_R	0.521	0.54
85_K	90_P	0.521	0.54
133_D	136_L	0.521	0.54
170_L	206_V	0.521	0.54
147_V	196_R	0.521	0.54
129_K	184_L	0.520	0.54
214_G	219_W	0.520	0.54
5_E	40_L	0.520	0.54
13_G	19_G	0.519	0.54
231_E	237_V	0.519	0.54
41_Q	48_C	0.519	0.54
55_L	224_R	0.518	0.54
66_G	72_F	0.517	0.54
7_R	154_N	0.517	0.54
194_R	197_D	0.516	0.54
159_P	199_D	0.516	0.54
53_W	97_E	0.516	0.54
138_W	151_G	0.516	0.54
89_K	95_P	0.515	0.53
8_W	61_G	0.515	0.53
30_E	39_G	0.513	0.53
71_L	181_A	0.511	0.53
124_L	143_L	0.511	0.53
24_L	31_Q	0.510	0.53
227_V	240_E	0.509	0.53
37_A	139_A	0.508	0.52
121_D	168_A	0.508	0.52
182_F	219_W	0.505	0.52
180_A	183_A	0.505	0.52
127_L	172_L	0.504	0.52
22_D	152_P	0.501	0.51
44_N	82_R	0.501	0.51
157_V	165_W	0.500	0.51

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
4narA	2	0.3669	45.7	0.96	Contact Map
4db6A	1	0.75	19	0.967	Contact Map
1te4A	1	0.4073	17.1	0.968	Contact Map
4qmiA	1	0.7984	16.1	0.968	Contact Map
4g3aA	1	0.8145	15.6	0.968	Contact Map
1u6gC	1	0.8105	14.3	0.969	Contact Map
2qk1A	1	0.8105	14.2	0.969	Contact Map
3ez0A	2	0.625	12.1	0.97	Contact Map
4jw3C	1	0.3831	8.3	0.972	Contact Map
2vglA	1	0.7742	7.4	0.972	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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