DUF1849 - PFAM28P - GREMLIN Contacts

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DUF1849 - Domain of unknown function (DUF1849)

PFAM:	PF08904	Sequences: AAAAVELAPHRAVYDLSLAKARGGSGIVGARGRMVYEFSGSACDGYTLNFRQVTELDSGEGKVVLSDLRSTTWESGDGKSFRFNSRNYVNGELTEEVDGEAERDGDGGTVKLTKPEAKTFDLPAGTLFPTEHTRRLIEAARAGKTFLEAPVFDGSDDGEKVYDTLTVIGKPIAPGAAAPDPAAAGAPALAGLPRWPVTISYFDAGSGEQTPDYEISFELYENGVSRDLVLDYGDFVIRGKLTSLELLP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	248 (245)
Sequences:	2563 (1785)
Seq/√Len:	114.0
META:	0.883

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
171_P	193_P	4.222	1.00
139_A	144_K	3.938	1.00
40_G	76_G	3.471	1.00
194_R	218_E	3.016	1.00
88_Y	93_L	2.935	1.00
136_L	166_T	2.898	1.00
11_R	37_E	2.866	1.00
103_R	108_G	2.858	1.00
192_L	221_E	2.853	1.00
220_Y	226_R	2.709	1.00
38_F	130_T	2.551	1.00
127_L	135_R	2.492	1.00
75_S	79_K	2.487	1.00
127_L	149_A	2.385	1.00
166_T	199_I	2.374	1.00
164_T	199_I	2.342	1.00
228_L	239_G	2.239	1.00
141_R	221_E	2.194	1.00
169_G	196_P	2.139	1.00
135_R	139_A	2.137	1.00
146_F	165_L	2.106	1.00
139_A	147_L	2.099	1.00
101_A	128_F	2.078	1.00
109_T	119_T	2.048	1.00
193_P	221_E	2.026	1.00
138_E	142_A	1.992	1.00
15_D	33_R	1.977	1.00
6_E	9_P	1.946	1.00
73_W	82_R	1.926	1.00
19_A	238_R	1.889	1.00
72_T	81_F	1.869	1.00
30_A	56_L	1.832	1.00
224_V	246_L	1.809	1.00
11_R	245_E	1.751	1.00
55_E	65_L	1.743	1.00
111_K	119_T	1.740	1.00
30_A	237_I	1.710	1.00
15_D	242_T	1.704	1.00
18_L	21_A	1.700	1.00
83_F	99_G	1.682	1.00
7_L	137_I	1.672	1.00
93_L	96_E	1.666	1.00
110_V	122_L	1.666	1.00
140_A	168_I	1.662	1.00
31_R	55_E	1.653	1.00
241_L	244_L	1.634	1.00
229_V	238_R	1.626	1.00
109_T	121_D	1.617	1.00
150_P	163_D	1.615	1.00
146_F	167_V	1.613	1.00
194_R	220_Y	1.610	1.00
203_D	212_D	1.605	1.00
96_E	114_K	1.599	1.00
218_E	226_R	1.592	1.00
224_V	244_L	1.581	1.00
5_V	138_E	1.577	1.00
86_R	96_E	1.577	1.00
136_L	197_V	1.566	1.00
231_D	236_V	1.554	1.00
131_E	135_R	1.548	1.00
29_G	57_D	1.541	1.00
71_T	84_N	1.503	1.00
232_Y	235_F	1.492	1.00
37_E	49_N	1.489	1.00
75_S	80_S	1.450	1.00
229_V	236_V	1.440	1.00
145_T	170_K	1.416	1.00
8_A	246_L	1.362	1.00
55_E	63_V	1.357	1.00
53_V	65_L	1.353	1.00
135_R	147_L	1.348	1.00
51_R	67_D	1.346	1.00
172_I	218_E	1.319	1.00
79_K	103_R	1.297	0.99
33_R	53_V	1.282	0.99
17_S	240_K	1.277	0.99
84_N	98_D	1.271	0.99
45_G	73_W	1.271	0.99
198_T	214_E	1.258	0.99
103_R	131_E	1.256	0.99
21_A	25_S	1.243	0.99
8_A	222_N	1.237	0.99
69_R	86_R	1.225	0.99
35_V	51_R	1.218	0.99
37_E	48_L	1.215	0.99
47_T	71_T	1.210	0.99
127_L	131_E	1.202	0.99
13_V	33_R	1.200	0.99
54_T	237_I	1.197	0.99
37_E	247_L	1.194	0.99
19_A	229_V	1.189	0.99
86_R	93_L	1.188	0.99
81_F	133_T	1.186	0.99
10_H	14_Y	1.185	0.99
8_A	224_V	1.185	0.99
132_H	153_D	1.173	0.99
69_R	88_Y	1.172	0.99
137_I	141_R	1.159	0.99
151_V	164_T	1.158	0.99
140_A	195_W	1.154	0.99
50_F	230_L	1.151	0.99
25_S	28_V	1.149	0.99
38_F	50_F	1.144	0.99
123_P	126_T	1.134	0.99
7_L	38_F	1.130	0.99
218_E	227_D	1.124	0.99
21_A	26_G	1.123	0.99
122_L	126_T	1.122	0.99
165_L	200_S	1.120	0.99
30_A	54_T	1.108	0.98
79_K	106_D	1.107	0.98
206_S	209_Q	1.103	0.98
188_A	191_G	1.095	0.98
187_P	190_A	1.092	0.98
19_A	236_V	1.086	0.98
136_L	199_I	1.085	0.98
149_A	166_T	1.084	0.98
87_N	95_E	1.077	0.98
135_R	138_E	1.075	0.98
80_S	100_E	1.073	0.98
132_H	149_A	1.063	0.98
7_L	36_Y	1.052	0.98
192_L	220_Y	1.051	0.98
44_D	73_W	1.047	0.98
242_T	245_E	1.039	0.98
77_D	116_E	1.028	0.97
46_Y	152_F	1.018	0.97
41_S	44_D	1.013	0.97
79_K	105_G	1.012	0.97
134_R	138_E	0.998	0.97
52_Q	56_L	0.989	0.97
97_V	112_L	0.989	0.97
103_R	125_G	0.987	0.97
46_Y	68_L	0.986	0.97
233_G	236_V	0.981	0.97
200_S	214_E	0.962	0.96
217_F	228_L	0.953	0.96
118_K	159_E	0.945	0.96
13_V	35_V	0.944	0.96
78_G	131_E	0.939	0.96
34_M	50_F	0.933	0.95
26_G	238_R	0.933	0.95
112_L	160_K	0.930	0.95
217_F	225_S	0.924	0.95
151_V	201_Y	0.918	0.95
52_Q	68_L	0.913	0.95
219_L	230_L	0.905	0.95
106_D	124_A	0.902	0.94
135_R	149_A	0.898	0.94
148_E	163_D	0.893	0.94
19_A	22_R	0.880	0.94
207_G	210_T	0.880	0.94
17_S	238_R	0.871	0.93
132_H	235_F	0.870	0.93
198_T	216_S	0.865	0.93
47_T	82_R	0.858	0.93
102_E	109_T	0.854	0.93
5_V	137_I	0.853	0.93
198_T	231_D	0.848	0.92
81_F	152_F	0.846	0.92
88_Y	91_G	0.843	0.92
122_L	161_V	0.838	0.92
36_Y	52_Q	0.837	0.92
39_S	47_T	0.836	0.92
98_D	113_T	0.832	0.92
189_L	222_N	0.830	0.92
197_V	219_L	0.824	0.91
35_V	54_T	0.823	0.91
213_Y	232_Y	0.819	0.91
64_V	90_N	0.818	0.91
225_S	228_L	0.815	0.91
215_I	225_S	0.814	0.91
148_E	165_L	0.811	0.91
225_S	239_G	0.808	0.91
110_V	152_F	0.805	0.90
102_E	111_K	0.805	0.90
40_G	47_T	0.802	0.90
68_L	87_N	0.797	0.90
84_N	96_E	0.797	0.90
238_R	243_S	0.796	0.90
162_Y	215_I	0.791	0.90
120_F	126_T	0.787	0.89
54_T	164_T	0.787	0.89
230_L	237_I	0.787	0.89
6_E	17_S	0.771	0.88
36_Y	50_F	0.771	0.88
21_A	24_G	0.768	0.88
129_P	231_D	0.759	0.88
14_Y	32_G	0.758	0.88
219_L	232_Y	0.753	0.87
16_L	52_Q	0.747	0.87
7_L	133_T	0.743	0.86
50_F	232_Y	0.742	0.86
34_M	201_Y	0.742	0.86
107_G	125_G	0.740	0.86
107_G	121_D	0.735	0.86
132_H	166_T	0.734	0.86
126_T	150_P	0.734	0.86
37_E	51_R	0.734	0.86
130_T	134_R	0.732	0.86
28_V	59_G	0.732	0.86
36_Y	219_L	0.729	0.85
133_T	219_L	0.729	0.85
64_V	241_L	0.724	0.85
83_F	101_A	0.719	0.85
112_L	120_F	0.718	0.85
9_P	38_F	0.717	0.84
153_D	228_L	0.717	0.84
57_D	63_V	0.714	0.84
76_G	152_F	0.713	0.84
99_G	152_F	0.712	0.84
83_F	110_V	0.710	0.84
89_V	213_Y	0.709	0.84
80_S	102_E	0.709	0.84
79_K	104_D	0.707	0.84
58_S	66_S	0.706	0.84
214_E	218_E	0.705	0.83
34_M	52_Q	0.703	0.83
84_N	90_N	0.703	0.83
20_K	23_G	0.701	0.83
8_A	244_L	0.701	0.83
219_L	225_S	0.700	0.83
8_A	192_L	0.700	0.83
73_W	80_S	0.696	0.83
23_G	26_G	0.694	0.83
137_I	140_A	0.693	0.82
52_Q	213_Y	0.689	0.82
40_G	51_R	0.687	0.82
182_A	185_G	0.684	0.82
167_V	198_T	0.682	0.81
126_T	161_V	0.682	0.81
123_P	204_A	0.681	0.81
27_I	58_S	0.675	0.81
104_D	107_G	0.674	0.81
30_A	84_N	0.668	0.80
149_A	163_D	0.666	0.80
190_A	220_Y	0.664	0.80
78_G	128_F	0.661	0.79
106_D	191_G	0.661	0.79
216_S	229_V	0.661	0.79
168_I	195_W	0.661	0.79
10_H	202_F	0.657	0.79
136_L	186_A	0.655	0.79
71_T	98_D	0.650	0.78
164_T	167_V	0.649	0.78
112_L	158_G	0.648	0.78
6_E	141_R	0.647	0.78
69_R	219_L	0.646	0.78
68_L	160_K	0.646	0.78
12_A	241_L	0.643	0.77
11_R	33_R	0.642	0.77
155_S	241_L	0.639	0.77
113_T	177_A	0.637	0.77
185_G	188_A	0.637	0.77
215_I	235_F	0.637	0.77
172_I	175_G	0.636	0.77
112_L	200_S	0.636	0.77
116_E	177_A	0.635	0.77
137_I	195_W	0.629	0.76
82_R	100_E	0.628	0.76
173_A	177_A	0.622	0.75
103_R	126_T	0.622	0.75
112_L	157_D	0.621	0.75
162_Y	230_L	0.613	0.74
72_T	222_N	0.612	0.74
224_V	245_E	0.611	0.74
132_H	199_I	0.611	0.74
153_D	201_Y	0.609	0.74
57_D	97_V	0.607	0.73
83_F	112_L	0.607	0.73
49_N	141_R	0.605	0.73
16_L	37_E	0.605	0.73
27_I	30_A	0.604	0.73
87_N	225_S	0.604	0.73
125_G	183_A	0.603	0.73
230_L	235_F	0.603	0.73
186_A	224_V	0.600	0.72
9_P	14_Y	0.599	0.72
156_D	160_K	0.594	0.72
142_A	177_A	0.592	0.71
175_G	191_G	0.590	0.71
227_D	238_R	0.587	0.71
68_L	230_L	0.587	0.71
100_E	111_K	0.580	0.70
139_A	168_I	0.580	0.70
6_E	11_R	0.578	0.70
237_I	244_L	0.575	0.69
90_N	95_E	0.574	0.69
34_M	194_R	0.574	0.69
189_L	244_L	0.572	0.69
66_S	165_L	0.572	0.69
152_F	158_G	0.571	0.69
197_V	235_F	0.571	0.69
44_D	221_E	0.571	0.69
134_R	137_I	0.570	0.69
129_P	233_G	0.570	0.69
3_A	20_K	0.568	0.68
120_F	152_F	0.568	0.68
142_A	175_G	0.568	0.68
37_E	142_A	0.567	0.68
132_H	155_S	0.567	0.68
132_H	136_L	0.563	0.68
54_T	99_G	0.562	0.68
201_Y	217_F	0.558	0.67
113_T	180_D	0.558	0.67
66_S	133_T	0.557	0.67
184_A	187_P	0.556	0.67
63_V	71_T	0.556	0.67
139_A	142_A	0.552	0.66
132_H	164_T	0.551	0.66
137_I	230_L	0.550	0.66
15_D	18_L	0.550	0.66
93_L	107_G	0.550	0.66
156_D	220_Y	0.550	0.66
154_G	222_N	0.549	0.66
213_Y	230_L	0.549	0.66
177_A	190_A	0.548	0.66
185_G	206_S	0.547	0.65
183_A	186_A	0.546	0.65
112_L	220_Y	0.546	0.65
203_D	234_D	0.545	0.65
80_S	240_K	0.541	0.65
70_S	112_L	0.540	0.65
133_T	200_S	0.540	0.65
16_L	239_G	0.537	0.64
173_A	193_P	0.537	0.64
127_L	176_A	0.535	0.64
175_G	178_A	0.533	0.64
6_E	27_I	0.533	0.64
188_A	244_L	0.533	0.64
92_E	238_R	0.532	0.63
177_A	180_D	0.530	0.63
42_A	46_Y	0.530	0.63
96_E	136_L	0.527	0.63
16_L	78_G	0.526	0.62
198_T	237_I	0.525	0.62
215_I	218_E	0.524	0.62
110_V	165_L	0.524	0.62
133_T	214_E	0.523	0.62
151_V	245_E	0.523	0.62
140_A	213_Y	0.522	0.62
53_V	67_D	0.522	0.62
52_Q	66_S	0.521	0.62
192_L	246_L	0.521	0.62
125_G	173_A	0.520	0.62
88_Y	121_D	0.519	0.61
243_S	247_L	0.519	0.61
9_P	132_H	0.519	0.61
70_S	160_K	0.518	0.61
47_T	73_W	0.518	0.61
209_Q	214_E	0.516	0.61
40_G	112_L	0.515	0.61
40_G	50_F	0.514	0.61
77_D	104_D	0.511	0.60
11_R	35_V	0.510	0.60
33_R	242_T	0.509	0.60
101_A	110_V	0.506	0.60
44_D	142_A	0.506	0.60
133_T	150_P	0.504	0.59
89_V	94_T	0.503	0.59
171_P	174_P	0.503	0.59
44_D	47_T	0.502	0.59
108_G	188_A	0.501	0.59
66_S	230_L	0.501	0.59
77_D	141_R	0.501	0.59
128_F	217_F	0.501	0.59
10_H	224_V	0.500	0.59
165_L	198_T	0.500	0.59

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
2k7iA	2	0.2379	7.1	0.964	Contact Map
2r39A	1	0.4234	5.7	0.966	Contact Map
3bidA	2	0.246	5.7	0.966	Contact Map
4a8jC	1	0.254	4.7	0.967	Contact Map
1u00A	1	0.4516	4.5	0.968	Contact Map
1v95A	1	0.2419	4.4	0.968	Contact Map
2o2aA	4	0.254	3.8	0.969	Contact Map
4oevA	1	0.7823	3.3	0.97	Contact Map
2mhgA	2	0.1573	3	0.97	Contact Map
2op6A	1	0.4677	2.9	0.97	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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