DUF2797 - PFAM28P - GREMLIN Contacts

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DUF2797 - Protein of unknown function (DUF2797)

PFAM:	PF10977	Sequences: GKEISLEFTGEINCLNCGRKTKKSFRQGFCYPCFFSLPQCDDCIMRPELCHAHLGTCDRDPEWEEKHCLQPHIVYLANSSGVKVGITRKTQVPTRWIDQGAVQALPIAEVPNRYLAGLIEVALKEHVSDKTNWRKMLKNEVEDVDLVAERDELLELLPEQQRFGEEAIEYLLDEEVTEINYPVLEYPEKVKSLNLDKTPEIEGTLLGIKGQYLIFDDGTVINIRKFEGYEV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	231 (225)
Sequences:	3767 (2337)
Seq/√Len:	155.8
META:	0.795

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
149_E	152_E	4.846	1.00
46_R	49_L	3.129	1.00
5_S	202_E	3.059	1.00
127_V	153_L	3.033	1.00
91_Q	94_T	2.890	1.00
31_Y	35_F	2.794	1.00
71_P	109_E	2.685	1.00
121_V	124_K	2.614	1.00
7_E	200_E	2.537	1.00
51_H	56_T	2.487	1.00
21_T	24_S	2.482	1.00
89_K	109_E	2.461	1.00
19_R	32_P	2.449	1.00
82_V	149_E	2.363	1.00
183_V	186_Y	2.354	1.00
38_P	60_D	2.312	1.00
11_E	230_E	2.273	1.00
108_A	119_I	2.264	1.00
17_C	33_C	2.245	1.00
145_D	148_A	2.203	1.00
102_V	141_V	2.167	1.00
114_Y	118_L	2.151	1.00
3_E	202_E	2.129	1.00
126_H	156_L	2.110	1.00
29_F	40_C	2.090	1.00
62_E	66_K	2.060	1.00
122_A	125_E	2.035	1.00
11_E	20_K	2.025	1.00
195_L	226_F	1.984	1.00
134_R	138_K	1.977	1.00
86_I	116_A	1.969	1.00
112_N	115_L	1.962	1.00
103_Q	178_E	1.892	1.00
6_L	195_L	1.883	1.00
194_N	226_F	1.877	1.00
9_T	230_E	1.875	1.00
132_N	135_K	1.841	1.00
78_N	103_Q	1.829	1.00
62_E	65_E	1.826	1.00
15_L	228_G	1.803	1.00
196_D	229_Y	1.795	1.00
111_P	115_L	1.768	1.00
12_I	24_S	1.743	1.00
73_I	92_V	1.730	1.00
3_E	204_T	1.714	1.00
23_K	31_Y	1.707	1.00
73_I	109_E	1.694	1.00
57_C	64_E	1.620	1.00
30_C	33_C	1.613	1.00
152_E	156_L	1.580	1.00
43_C	50_C	1.573	1.00
73_I	89_K	1.565	1.00
185_E	188_E	1.559	1.00
17_C	30_C	1.536	1.00
81_G	128_S	1.526	1.00
204_T	216_D	1.506	1.00
203_G	216_D	1.494	1.00
42_D	49_L	1.478	1.00
39_Q	60_D	1.474	1.00
221_I	226_F	1.443	1.00
50_C	68_C	1.439	1.00
57_C	68_C	1.431	1.00
16_N	39_Q	1.411	1.00
185_E	206_L	1.378	1.00
73_I	106_P	1.374	1.00
5_S	200_E	1.371	1.00
16_N	37_L	1.369	1.00
193_L	201_I	1.360	1.00
29_F	39_Q	1.349	1.00
18_G	21_T	1.330	1.00
42_D	45_M	1.330	1.00
13_N	230_E	1.329	1.00
135_K	140_E	1.327	1.00
4_I	215_F	1.314	1.00
26_R	34_F	1.311	1.00
64_E	68_C	1.292	1.00
70_Q	89_K	1.288	1.00
134_R	191_K	1.275	1.00
43_C	68_C	1.271	1.00
51_H	54_L	1.268	1.00
135_K	138_K	1.268	1.00
31_Y	34_F	1.262	1.00
65_E	69_L	1.262	1.00
194_N	225_K	1.253	1.00
48_E	124_K	1.245	1.00
71_P	89_K	1.245	1.00
52_A	69_L	1.231	1.00
32_P	36_S	1.214	1.00
37_L	41_D	1.207	1.00
13_N	20_K	1.192	1.00
15_L	227_E	1.182	1.00
69_L	112_N	1.173	1.00
154_L	171_L	1.161	1.00
126_H	157_L	1.151	1.00
110_V	116_A	1.131	1.00
226_F	229_Y	1.129	1.00
144_V	149_E	1.101	0.99
74_V	110_V	1.084	0.99
74_V	116_A	1.071	0.99
16_N	29_F	1.067	0.99
57_C	61_P	1.058	0.99
90_T	93_P	1.054	0.99
52_A	65_E	1.051	0.99
206_L	218_G	1.041	0.99
151_D	155_E	1.036	0.99
107_I	150_R	1.036	0.99
150_R	154_L	1.030	0.99
206_L	216_D	1.027	0.99
151_D	154_L	1.020	0.99
97_I	179_I	1.016	0.99
67_H	70_Q	1.016	0.99
52_A	61_P	1.011	0.99
12_I	21_T	1.002	0.99
149_E	156_L	0.997	0.99
37_L	40_C	0.994	0.99
61_P	64_E	0.993	0.99
26_R	227_E	0.988	0.99
105_L	147_V	0.985	0.99
183_V	207_G	0.977	0.99
41_D	44_I	0.968	0.99
105_L	146_L	0.955	0.99
110_V	119_I	0.949	0.98
127_V	149_E	0.930	0.98
42_D	46_R	0.926	0.98
108_A	170_Y	0.923	0.98
166_E	170_Y	0.920	0.98
147_V	150_R	0.918	0.98
79_S	141_V	0.916	0.98
29_F	37_L	0.914	0.98
70_Q	90_T	0.909	0.98
108_A	154_L	0.907	0.98
61_P	65_E	0.906	0.98
63_W	67_H	0.898	0.98
193_L	203_G	0.892	0.98
41_D	57_C	0.886	0.98
147_V	176_V	0.876	0.97
105_L	150_R	0.873	0.97
53_H	114_Y	0.868	0.97
82_V	144_V	0.867	0.97
41_D	64_E	0.862	0.97
124_K	130_K	0.862	0.97
166_E	169_E	0.862	0.97
66_K	70_Q	0.858	0.97
113_R	117_G	0.836	0.97
147_V	175_E	0.836	0.97
103_Q	143_D	0.829	0.96
193_L	198_T	0.828	0.96
77_A	97_I	0.823	0.96
55_G	65_E	0.821	0.96
71_P	111_P	0.814	0.96
50_C	57_C	0.812	0.96
146_L	150_R	0.810	0.96
205_L	213_L	0.810	0.96
25_F	34_F	0.807	0.96
52_A	64_E	0.805	0.96
78_N	81_G	0.794	0.95
102_V	209_K	0.791	0.95
195_L	221_I	0.789	0.95
203_G	215_F	0.788	0.95
86_I	110_V	0.783	0.95
12_I	18_G	0.783	0.95
168_I	171_L	0.781	0.95
118_L	167_A	0.774	0.95
184_L	206_L	0.767	0.94
201_I	221_I	0.766	0.94
15_L	27_Q	0.758	0.94
155_E	158_P	0.757	0.94
93_P	97_I	0.756	0.94
216_D	219_T	0.755	0.94
223_I	231_V	0.752	0.94
106_P	174_E	0.748	0.94
115_L	118_L	0.742	0.93
140_E	188_E	0.737	0.93
140_E	186_Y	0.734	0.93
40_C	43_C	0.733	0.93
61_P	69_L	0.732	0.93
92_V	104_A	0.730	0.93
42_D	51_H	0.727	0.93
77_A	102_V	0.726	0.93
14_C	17_C	0.722	0.92
41_D	68_C	0.715	0.92
19_R	25_F	0.714	0.92
41_D	51_H	0.710	0.92
168_I	172_L	0.709	0.92
41_D	63_W	0.709	0.92
107_I	123_L	0.707	0.92
38_P	61_P	0.707	0.92
74_V	84_V	0.701	0.91
26_R	40_C	0.701	0.91
148_A	152_E	0.700	0.91
221_I	225_K	0.698	0.91
78_N	144_V	0.697	0.91
154_L	168_I	0.695	0.91
88_R	91_Q	0.695	0.91
122_A	157_L	0.694	0.91
41_D	52_A	0.689	0.91
192_S	221_I	0.684	0.90
193_L	226_F	0.683	0.90
196_D	226_F	0.680	0.90
3_E	7_E	0.679	0.90
38_P	41_D	0.678	0.90
103_Q	106_P	0.677	0.90
76_L	146_L	0.676	0.90
21_T	25_F	0.674	0.90
183_V	187_P	0.670	0.89
61_P	68_C	0.669	0.89
57_C	69_L	0.666	0.89
131_T	136_M	0.662	0.89
165_E	169_E	0.659	0.89
93_P	104_A	0.655	0.88
23_K	35_F	0.654	0.88
122_A	126_H	0.653	0.88
223_I	226_F	0.649	0.88
206_L	215_F	0.641	0.87
78_N	127_V	0.641	0.87
193_L	217_D	0.635	0.87
159_E	168_I	0.634	0.87
22_K	31_Y	0.633	0.87
52_A	56_T	0.633	0.87
198_T	219_T	0.628	0.86
203_G	217_D	0.626	0.86
143_D	178_E	0.623	0.86
14_C	30_C	0.623	0.86
111_P	166_E	0.621	0.85
167_A	171_L	0.620	0.85
97_I	136_M	0.617	0.85
48_E	121_V	0.617	0.85
52_A	57_C	0.616	0.85
226_F	231_V	0.616	0.85
40_C	52_A	0.616	0.85
206_L	214_I	0.614	0.85
139_N	186_Y	0.613	0.85
92_V	97_I	0.612	0.85
107_I	154_L	0.610	0.84
31_Y	36_S	0.608	0.84
63_W	68_C	0.606	0.84
193_L	221_I	0.606	0.84
81_G	102_V	0.605	0.84
43_C	56_T	0.605	0.84
123_L	153_L	0.603	0.84
19_R	22_K	0.602	0.84
102_V	142_E	0.600	0.84
116_A	120_E	0.595	0.83
78_N	141_V	0.595	0.83
167_A	170_Y	0.593	0.83
189_K	192_S	0.591	0.83
83_K	95_R	0.590	0.82
183_V	214_I	0.587	0.82
78_N	82_V	0.587	0.82
47_P	113_R	0.587	0.82
15_L	26_R	0.586	0.82
1_G	206_L	0.586	0.82
169_E	172_L	0.585	0.82
198_T	201_I	0.585	0.82
91_Q	109_E	0.585	0.82
74_V	119_I	0.582	0.82
184_L	187_P	0.581	0.82
185_E	218_G	0.580	0.81
24_S	27_Q	0.579	0.81
201_I	217_D	0.578	0.81
196_D	199_P	0.574	0.81
29_F	33_C	0.574	0.81
116_A	121_V	0.568	0.80
201_I	215_F	0.568	0.80
207_G	220_V	0.568	0.80
25_F	32_P	0.567	0.80
97_I	208_I	0.567	0.80
13_N	18_G	0.566	0.80
107_I	153_L	0.565	0.80
78_N	142_E	0.565	0.80
168_I	174_E	0.564	0.80
23_K	36_S	0.560	0.79
43_C	57_C	0.559	0.79
56_T	61_P	0.557	0.79
79_S	102_V	0.556	0.79
174_E	178_E	0.555	0.79
50_C	56_T	0.554	0.78
154_L	170_Y	0.552	0.78
134_R	190_V	0.552	0.78
122_A	158_P	0.551	0.78
117_G	120_E	0.550	0.78
83_K	99_Q	0.548	0.78
214_I	218_G	0.546	0.77
75_Y	83_K	0.545	0.77
191_K	217_D	0.544	0.77
135_K	142_E	0.543	0.77
75_Y	99_Q	0.543	0.77
85_G	99_Q	0.542	0.77
92_V	177_T	0.540	0.77
76_L	82_V	0.540	0.77
95_R	99_Q	0.539	0.77
15_L	29_F	0.539	0.77
75_Y	85_G	0.539	0.77
102_V	139_N	0.538	0.76
157_L	167_A	0.537	0.76
75_Y	95_R	0.537	0.76
135_K	191_K	0.536	0.76
51_H	64_E	0.536	0.76
85_G	95_R	0.535	0.76
78_N	102_V	0.534	0.76
184_L	188_E	0.532	0.76
8_F	12_I	0.532	0.76
68_C	112_N	0.529	0.75
16_N	26_R	0.528	0.75
45_M	49_L	0.526	0.75
188_E	191_K	0.526	0.75
22_K	25_F	0.525	0.75
111_P	170_Y	0.525	0.75
16_N	34_F	0.523	0.74
196_D	225_K	0.523	0.74
51_H	57_C	0.522	0.74
32_P	35_F	0.521	0.74
159_E	169_E	0.521	0.74
53_H	112_N	0.520	0.74
166_E	174_E	0.519	0.74
89_K	92_V	0.519	0.74
151_D	168_I	0.518	0.74
186_Y	189_K	0.517	0.74
138_K	190_V	0.517	0.74
106_P	177_T	0.516	0.73
91_Q	210_G	0.516	0.73
177_T	180_N	0.515	0.73
111_P	167_A	0.515	0.73
128_S	132_N	0.514	0.73
193_L	219_T	0.514	0.73
139_N	183_V	0.512	0.73
17_C	21_T	0.510	0.73
26_R	35_F	0.507	0.72
102_V	128_S	0.507	0.72
9_T	13_N	0.507	0.72
105_L	172_L	0.506	0.72
23_K	32_P	0.505	0.72
77_A	141_V	0.504	0.72
117_G	136_M	0.503	0.71
21_T	33_C	0.503	0.71
23_K	196_D	0.502	0.71
22_K	36_S	0.501	0.71
227_E	230_E	0.500	0.71

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
2jneA	1	0.2727	32.2	0.944	Contact Map
1ywlA	1	0.3463	19	0.95	Contact Map
4ui9S	1	0.29	15.3	0.952	Contact Map
2jrpA	1	0.316	10.8	0.955	Contact Map
1zg2A	1	0.3463	10.7	0.955	Contact Map
1v5xA	2	0.5931	8	0.958	Contact Map
4zr7A	1	0.5195	4.9	0.962	Contact Map
1nsjA	2	0.6017	4.9	0.962	Contact Map
2gmgA	1	0.1948	4.8	0.962	Contact Map
1v5nA	1	0.2294	4.6	0.962	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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