DUF4249 - PFAM28P - GREMLIN Contacts

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DUF4249 - Domain of unknown function (DUF4249)

PFAM:	PF14054	Sequences: LLLLLLLLLSSCEKEIDPDLPEATEPKLVVEGLITNGPGPQTVKLSRSVPYFDNTSPPPSLPVSGATVTISDNDGNTYTLTETGNGYYTTFKGEPGKTYTLEIETPDGGEYVSATTTIPPPPPSIDSIYYEFEEGDDDDGVEIYVNFTDPPGEGNYYRWESIYVCWDTYFSNVILLGSTPNISLDSDNGFLDEFLNGDRISNGYPLGFIPFDDERFNGKTYDEDLKPGDSILVKLYSISKEYYDYWKSLKLQQTENSGLFDPSGGNPFAQPANVYGNIEGGLGYFSASSVSSKR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	294 (267)
Sequences:	14727 (13581)
Seq/√Len:	831.2
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
72_D	97_K	3.931	1.00
240_K	244_D	3.652	1.00
73_N	97_K	3.435	1.00
69_T	102_E	3.122	1.00
94_E	97_K	3.079	1.00
71_S	102_E	2.916	1.00
30_V	103_I	2.775	1.00
100_T	115_T	2.727	1.00
72_D	76_N	2.674	1.00
67_T	104_E	2.650	1.00
32_G	43_V	2.569	1.00
71_S	100_T	2.524	1.00
69_T	77_T	2.490	1.00
26_P	47_R	2.468	1.00
74_D	97_K	2.457	1.00
98_T	115_T	2.455	1.00
28_L	63_V	2.351	1.00
104_E	111_Y	2.342	1.00
234_K	292_S	2.336	1.00
102_E	111_Y	2.274	1.00
65_G	82_E	2.196	1.00
28_L	105_T	2.172	1.00
248_S	275_Y	2.163	1.00
232_L	292_S	2.141	1.00
98_T	117_T	2.136	1.00
118_I	287_A	2.066	1.00
64_S	82_E	2.007	1.00
159_W	235_L	1.992	1.00
45_L	66_A	1.937	1.00
116_T	239_S	1.921	1.00
116_T	241_E	1.917	1.00
82_E	85_N	1.916	1.00
129_Y	146_N	1.874	1.00
236_Y	290_V	1.862	1.00
116_T	287_A	1.860	1.00
158_R	236_Y	1.849	1.00
238_I	242_Y	1.829	1.00
242_Y	286_S	1.786	1.00
106_P	109_G	1.778	1.00
278_I	281_G	1.768	1.00
156_Y	240_K	1.747	1.00
242_Y	246_W	1.738	1.00
234_K	290_V	1.724	1.00
93_G	118_I	1.703	1.00
42_T	87_Y	1.678	1.00
42_T	89_T	1.660	1.00
126_D	148_T	1.648	1.00
27_K	282_L	1.633	1.00
72_D	94_E	1.570	1.00
113_S	279_E	1.561	1.00
73_N	98_T	1.553	1.00
47_R	63_V	1.530	1.00
100_T	112_V	1.522	1.00
100_T	113_S	1.507	1.00
63_V	105_T	1.499	1.00
36_N	289_S	1.498	1.00
44_K	87_Y	1.498	1.00
69_T	79_T	1.497	1.00
69_T	104_E	1.485	1.00
102_E	110_E	1.475	1.00
30_V	45_L	1.474	1.00
102_E	113_S	1.439	1.00
158_R	246_W	1.439	1.00
72_D	99_Y	1.434	1.00
47_R	105_T	1.431	1.00
71_S	77_T	1.431	1.00
236_Y	288_S	1.430	1.00
239_S	242_Y	1.428	1.00
63_V	66_A	1.414	1.00
158_R	238_I	1.408	1.00
31_E	44_K	1.391	1.00
215_R	218_G	1.385	1.00
83_T	89_T	1.385	1.00
243_Y	247_K	1.373	1.00
127_S	146_N	1.364	1.00
194_F	197_G	1.363	1.00
45_L	68_V	1.353	1.00
197_G	200_I	1.340	1.00
36_N	118_I	1.326	1.00
45_L	103_I	1.319	1.00
34_I	41_Q	1.318	1.00
244_D	247_K	1.315	1.00
104_E	110_E	1.315	1.00
247_K	252_Q	1.307	1.00
30_V	278_I	1.302	1.00
123_P	291_S	1.299	1.00
75_G	78_Y	1.296	1.00
105_T	108_G	1.276	1.00
155_N	237_S	1.275	1.00
41_Q	93_G	1.273	1.00
102_E	112_V	1.267	1.00
126_D	129_Y	1.261	1.00
87_Y	90_T	1.257	1.00
189_G	192_D	1.250	1.00
78_Y	91_F	1.239	1.00
30_V	101_L	1.235	1.00
193_E	198_D	1.213	1.00
32_G	285_F	1.210	1.00
33_L	286_S	1.210	1.00
18_P	21_P	1.200	1.00
30_V	112_V	1.191	1.00
50_P	53_D	1.179	1.00
111_Y	114_A	1.179	1.00
70_I	80_L	1.176	1.00
191_L	194_F	1.156	1.00
66_A	103_I	1.139	1.00
241_E	284_Y	1.130	1.00
105_T	109_G	1.124	1.00
28_L	45_L	1.120	1.00
82_E	86_G	1.113	1.00
149_D	155_N	1.111	1.00
121_P	289_S	1.109	1.00
95_P	120_P	1.106	1.00
28_L	112_V	1.105	1.00
194_F	198_D	1.102	1.00
65_G	105_T	1.097	1.00
6_L	10_S	1.094	1.00
36_N	121_P	1.092	1.00
27_K	48_S	1.091	1.00
121_P	291_S	1.088	1.00
112_V	116_T	1.077	1.00
242_Y	284_Y	1.074	1.00
67_T	79_T	1.073	1.00
154_G	240_K	1.065	1.00
204_Y	207_G	1.055	1.00
150_P	155_N	1.052	1.00
2_L	6_L	1.041	1.00
41_Q	90_T	1.039	1.00
188_N	191_L	1.030	1.00
132_F	135_G	1.030	1.00
133_E	142_E	1.024	1.00
195_L	200_I	1.021	1.00
241_E	275_Y	1.020	1.00
41_Q	80_L	1.019	1.00
63_V	106_P	1.017	1.00
34_I	116_T	1.016	1.00
68_V	103_I	1.005	1.00
241_E	244_D	1.001	1.00
65_G	106_P	0.990	1.00
173_V	176_L	0.989	1.00
22_E	50_P	0.986	1.00
239_S	286_S	0.985	1.00
244_D	248_S	0.981	1.00
244_D	275_Y	0.977	1.00
34_I	99_Y	0.974	1.00
109_G	279_E	0.961	1.00
193_E	196_N	0.958	1.00
35_T	288_S	0.955	1.00
169_Y	172_N	0.952	1.00
5_L	9_L	0.950	1.00
33_L	288_S	0.949	1.00
24_T	48_S	0.942	1.00
196_N	199_R	0.941	1.00
168_T	171_S	0.925	1.00
176_L	179_T	0.923	1.00
191_L	197_G	0.922	1.00
95_P	121_P	0.921	1.00
4_L	8_L	0.919	1.00
29_V	48_S	0.915	1.00
43_V	68_V	0.914	1.00
193_E	197_G	0.912	1.00
147_F	235_L	0.902	1.00
141_V	145_V	0.900	1.00
190_F	193_E	0.900	1.00
150_P	153_E	0.898	1.00
198_D	201_S	0.895	1.00
194_F	199_R	0.895	1.00
278_I	285_F	0.890	1.00
195_L	198_D	0.888	1.00
162_I	165_C	0.885	1.00
247_K	250_K	0.882	1.00
122_P	237_S	0.879	1.00
34_I	287_A	0.877	1.00
246_W	286_S	0.875	1.00
37_G	292_S	0.875	1.00
109_G	112_V	0.874	1.00
101_L	285_F	0.873	1.00
33_L	236_Y	0.868	1.00
36_N	95_P	0.864	1.00
15_E	18_P	0.860	1.00
188_N	192_D	0.856	1.00
56_S	59_P	0.856	1.00
204_Y	208_F	0.856	1.00
114_A	278_I	0.855	1.00
36_N	93_G	0.839	1.00
6_L	9_L	0.836	1.00
188_N	193_E	0.836	1.00
83_T	86_G	0.831	1.00
276_G	282_L	0.829	1.00
39_G	42_T	0.826	1.00
41_Q	70_I	0.825	1.00
156_Y	243_Y	0.818	1.00
250_K	255_E	0.817	1.00
29_V	282_L	0.814	1.00
32_G	287_A	0.811	1.00
31_E	284_Y	0.806	1.00
196_N	200_I	0.802	1.00
41_Q	78_Y	0.799	1.00
37_G	40_P	0.798	1.00
248_S	274_V	0.794	1.00
192_D	198_D	0.793	1.00
135_G	138_D	0.793	1.00
34_I	93_G	0.790	1.00
192_D	196_N	0.788	1.00
95_P	118_I	0.787	1.00
158_R	242_Y	0.785	1.00
59_P	62_P	0.784	1.00
105_T	110_E	0.784	1.00
70_I	285_F	0.784	1.00
192_D	197_G	0.781	1.00
238_I	246_W	0.779	1.00
199_R	202_N	0.779	1.00
114_A	285_F	0.770	1.00
151_P	155_N	0.769	1.00
48_S	282_L	0.769	1.00
245_Y	249_L	0.759	1.00
187_D	190_F	0.758	1.00
41_Q	91_F	0.755	1.00
37_G	92_K	0.753	1.00
32_G	41_Q	0.752	1.00
64_S	84_G	0.748	1.00
171_S	175_L	0.745	1.00
195_L	199_R	0.740	1.00
5_L	8_L	0.740	1.00
35_T	290_V	0.737	1.00
216_F	221_Y	0.734	1.00
214_E	218_G	0.732	1.00
121_P	237_S	0.726	1.00
215_R	219_K	0.723	1.00
140_G	208_F	0.720	1.00
66_A	105_T	0.720	1.00
52_F	56_S	0.718	1.00
40_P	89_T	0.718	1.00
131_E	142_E	0.718	1.00
256_N	261_D	0.717	1.00
96_G	120_P	0.716	1.00
254_T	257_S	0.716	1.00
107_D	110_E	0.713	1.00
28_L	111_Y	0.713	1.00
64_S	85_N	0.713	1.00
94_E	99_Y	0.709	1.00
47_R	109_G	0.708	1.00
7_L	10_S	0.704	1.00
206_L	209_I	0.701	1.00
162_I	166_W	0.695	1.00
43_V	47_R	0.695	1.00
122_P	150_P	0.694	1.00
238_I	243_Y	0.693	1.00
30_V	281_G	0.693	1.00
163_Y	166_W	0.692	1.00
225_L	229_D	0.691	1.00
191_L	200_I	0.691	1.00
74_D	94_E	0.690	1.00
249_L	274_V	0.690	1.00
77_T	102_E	0.689	1.00
139_D	145_V	0.687	1.00
95_P	289_S	0.686	1.00
189_G	193_E	0.682	1.00
52_F	55_T	0.680	1.00
112_V	281_G	0.679	1.00
131_E	202_N	0.676	1.00
127_S	130_Y	0.675	1.00
170_F	174_I	0.672	1.00
33_L	284_Y	0.671	1.00
142_E	205_P	0.668	1.00
24_T	50_P	0.668	1.00
18_P	22_E	0.664	1.00
10_S	13_E	0.662	1.00
271_P	274_V	0.661	1.00
246_W	284_Y	0.659	1.00
125_I	128_I	0.658	1.00
36_N	287_A	0.654	1.00
235_L	291_S	0.654	1.00
253_Q	257_S	0.648	1.00
29_V	46_S	0.645	1.00
141_V	147_F	0.644	1.00
191_L	195_L	0.642	1.00
205_P	208_F	0.642	1.00
35_T	234_K	0.640	1.00
15_E	19_D	0.639	1.00
33_L	242_Y	0.638	1.00
218_G	221_Y	0.634	1.00
93_G	99_Y	0.633	1.00
35_T	39_G	0.630	1.00
55_T	58_P	0.630	1.00
80_L	90_T	0.629	1.00
189_G	194_F	0.627	1.00
158_R	286_S	0.627	1.00
35_T	41_Q	0.625	1.00
173_V	177_G	0.624	1.00
14_K	17_D	0.622	1.00
131_E	134_E	0.619	1.00
118_I	289_S	0.618	1.00
148_T	151_P	0.617	1.00
145_V	235_L	0.616	1.00
79_T	82_E	0.616	1.00
226_K	229_D	0.616	1.00
149_D	157_Y	0.613	1.00
130_Y	133_E	0.609	1.00
168_T	172_N	0.609	1.00
27_K	280_G	0.609	1.00
201_S	205_P	0.608	1.00
189_G	198_D	0.607	1.00
202_N	205_P	0.607	1.00
20_L	24_T	0.606	1.00
238_I	286_S	0.604	1.00
26_P	48_S	0.602	1.00
225_L	228_G	0.596	1.00
198_D	202_N	0.596	1.00
125_I	235_L	0.593	1.00
169_Y	174_I	0.590	1.00
96_G	117_T	0.588	1.00
43_V	80_L	0.588	1.00
108_G	111_Y	0.587	1.00
78_Y	90_T	0.586	1.00
52_F	57_P	0.586	1.00
211_F	216_F	0.585	1.00
103_I	281_G	0.584	1.00
273_N	280_G	0.583	1.00
3_L	7_L	0.583	1.00
113_S	117_T	0.580	1.00
207_G	210_P	0.578	1.00
190_F	194_F	0.578	1.00
31_E	245_Y	0.577	1.00
160_E	163_Y	0.577	1.00
110_E	113_S	0.574	1.00
248_S	273_N	0.574	1.00
191_L	196_N	0.573	1.00
40_P	92_K	0.573	1.00
73_N	100_T	0.572	1.00
129_Y	202_N	0.571	1.00
37_G	290_V	0.570	1.00
126_D	130_Y	0.570	1.00
191_L	198_D	0.566	1.00
34_I	91_F	0.563	1.00
221_Y	229_D	0.563	1.00
20_L	23_A	0.563	1.00
120_P	153_E	0.562	1.00
142_E	145_V	0.561	1.00
170_F	173_V	0.561	1.00
246_W	249_L	0.559	1.00
71_S	75_G	0.556	1.00
193_E	199_R	0.555	1.00
152_G	217_N	0.554	1.00
167_D	171_S	0.552	1.00
114_A	241_E	0.551	1.00
205_P	210_P	0.549	1.00
133_E	136_D	0.548	1.00
75_G	80_L	0.546	1.00
84_G	87_Y	0.546	1.00
190_F	198_D	0.545	1.00
81_T	84_G	0.545	1.00
167_D	170_F	0.544	1.00
55_T	59_P	0.543	1.00
148_T	199_R	0.542	1.00
72_D	78_Y	0.541	1.00
210_P	213_D	0.539	1.00
141_V	144_Y	0.536	1.00
172_N	176_L	0.535	1.00
127_S	131_E	0.535	1.00
141_V	146_N	0.533	1.00
132_F	136_D	0.532	1.00
36_N	41_Q	0.531	1.00
276_G	280_G	0.531	1.00
187_D	191_L	0.530	1.00
112_V	115_T	0.529	1.00
212_D	218_G	0.528	1.00
36_N	92_K	0.528	1.00
38_P	92_K	0.527	1.00
38_P	41_Q	0.527	1.00
49_V	53_D	0.526	1.00
259_L	262_P	0.526	1.00
270_Q	273_N	0.522	1.00
193_E	200_I	0.522	1.00
151_P	154_G	0.522	1.00
258_G	261_D	0.521	1.00
134_E	139_D	0.521	1.00
241_E	277_N	0.519	1.00
140_G	143_I	0.517	1.00
204_Y	209_I	0.517	1.00
237_S	289_S	0.516	1.00
245_Y	274_V	0.516	1.00
192_D	199_R	0.514	1.00
171_S	174_I	0.513	1.00
93_G	285_F	0.513	1.00
35_T	236_Y	0.513	1.00
238_I	288_S	0.512	1.00
165_C	168_T	0.510	1.00
19_D	22_E	0.510	1.00
31_E	46_S	0.509	1.00
133_E	137_D	0.507	1.00
189_G	196_N	0.507	1.00
190_F	195_L	0.506	1.00
270_Q	274_V	0.504	1.00
257_S	261_D	0.504	1.00
175_L	179_T	0.503	1.00
211_F	219_K	0.503	1.00
123_P	150_P	0.502	1.00
111_Y	116_T	0.500	1.00
211_F	215_R	0.500	1.00

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
1ti6B	2	0.4286	26.5	0.936	Contact Map
3zbiC	1	0.0918	15.9	0.942	Contact Map
4jg9A	2	0.4218	3.7	0.957	Contact Map
3e8vA	1	0.2653	2.9	0.959	Contact Map
1h8lA	1	0.3946	2.9	0.959	Contact Map
4kytB	2	0.051	2.8	0.959	Contact Map
3imaB	1	0.2891	2.6	0.96	Contact Map
1n7lA	1	0.0612	2.4	0.961	Contact Map
4n6tA	1	0.2687	2	0.963	Contact Map
4go6A	1	0.1395	1.7	0.964	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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