DUF4349 - PFAM28P - GREMLIN Contacts

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DUF4349 - Domain of unknown function (DUF4349)

PFAM:	PF14257	Sequences: AGCGGSSSSSSAASAPASAAAAAAAAAAAAAAEAPAAAAAASASAAAAAAADRKIIRTASLSLEVKDVDAAAAAIRALAEALGGYVASSNSSSGGGGRRSATLTLRVPADRFDAALAELRGLGKVLSESISAEDVTEQYVDLEARLKNLRATEARLLELLEKAGKVEDILAVERELSRVRGEIESLEGQLRYLDDQVAYSTITVTLYEPAAAVPAPPPGFGSRIGDALRDGWRALVAFLAGLLIFLGALLPFLLLLALILWLVWW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	265 (251)
Sequences:	15947 (13338)
Seq/√Len:	841.9
META:	0.885

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
167_E	171_A	4.079	1.00
150_R	187_E	3.963	1.00
120_R	128_E	3.250	1.00
175_E	178_R	3.209	1.00
153_E	180_R	2.903	1.00
111_R	114_A	2.800	1.00
67_D	70_A	2.692	1.00
82_L	115_A	2.618	1.00
165_K	168_D	2.542	1.00
55_I	132_A	2.511	1.00
158_E	161_E	2.417	1.00
59_A	112_F	2.328	1.00
81_A	118_E	2.309	1.00
155_R	173_E	2.201	1.00
57_R	113_D	2.067	1.00
138_Q	189_Q	1.942	1.00
178_R	182_E	1.923	1.00
153_E	157_L	1.920	1.00
112_F	130_I	1.918	1.00
251_P	255_L	1.909	1.00
54_K	139_Y	1.909	1.00
82_L	118_E	1.883	1.00
78_L	118_E	1.881	1.00
146_L	183_I	1.864	1.00
64_E	126_L	1.861	1.00
77_A	81_A	1.837	1.00
153_E	176_L	1.835	1.00
149_L	182_E	1.826	1.00
143_E	147_K	1.801	1.00
137_E	189_Q	1.798	1.00
54_K	194_D	1.777	1.00
104_T	203_T	1.765	1.00
70_A	74_A	1.757	1.00
155_R	158_E	1.756	1.00
187_E	191_R	1.741	1.00
143_E	190_L	1.701	1.00
82_L	111_R	1.672	1.00
135_V	193_L	1.667	1.00
102_T	205_T	1.666	1.00
159_L	169_I	1.664	1.00
53_R	134_D	1.658	1.00
71_A	206_L	1.640	1.00
190_L	194_D	1.637	1.00
188_G	192_Y	1.619	1.00
115_A	202_I	1.611	1.00
75_I	204_V	1.601	1.00
78_L	82_L	1.573	1.00
62_S	207_Y	1.557	1.00
68_V	101_A	1.492	1.00
181_G	185_S	1.482	1.00
64_E	209_P	1.480	1.00
78_L	115_A	1.471	1.00
74_A	77_A	1.456	1.00
159_L	172_V	1.454	1.00
62_S	127_S	1.442	1.00
156_L	179_V	1.427	1.00
191_R	195_D	1.424	1.00
59_A	202_I	1.418	1.00
72_A	76_R	1.416	1.00
126_L	207_Y	1.396	1.00
241_G	245_F	1.391	1.00
54_K	197_V	1.375	1.00
145_R	184_E	1.369	1.00
249_L	253_L	1.361	1.00
152_T	177_S	1.356	1.00
59_A	116_L	1.355	1.00
90_N	129_S	1.351	1.00
68_V	208_E	1.339	1.00
75_I	206_L	1.336	1.00
235_L	239_L	1.331	1.00
62_S	205_T	1.325	1.00
152_T	179_V	1.324	1.00
79_A	105_L	1.317	1.00
245_F	248_A	1.296	1.00
75_I	119_L	1.274	1.00
182_E	185_S	1.271	1.00
154_A	158_E	1.259	1.00
148_N	157_L	1.258	1.00
225_G	228_L	1.243	1.00
73_A	77_A	1.235	1.00
76_R	80_E	1.234	1.00
146_L	186_L	1.232	1.00
248_A	251_P	1.227	1.00
192_Y	196_Q	1.212	1.00
143_E	194_D	1.206	1.00
142_L	186_L	1.206	1.00
171_A	174_R	1.194	1.00
153_E	183_I	1.192	1.00
56_I	196_Q	1.188	1.00
139_Y	194_D	1.185	1.00
64_E	124_K	1.176	1.00
104_T	201_T	1.172	1.00
78_L	81_A	1.171	1.00
166_V	169_I	1.167	1.00
133_E	138_Q	1.165	1.00
72_A	101_A	1.160	1.00
236_V	240_A	1.156	1.00
116_L	128_E	1.156	1.00
99_R	208_E	1.156	1.00
244_I	247_G	1.148	1.00
146_L	150_R	1.146	1.00
118_E	121_G	1.134	1.00
220_F	223_R	1.134	1.00
145_R	182_E	1.112	1.00
56_I	135_V	1.111	1.00
154_A	157_L	1.107	1.00
84_G	108_P	1.105	1.00
114_A	118_E	1.103	1.00
107_V	115_A	1.099	1.00
76_R	89_S	1.099	1.00
147_K	151_A	1.098	1.00
69_D	99_R	1.092	1.00
65_V	206_L	1.092	1.00
151_A	154_A	1.086	1.00
166_V	172_V	1.085	1.00
232_W	236_V	1.082	1.00
220_F	224_I	1.080	1.00
221_G	224_I	1.077	1.00
87_A	106_R	1.066	1.00
259_I	263_V	1.065	1.00
256_L	260_L	1.062	1.00
85_Y	199_Y	1.058	1.00
88_S	104_T	1.055	1.00
58_T	133_E	1.052	1.00
227_A	231_G	1.050	1.00
77_A	80_E	1.040	1.00
151_A	157_L	1.038	1.00
58_T	131_S	1.036	1.00
225_G	229_R	1.030	1.00
60_S	203_T	1.030	1.00
140_V	192_Y	1.029	1.00
149_L	152_T	1.023	1.00
238_F	241_G	1.018	1.00
105_L	204_V	1.008	1.00
139_Y	190_L	1.005	1.00
115_A	119_L	1.005	1.00
221_G	225_G	1.004	1.00
32_A	35_P	1.003	1.00
258_L	262_L	0.999	1.00
80_E	113_D	0.994	1.00
244_I	248_A	0.994	1.00
71_A	122_L	0.993	1.00
252_F	256_L	0.984	1.00
241_G	244_I	0.984	1.00
228_L	232_W	0.970	1.00
112_F	202_I	0.969	1.00
60_S	129_S	0.966	1.00
224_I	228_L	0.963	1.00
65_V	71_A	0.960	1.00
238_F	242_L	0.958	1.00
250_L	253_L	0.956	1.00
82_L	114_A	0.955	1.00
238_F	252_F	0.949	1.00
57_R	130_I	0.945	1.00
245_F	249_L	0.940	1.00
237_A	240_A	0.936	1.00
153_E	179_V	0.935	1.00
237_A	241_G	0.925	1.00
142_L	190_L	0.923	1.00
62_S	126_L	0.920	1.00
145_R	181_G	0.916	1.00
113_D	117_A	0.911	1.00
112_F	200_S	0.909	1.00
189_Q	193_L	0.901	1.00
60_S	205_T	0.901	1.00
73_A	76_R	0.899	1.00
24_A	27_A	0.894	1.00
174_R	178_R	0.890	1.00
177_S	181_G	0.887	1.00
100_S	205_T	0.884	1.00
258_L	261_W	0.883	1.00
147_K	150_R	0.881	1.00
17_A	20_A	0.875	1.00
234_A	238_F	0.874	1.00
63_L	123_G	0.871	1.00
148_N	181_G	0.869	1.00
223_R	240_A	0.868	1.00
69_D	73_A	0.868	1.00
227_A	248_A	0.864	1.00
142_L	189_Q	0.863	1.00
236_V	239_L	0.859	1.00
173_E	177_S	0.854	1.00
70_A	73_A	0.854	1.00
137_E	192_Y	0.853	1.00
21_A	24_A	0.847	1.00
102_T	203_T	0.846	1.00
75_I	79_A	0.844	1.00
59_A	130_I	0.843	1.00
148_N	180_R	0.843	1.00
29_A	32_A	0.842	1.00
156_L	176_L	0.840	1.00
255_L	259_I	0.835	1.00
160_L	172_V	0.834	1.00
53_R	136_T	0.832	1.00
63_L	71_A	0.832	1.00
220_F	240_A	0.829	1.00
72_A	103_L	0.828	1.00
150_R	153_E	0.826	1.00
180_R	184_E	0.826	1.00
146_L	190_L	0.815	1.00
54_K	190_L	0.811	1.00
105_L	115_A	0.809	1.00
113_D	130_I	0.809	1.00
63_L	125_V	0.807	1.00
109_A	197_V	0.806	1.00
78_L	122_L	0.806	1.00
61_L	116_L	0.805	1.00
256_L	259_I	0.794	1.00
56_I	133_E	0.791	1.00
184_E	187_E	0.790	1.00
33_E	36_A	0.789	1.00
149_L	186_L	0.789	1.00
158_E	162_K	0.787	1.00
230_D	234_A	0.785	1.00
57_R	112_F	0.784	1.00
224_I	227_A	0.783	1.00
106_R	201_T	0.781	1.00
79_A	84_G	0.779	1.00
18_S	21_A	0.775	1.00
13_A	16_P	0.773	1.00
179_V	183_I	0.772	1.00
255_L	258_L	0.771	1.00
100_S	207_Y	0.765	1.00
233_R	237_A	0.762	1.00
191_R	194_D	0.760	1.00
73_A	117_A	0.759	1.00
137_E	188_G	0.758	1.00
114_A	117_A	0.751	1.00
171_A	175_E	0.748	1.00
223_R	226_D	0.746	1.00
117_A	120_R	0.746	1.00
137_E	191_R	0.744	1.00
14_S	17_A	0.742	1.00
229_R	233_R	0.741	1.00
159_L	166_V	0.740	1.00
30_A	33_E	0.738	1.00
223_R	227_A	0.737	1.00
19_A	22_A	0.736	1.00
231_G	235_L	0.735	1.00
57_R	132_A	0.731	1.00
223_R	231_G	0.729	1.00
68_V	99_R	0.721	1.00
125_V	128_E	0.718	1.00
227_A	244_I	0.717	1.00
60_S	131_S	0.715	1.00
28_A	31_A	0.715	1.00
145_R	185_S	0.712	1.00
160_L	169_I	0.711	1.00
239_L	243_L	0.703	1.00
75_I	103_L	0.703	1.00
25_A	28_A	0.703	1.00
83_G	111_R	0.701	1.00
157_L	180_R	0.696	1.00
149_L	179_V	0.695	1.00
27_A	30_A	0.694	1.00
178_R	181_G	0.693	1.00
88_S	131_S	0.693	1.00
144_A	148_N	0.691	1.00
116_L	202_I	0.690	1.00
174_R	177_S	0.688	1.00
20_A	23_A	0.687	1.00
22_A	25_A	0.681	1.00
75_I	122_L	0.678	1.00
152_T	175_E	0.674	1.00
157_L	176_L	0.668	1.00
58_T	203_T	0.666	1.00
231_G	240_A	0.665	1.00
222_S	226_D	0.665	1.00
36_A	39_A	0.664	1.00
71_A	74_A	0.661	1.00
148_N	151_A	0.661	1.00
60_S	127_S	0.660	1.00
148_N	152_T	0.657	1.00
140_V	144_A	0.653	1.00
23_A	26_A	0.651	1.00
61_L	128_E	0.649	1.00
253_L	257_A	0.646	1.00
168_D	171_A	0.643	1.00
39_A	42_S	0.643	1.00
146_L	149_L	0.634	1.00
152_T	173_E	0.634	1.00
251_P	254_L	0.634	1.00
16_P	19_A	0.632	1.00
220_F	225_G	0.631	1.00
61_L	202_I	0.631	1.00
249_L	252_F	0.631	1.00
63_L	206_L	0.630	1.00
257_A	261_W	0.629	1.00
106_R	195_D	0.620	1.00
26_A	29_A	0.619	1.00
76_R	86_V	0.618	1.00
35_P	38_A	0.617	1.00
119_L	204_V	0.612	1.00
156_L	177_S	0.609	1.00
231_G	236_V	0.608	1.00
37_A	40_A	0.604	1.00
164_G	168_D	0.604	1.00
89_S	130_I	0.603	1.00
54_K	198_A	0.602	1.00
136_T	140_V	0.601	1.00
116_L	120_R	0.601	1.00
66_K	209_P	0.600	1.00
76_R	113_D	0.600	1.00
234_A	248_A	0.600	1.00
74_A	122_L	0.599	1.00
12_A	16_P	0.598	1.00
138_Q	193_L	0.597	1.00
79_A	204_V	0.595	1.00
18_S	22_A	0.593	1.00
135_V	197_V	0.591	1.00
227_A	247_G	0.588	1.00
156_L	172_V	0.587	1.00
53_R	85_Y	0.585	1.00
232_W	235_L	0.585	1.00
230_D	244_I	0.584	1.00
160_L	176_L	0.584	1.00
216_P	219_G	0.582	1.00
146_L	187_E	0.579	1.00
76_R	79_A	0.579	1.00
233_R	236_V	0.579	1.00
86_V	105_L	0.578	1.00
250_L	254_L	0.575	1.00
56_I	197_V	0.573	1.00
75_I	105_L	0.573	1.00
224_I	235_L	0.570	1.00
234_A	241_G	0.569	1.00
71_A	75_I	0.563	1.00
155_R	159_L	0.562	1.00
79_A	86_V	0.561	1.00
66_K	123_G	0.560	1.00
187_E	190_L	0.559	1.00
238_F	245_F	0.555	1.00
123_G	126_L	0.555	1.00
31_A	34_A	0.555	1.00
59_A	200_S	0.552	1.00
188_G	191_R	0.552	1.00
211_A	214_P	0.551	1.00
87_A	104_T	0.550	1.00
15_A	18_S	0.550	1.00
226_D	230_D	0.548	1.00
147_K	157_L	0.548	1.00
156_L	166_V	0.547	1.00
149_L	177_S	0.546	1.00
172_V	175_E	0.546	1.00
74_A	78_L	0.545	1.00
86_V	89_S	0.545	1.00
139_Y	143_E	0.543	1.00
224_I	243_L	0.543	1.00
58_T	196_Q	0.542	1.00
147_K	153_E	0.541	1.00
150_R	154_A	0.541	1.00
224_I	247_G	0.533	1.00
89_S	101_A	0.532	1.00
147_K	154_A	0.529	1.00
64_E	207_Y	0.529	1.00
162_K	166_V	0.527	1.00
94_G	99_R	0.522	1.00
152_T	180_R	0.522	1.00
231_G	248_A	0.519	1.00
149_L	181_G	0.518	1.00
166_V	170_L	0.518	1.00
152_T	169_I	0.516	1.00
186_L	190_L	0.513	1.00
58_T	201_T	0.511	1.00
155_R	161_E	0.510	1.00
61_L	119_L	0.510	1.00
154_A	161_E	0.510	1.00
67_D	71_A	0.509	1.00
240_A	243_L	0.509	1.00
72_A	89_S	0.509	1.00
227_A	230_D	0.508	1.00
189_Q	192_Y	0.508	1.00
87_A	201_T	0.506	1.00
222_S	225_G	0.504	1.00
165_K	169_I	0.503	1.00
193_L	196_Q	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
2ko1A	2	0.3283	56.4	0.923	Contact Map
1zpvA	3	0.3283	54.1	0.924	Contact Map
4y66B	1	0.683	35.8	0.932	Contact Map
2f1mA	2	0.6755	35	0.932	Contact Map
2lvwA	2	0.366	32.9	0.934	Contact Map
3j9tb	1	0.5736	31.8	0.934	Contact Map
4tkoB	1	0.7094	29.7	0.935	Contact Map
3lh2S	2	0.2604	27.9	0.936	Contact Map
1vf7A	5	0.6453	25.6	0.937	Contact Map
3fppA	3	0.6981	24	0.938	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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