DUF4422 - PFAM28P - GREMLIN Contacts

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DUF4422 - Domain of unknown function (DUF4422)

PFAM:	PF14393	Sequences: KIYVATHKPYEMPKDDIYIPIQVGAALKKDEDLGYLGDNTGDNISEKNPYYCELTALYWAWKNLKDADYIGLCHYRRYFSFKKKKKKKINKIDVNNKKKKILTKEEIEKLLKKYDIILPKKRNYYIETIYSHYDHAHGIEDLDKAIEIIKEKYPEYLEAFDKVMNGNSFYPFNMFIMKKELFDEYCEWLFPILFELEKRIDFSNYDGYQKRVYGFLAERLLNVWFEKNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	229 (224)
Sequences:	3377 (2936)
Seq/√Len:	196.2
META:	0.804

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
47_K	197_E	4.352	1.00
21_I	56_A	3.180	1.00
146_I	161_D	3.156	1.00
25_A	37_G	3.113	1.00
51_Y	194_F	3.068	1.00
151_E	199_R	2.873	1.00
195_E	198_K	2.599	1.00
208_Y	215_F	2.588	1.00
152_K	195_E	2.561	1.00
26_A	39_N	2.541	1.00
150_K	157_L	2.330	1.00
3_Y	64_L	2.304	1.00
188_W	220_L	2.292	1.00
159_A	227_K	2.228	1.00
144_K	147_E	2.227	1.00
23_V	56_A	2.180	1.00
57_L	186_C	2.140	1.00
153_Y	191_P	2.136	1.00
152_K	191_P	2.106	1.00
144_K	199_R	2.103	1.00
79_F	174_M	2.046	1.00
3_Y	60_A	1.993	1.00
142_L	164_M	1.980	1.00
54_L	189_L	1.904	1.00
148_I	196_L	1.897	1.00
22_Q	28_K	1.866	1.00
184_E	224_W	1.863	1.00
146_I	160_F	1.857	1.00
130_Y	143_D	1.854	1.00
57_L	182_F	1.819	1.00
145_A	216_L	1.810	1.00
73_C	78_Y	1.799	1.00
115_D	178_K	1.766	1.00
57_L	72_L	1.760	1.00
104_K	108_E	1.743	1.00
187_E	191_P	1.716	1.00
146_I	157_L	1.703	1.00
157_L	161_D	1.701	1.00
134_D	139_I	1.691	1.00
195_E	199_R	1.650	1.00
36_L	40_T	1.646	1.00
159_A	226_E	1.645	1.00
148_I	152_K	1.626	1.00
118_L	225_F	1.565	1.00
188_W	192_I	1.550	1.00
37_G	40_T	1.531	1.00
144_K	196_L	1.519	1.00
185_Y	189_L	1.513	1.00
177_M	181_L	1.501	1.00
178_K	181_L	1.498	1.00
148_I	195_E	1.483	1.00
60_A	70_I	1.482	1.00
64_L	67_A	1.476	1.00
139_I	143_D	1.469	1.00
200_I	212_V	1.409	1.00
60_A	72_L	1.408	1.00
197_E	213_Y	1.393	1.00
40_T	59_W	1.363	1.00
129_I	169_F	1.352	1.00
22_Q	25_A	1.339	1.00
163_V	222_N	1.336	1.00
6_T	35_Y	1.324	1.00
103_T	106_E	1.314	1.00
196_L	216_L	1.304	1.00
130_Y	134_D	1.303	1.00
170_Y	222_N	1.302	1.00
148_I	199_R	1.292	1.00
183_D	187_E	1.287	1.00
60_A	64_L	1.279	1.00
179_K	183_D	1.270	1.00
50_Y	202_F	1.269	1.00
5_A	56_A	1.262	1.00
49_P	210_K	1.213	1.00
141_D	205_Y	1.205	1.00
22_Q	37_G	1.200	1.00
145_A	196_L	1.198	1.00
41_G	59_W	1.194	1.00
70_I	179_K	1.191	1.00
129_I	171_P	1.189	1.00
160_F	223_V	1.189	1.00
74_H	172_F	1.179	1.00
26_A	46_E	1.164	1.00
73_C	79_F	1.159	1.00
138_G	141_D	1.148	1.00
159_A	163_V	1.140	1.00
156_Y	227_K	1.140	1.00
207_G	210_K	1.134	1.00
160_F	164_M	1.111	1.00
66_D	179_K	1.110	1.00
206_D	209_Q	1.099	1.00
61_W	186_C	1.095	1.00
130_Y	165_N	1.094	1.00
5_A	72_L	1.094	1.00
147_E	199_R	1.091	1.00
149_I	160_F	1.075	1.00
194_F	198_K	1.062	1.00
162_K	226_E	1.055	1.00
42_D	62_K	1.050	1.00
81_F	106_E	1.048	1.00
132_H	219_R	1.034	1.00
21_I	36_L	1.034	1.00
137_H	219_R	1.033	1.00
163_V	226_E	1.029	1.00
59_W	63_N	1.028	1.00
177_M	182_F	1.026	1.00
109_K	112_K	1.025	1.00
155_E	227_K	1.021	1.00
196_L	200_I	1.020	1.00
140_E	143_D	1.008	1.00
137_H	209_Q	1.004	1.00
181_L	184_E	1.000	1.00
133_Y	137_H	0.999	1.00
51_Y	197_E	0.994	1.00
38_D	45_S	0.994	1.00
124_Y	127_E	0.993	1.00
194_F	197_E	0.991	1.00
47_K	51_Y	0.991	1.00
156_Y	159_A	0.991	1.00
19_I	36_L	0.989	1.00
64_L	179_K	0.981	0.99
6_T	12_M	0.980	0.99
3_Y	21_I	0.976	0.99
133_Y	212_V	0.975	0.99
158_E	162_K	0.975	0.99
32_D	37_G	0.965	0.99
54_L	217_A	0.964	0.99
61_W	187_E	0.963	0.99
28_K	31_E	0.961	0.99
221_L	225_F	0.957	0.99
128_T	131_S	0.948	0.99
145_A	148_I	0.945	0.99
132_H	171_P	0.945	0.99
137_H	208_Y	0.945	0.99
137_H	215_F	0.943	0.99
22_Q	26_A	0.937	0.99
25_A	28_K	0.936	0.99
50_Y	210_K	0.936	0.99
146_I	150_K	0.935	0.99
184_E	187_E	0.935	0.99
215_F	219_R	0.931	0.99
70_I	182_F	0.928	0.99
106_E	109_K	0.928	0.99
166_G	226_E	0.920	0.99
74_H	77_R	0.913	0.99
22_Q	32_D	0.908	0.99
116_I	225_F	0.903	0.99
67_A	179_K	0.900	0.99
154_P	157_L	0.896	0.99
138_G	209_Q	0.893	0.99
4_V	18_Y	0.881	0.99
180_E	184_E	0.877	0.99
22_Q	33_L	0.872	0.99
9_P	35_Y	0.870	0.99
171_P	219_R	0.868	0.99
157_L	160_F	0.866	0.99
191_P	194_F	0.863	0.99
72_L	175_F	0.863	0.99
43_N	46_E	0.852	0.99
70_I	183_D	0.851	0.99
182_F	186_C	0.848	0.99
129_I	219_R	0.846	0.98
6_T	10_Y	0.840	0.98
127_E	135_H	0.838	0.98
151_E	195_E	0.837	0.98
157_L	163_V	0.834	0.98
133_Y	141_D	0.834	0.98
25_A	45_S	0.833	0.98
57_L	175_F	0.831	0.98
118_L	221_L	0.831	0.98
159_A	162_K	0.830	0.98
147_E	150_K	0.821	0.98
142_L	145_A	0.821	0.98
121_K	168_S	0.819	0.98
107_I	111_L	0.815	0.98
48_N	75_Y	0.815	0.98
97_K	100_K	0.814	0.98
156_Y	188_W	0.808	0.98
61_W	183_D	0.807	0.98
16_D	104_K	0.802	0.98
130_Y	146_I	0.796	0.98
40_T	63_N	0.787	0.98
175_F	182_F	0.771	0.97
6_T	13_P	0.770	0.97
129_I	132_H	0.770	0.97
116_I	177_M	0.767	0.97
22_Q	27_L	0.767	0.97
123_N	167_N	0.766	0.97
67_A	70_I	0.765	0.97
11_E	98_K	0.765	0.97
130_Y	139_I	0.765	0.97
133_Y	219_R	0.764	0.97
18_Y	73_C	0.762	0.97
149_I	157_L	0.759	0.97
133_Y	138_G	0.757	0.97
110_L	114_Y	0.755	0.97
92_I	96_N	0.752	0.97
93_D	96_N	0.751	0.97
3_Y	19_I	0.737	0.96
130_Y	142_L	0.736	0.96
114_Y	117_I	0.728	0.96
50_Y	213_Y	0.726	0.96
202_F	213_Y	0.725	0.96
138_G	205_Y	0.723	0.96
107_I	176_I	0.721	0.96
149_I	192_I	0.720	0.96
158_E	161_D	0.719	0.96
53_E	74_H	0.719	0.96
48_N	55_T	0.718	0.96
102_L	107_I	0.717	0.96
141_D	209_Q	0.712	0.96
186_C	190_F	0.710	0.96
106_E	110_L	0.707	0.95
52_C	215_F	0.706	0.95
41_G	63_N	0.705	0.95
115_D	118_L	0.704	0.95
147_E	151_E	0.703	0.95
202_F	212_V	0.702	0.95
202_F	210_K	0.698	0.95
47_K	194_F	0.694	0.95
153_Y	156_Y	0.693	0.95
47_K	50_Y	0.692	0.95
93_D	97_K	0.691	0.95
45_S	48_N	0.687	0.95
141_D	212_V	0.683	0.95
169_F	222_N	0.682	0.94
39_N	43_N	0.681	0.94
123_N	168_S	0.678	0.94
98_K	101_I	0.677	0.94
145_A	220_L	0.672	0.94
212_V	215_F	0.671	0.94
64_L	70_I	0.666	0.94
25_A	39_N	0.664	0.94
38_D	48_N	0.659	0.93
95_N	99_K	0.659	0.93
15_D	104_K	0.658	0.93
144_K	200_I	0.657	0.93
42_D	58_Y	0.652	0.93
92_I	99_K	0.651	0.93
143_D	146_I	0.651	0.93
5_A	21_I	0.647	0.93
185_Y	221_L	0.646	0.93
193_L	217_A	0.643	0.93
28_K	32_D	0.641	0.92
39_N	45_S	0.640	0.92
118_L	121_K	0.632	0.92
115_D	119_P	0.631	0.92
5_A	23_V	0.630	0.92
201_D	205_Y	0.630	0.92
128_T	167_N	0.626	0.92
74_H	174_M	0.621	0.91
46_E	49_P	0.617	0.91
156_Y	223_V	0.614	0.91
53_E	173_N	0.614	0.91
3_Y	70_I	0.613	0.91
159_A	164_M	0.613	0.91
127_E	131_S	0.613	0.91
52_C	214_G	0.613	0.91
200_I	213_Y	0.613	0.91
17_I	104_K	0.612	0.91
92_I	95_N	0.611	0.91
10_Y	13_P	0.610	0.90
105_E	109_K	0.606	0.90
4_V	12_M	0.606	0.90
77_R	172_F	0.604	0.90
201_D	204_N	0.603	0.90
13_P	19_I	0.602	0.90
20_P	23_V	0.602	0.90
87_K	90_N	0.599	0.90
163_V	223_V	0.599	0.90
211_R	214_G	0.598	0.90
117_I	176_I	0.598	0.90
107_I	110_L	0.598	0.90
25_A	32_D	0.590	0.89
220_L	223_V	0.587	0.89
50_Y	197_E	0.586	0.89
129_I	166_G	0.586	0.89
7_H	23_V	0.585	0.89
114_Y	119_P	0.584	0.89
54_L	174_M	0.581	0.88
144_K	148_I	0.579	0.88
7_H	75_Y	0.579	0.88
192_I	220_L	0.577	0.88
52_C	173_N	0.574	0.88
61_W	190_F	0.570	0.87
137_H	216_L	0.567	0.87
145_A	160_F	0.565	0.87
161_D	164_M	0.563	0.87
132_H	169_F	0.559	0.86
44_I	63_N	0.558	0.86
72_L	182_F	0.558	0.86
173_N	214_G	0.558	0.86
196_L	213_Y	0.557	0.86
119_P	122_R	0.555	0.86
44_I	55_T	0.555	0.86
111_L	114_Y	0.553	0.86
60_A	182_F	0.552	0.86
205_Y	208_Y	0.550	0.85
162_K	166_G	0.549	0.85
91_K	97_K	0.549	0.85
51_Y	213_Y	0.545	0.85
150_K	153_Y	0.544	0.85
38_D	75_Y	0.544	0.85
17_I	107_I	0.544	0.85
222_N	225_F	0.541	0.84
13_P	20_P	0.541	0.84
91_K	95_N	0.541	0.84
174_M	214_G	0.539	0.84
92_I	97_K	0.539	0.84
209_Q	219_R	0.538	0.84
14_K	20_P	0.537	0.84
153_Y	188_W	0.537	0.84
131_S	134_D	0.534	0.84
146_I	223_V	0.529	0.83
75_Y	211_R	0.526	0.83
96_N	99_K	0.524	0.83
211_R	218_E	0.524	0.83
222_N	227_K	0.523	0.82
131_S	135_H	0.520	0.82
3_Y	67_A	0.519	0.82
189_L	193_L	0.518	0.82
53_E	174_M	0.516	0.82
97_K	101_I	0.516	0.82
96_N	100_K	0.515	0.81
191_P	195_E	0.512	0.81
122_R	171_P	0.511	0.81
216_L	219_R	0.511	0.81
175_F	221_L	0.510	0.81
192_I	196_L	0.508	0.81
22_Q	31_E	0.507	0.80
110_L	117_I	0.507	0.80
100_K	104_K	0.506	0.80
143_D	147_E	0.506	0.80
42_D	46_E	0.505	0.80
163_V	169_F	0.501	0.80
170_Y	221_L	0.500	0.80
124_Y	132_H	0.500	0.80

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
4besA	2	0.4279	3.6	0.969	Contact Map
4hbdA	1	0.3362	3.2	0.969	Contact Map
2f8yA	1	0.6201	2.6	0.971	Contact Map
4tumA	1	0.4629	2.5	0.971	Contact Map
1iknD	1	0.5328	2.4	0.971	Contact Map
2zgdA	2	0.3013	2.4	0.971	Contact Map
2nwuA	2	0.3668	2.3	0.972	Contact Map
2arhA	3	0.4629	2.1	0.972	Contact Map
2fpqA	1	0.2183	2.1	0.972	Contact Map
2jucA	1	0.2402	2	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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