DUF241 - PFAM28P - GREMLIN Contacts

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DUF241 - Arabidopsis protein of unknown function

PFAM:	PF03087	Sequences: GLSGLGDLYDCIDELLQLPSTQQALSQEQQRKWVEELLDGSLRLLDLCGTARDALLQLKESVQELQSALRRRDGGELEAEVASYLRSRKKAKKEIKKLLKSLKSMENKSSSSSLDKDQELCAVVRVLREAREITVSVFESLLSFLSGPKAKPKSSSKWSLVSKLMQKKEEEEEINEFEKVDAALQSLLSSKKKKKVQCAQEQLEALESSIEDLEEGLECLFRRLIKTRVSLLNI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	234 (233)
Sequences:	1063 (677)
Seq/√Len:	44.4
META:	0.041

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
228_R	232_L	4.414	1.00
12_I	130_A	3.650	1.00
229_V	233_N	3.584	1.00
222_R	231_L	2.763	1.00
9_Y	44_L	2.644	1.00
81_V	84_Y	2.514	1.00
3_S	7_D	2.398	1.00
97_K	210_I	2.362	1.00
229_V	232_L	2.290	1.00
84_Y	88_R	2.218	1.00
191_K	194_K	2.216	1.00
114_L	165_M	2.095	0.99
65_L	234_I	2.092	0.99
109_S	112_S	2.077	0.99
83_S	98_L	2.052	0.99
176_E	180_V	1.999	0.99
214_E	222_R	1.965	0.99
67_S	71_R	1.958	0.99
159_S	162_S	1.867	0.99
82_A	90_K	1.853	0.99
109_S	113_S	1.836	0.99
228_R	233_N	1.833	0.99
16_L	227_T	1.802	0.98
22_Q	234_I	1.791	0.98
177_F	180_V	1.789	0.98
140_S	160_L	1.787	0.98
81_V	128_R	1.769	0.98
230_S	233_N	1.759	0.98
66_Q	225_I	1.727	0.98
4_G	15_L	1.725	0.98
25_L	38_L	1.723	0.98
26_S	56_L	1.712	0.98
176_E	179_K	1.709	0.98
169_E	172_E	1.700	0.98
9_Y	21_T	1.676	0.97
39_D	138_F	1.673	0.97
162_S	203_L	1.672	0.97
41_S	89_K	1.672	0.97
218_E	231_L	1.661	0.97
110_S	113_S	1.647	0.97
175_N	179_K	1.638	0.97
14_E	201_E	1.626	0.97
228_R	231_L	1.595	0.97
183_A	200_Q	1.593	0.97
67_S	70_R	1.587	0.96
172_E	184_L	1.574	0.96
6_G	14_E	1.563	0.96
83_S	90_K	1.552	0.96
221_F	228_R	1.512	0.95
88_R	181_D	1.507	0.95
122_A	221_F	1.493	0.95
184_L	187_L	1.483	0.95
69_L	143_S	1.476	0.95
123_V	225_I	1.467	0.94
70_R	93_K	1.443	0.94
7_D	49_G	1.437	0.94
68_A	225_I	1.420	0.93
84_Y	89_K	1.419	0.93
150_A	199_A	1.412	0.93
172_E	175_N	1.386	0.93
155_S	160_L	1.365	0.92
58_L	83_S	1.362	0.92
224_L	228_R	1.362	0.92
171_E	174_I	1.335	0.91
42_L	216_G	1.334	0.91
123_V	127_L	1.326	0.91
78_E	81_V	1.313	0.90
221_F	232_L	1.313	0.90
144_F	175_N	1.308	0.90
95_I	98_L	1.305	0.90
9_Y	14_E	1.275	0.89
129_E	213_L	1.273	0.89
161_V	165_M	1.271	0.89
50_T	76_E	1.269	0.89
73_D	190_S	1.267	0.89
210_I	218_E	1.262	0.89
30_Q	132_E	1.240	0.88
187_L	190_S	1.238	0.88
57_Q	226_K	1.234	0.87
25_L	44_L	1.228	0.87
177_F	181_D	1.220	0.87
4_G	8_L	1.216	0.87
138_F	141_L	1.212	0.86
6_G	44_L	1.203	0.86
76_E	124_V	1.196	0.86
175_N	181_D	1.192	0.86
32_K	39_D	1.178	0.85
44_L	50_T	1.175	0.85
59_K	93_K	1.174	0.85
22_Q	27_Q	1.172	0.85
34_V	38_L	1.158	0.84
182_A	195_K	1.157	0.84
64_E	141_L	1.154	0.84
208_S	211_E	1.150	0.83
205_A	223_R	1.143	0.83
35_E	213_L	1.138	0.83
40_G	226_K	1.129	0.82
175_N	178_E	1.110	0.81
38_L	71_R	1.105	0.81
18_L	73_D	1.103	0.81
147_G	153_K	1.103	0.81
37_L	227_T	1.101	0.81
158_W	225_I	1.097	0.80
16_L	82_A	1.097	0.80
65_L	125_R	1.090	0.80
130_A	225_I	1.088	0.80
118_Q	137_V	1.085	0.80
52_R	225_I	1.073	0.79
218_E	224_L	1.071	0.79
147_G	215_E	1.070	0.79
62_V	203_L	1.066	0.78
18_L	206_L	1.059	0.78
141_L	148_P	1.051	0.77
213_L	220_L	1.049	0.77
59_K	210_I	1.040	0.77
1_G	6_G	1.028	0.76
96_K	229_V	1.025	0.76
35_E	129_E	1.025	0.76
71_R	93_K	1.021	0.75
65_L	211_E	1.020	0.75
100_K	204_E	1.018	0.75
59_K	218_E	1.017	0.75
140_S	230_S	1.017	0.75
7_D	13_D	1.016	0.75
8_L	118_Q	1.010	0.75
185_Q	190_S	1.004	0.74
92_K	130_A	1.002	0.74
5_L	11_C	0.999	0.74
59_K	62_V	0.994	0.73
158_W	161_V	0.989	0.73
164_L	167_K	0.982	0.72
211_E	215_E	0.978	0.72
153_K	168_K	0.977	0.72
15_L	38_L	0.973	0.72
12_I	234_I	0.965	0.71
19_P	24_A	0.963	0.71
60_E	118_Q	0.961	0.71
6_G	9_Y	0.961	0.71
94_E	98_L	0.958	0.71
158_W	163_K	0.958	0.71
200_Q	212_D	0.958	0.71
198_C	201_E	0.954	0.70
132_E	174_I	0.951	0.70
123_V	134_T	0.949	0.70
66_Q	180_V	0.947	0.70
218_E	222_R	0.942	0.69
17_Q	52_R	0.941	0.69
127_L	151_K	0.935	0.69
31_R	35_E	0.930	0.68
161_V	166_Q	0.930	0.68
98_L	101_S	0.929	0.68
164_L	181_D	0.927	0.68
213_L	224_L	0.924	0.68
176_E	181_D	0.924	0.68
19_P	58_L	0.921	0.68
95_I	229_V	0.915	0.67
41_S	48_C	0.912	0.67
5_L	21_T	0.905	0.66
14_E	51_A	0.889	0.65
42_L	207_E	0.888	0.65
93_K	163_K	0.879	0.64
88_R	103_K	0.865	0.63
11_C	31_R	0.858	0.62
14_E	83_S	0.855	0.62
161_V	220_L	0.850	0.61
189_S	192_K	0.848	0.61
186_S	190_S	0.847	0.61
55_L	213_L	0.846	0.61
181_D	184_L	0.845	0.61
137_V	169_E	0.844	0.61
104_S	177_F	0.844	0.61
20_S	96_K	0.838	0.60
180_V	183_A	0.837	0.60
220_L	225_I	0.835	0.60
84_Y	227_T	0.835	0.60
141_L	196_V	0.834	0.60
160_L	167_K	0.833	0.60
110_S	114_L	0.831	0.59
51_A	92_K	0.831	0.59
63_Q	221_F	0.829	0.59
165_M	219_C	0.823	0.59
69_L	217_L	0.823	0.59
48_C	53_D	0.820	0.58
39_D	173_E	0.819	0.58
178_E	209_S	0.819	0.58
73_D	80_E	0.816	0.58
197_Q	202_Q	0.816	0.58
23_Q	26_S	0.815	0.58
200_Q	225_I	0.814	0.58
225_I	228_R	0.813	0.58
52_R	65_L	0.812	0.58
11_C	144_F	0.810	0.58
177_F	225_I	0.808	0.57
26_S	121_C	0.807	0.57
144_F	148_P	0.804	0.57
52_R	58_L	0.803	0.57
79_A	127_L	0.800	0.57
65_L	203_L	0.798	0.56
187_L	193_K	0.796	0.56
172_E	182_A	0.790	0.56
42_L	230_S	0.788	0.55
81_V	141_L	0.787	0.55
20_S	58_L	0.785	0.55
153_K	178_E	0.783	0.55
180_V	193_K	0.776	0.54
15_L	21_T	0.773	0.54
192_K	195_K	0.767	0.53
105_M	108_K	0.767	0.53
36_E	71_R	0.767	0.53
1_G	64_E	0.764	0.53
4_G	16_L	0.764	0.53
35_E	38_L	0.763	0.53
4_G	7_D	0.762	0.53
104_S	167_K	0.759	0.53
225_I	232_L	0.759	0.53
73_D	106_E	0.758	0.53
42_L	135_V	0.752	0.52
42_L	95_I	0.750	0.52
180_V	206_L	0.748	0.52
78_E	168_K	0.747	0.51
23_Q	57_Q	0.744	0.51
42_L	46_D	0.744	0.51
16_L	23_Q	0.743	0.51
7_D	14_E	0.743	0.51
174_I	194_K	0.741	0.51
29_Q	77_L	0.736	0.50
1_G	14_E	0.736	0.50
38_L	44_L	0.736	0.50
171_E	175_N	0.735	0.50
100_K	220_L	0.733	0.50
85_L	205_A	0.733	0.50
183_A	212_D	0.728	0.50
195_K	199_A	0.728	0.50
6_G	10_D	0.723	0.49
21_T	140_S	0.722	0.49
142_L	151_K	0.717	0.49
14_E	62_V	0.709	0.48
27_Q	66_Q	0.707	0.48
9_Y	39_D	0.705	0.47
99_L	103_K	0.705	0.47
210_I	222_R	0.704	0.47
89_K	231_L	0.702	0.47
118_Q	165_M	0.701	0.47
9_Y	141_L	0.700	0.47
127_L	203_L	0.699	0.47
3_S	21_T	0.695	0.46
47_L	54_A	0.692	0.46
121_C	124_V	0.690	0.46
93_K	155_S	0.688	0.46
80_E	139_E	0.682	0.45
231_L	234_I	0.681	0.45
18_L	134_T	0.670	0.44
92_K	98_L	0.669	0.44
117_D	122_A	0.665	0.44
3_S	13_D	0.665	0.44
7_D	41_S	0.664	0.44
157_K	198_C	0.663	0.43
5_L	48_C	0.662	0.43
59_K	136_S	0.662	0.43
27_Q	146_S	0.661	0.43
26_S	229_V	0.653	0.42
88_R	176_E	0.651	0.42
104_S	120_L	0.651	0.42
168_K	198_C	0.650	0.42
117_D	120_L	0.644	0.42
61_S	91_A	0.644	0.42
15_L	199_A	0.641	0.41
178_E	182_A	0.638	0.41
14_E	148_P	0.628	0.40
174_I	180_V	0.623	0.40
107_N	163_K	0.620	0.39
24_A	229_V	0.614	0.39
160_L	222_R	0.613	0.39
117_D	123_V	0.607	0.38
106_E	139_E	0.607	0.38
5_L	52_R	0.605	0.38
40_G	44_L	0.600	0.38
158_W	216_G	0.599	0.37
19_P	33_W	0.599	0.37
175_N	186_S	0.598	0.37
25_L	50_T	0.595	0.37
18_L	202_Q	0.593	0.37
188_L	192_K	0.591	0.37
190_S	194_K	0.591	0.37
173_E	193_K	0.590	0.37
132_E	200_Q	0.590	0.37
34_V	110_S	0.588	0.36
9_Y	12_I	0.587	0.36
69_L	98_L	0.586	0.36
9_Y	87_S	0.584	0.36
37_L	98_L	0.583	0.36
49_G	52_R	0.581	0.36
33_W	43_R	0.581	0.36
48_C	138_F	0.579	0.36
36_E	137_V	0.578	0.36
107_N	111_S	0.575	0.35
175_N	193_K	0.571	0.35
8_L	37_L	0.571	0.35
18_L	87_S	0.570	0.35
12_I	82_A	0.567	0.35
67_S	102_L	0.563	0.34
9_Y	132_E	0.562	0.34
104_S	180_V	0.561	0.34
199_A	211_E	0.560	0.34
52_R	71_R	0.560	0.34
183_A	207_E	0.558	0.34
135_V	198_C	0.558	0.34
123_V	126_V	0.557	0.34
209_S	217_L	0.554	0.33
167_K	178_E	0.551	0.33
198_C	205_A	0.551	0.33
52_R	61_S	0.551	0.33
112_S	115_D	0.550	0.33
46_D	160_L	0.550	0.33
21_T	202_Q	0.548	0.33
11_C	196_V	0.548	0.33
1_G	215_E	0.545	0.33
125_R	211_E	0.541	0.32
183_A	187_L	0.541	0.32
216_G	229_V	0.541	0.32
46_D	222_R	0.540	0.32
111_S	114_L	0.540	0.32
3_S	31_R	0.538	0.32
190_S	195_K	0.538	0.32
23_Q	135_V	0.536	0.32
84_Y	199_A	0.535	0.32
26_S	139_E	0.534	0.32
11_C	16_L	0.533	0.32
187_L	199_A	0.531	0.32
186_S	192_K	0.530	0.31
114_L	227_T	0.529	0.31
76_E	230_S	0.529	0.31
34_V	91_A	0.525	0.31
177_F	205_A	0.523	0.31
67_S	73_D	0.522	0.31
158_W	214_E	0.522	0.31
17_Q	77_L	0.518	0.30
88_R	99_L	0.516	0.30
25_L	190_S	0.515	0.30
85_L	210_I	0.514	0.30
140_S	203_L	0.513	0.30
183_A	218_E	0.509	0.30
140_S	227_T	0.508	0.30
80_E	132_E	0.508	0.30
74_G	211_E	0.507	0.30
19_P	135_V	0.506	0.29
10_D	220_L	0.505	0.29
59_K	163_K	0.503	0.29
36_E	132_E	0.503	0.29
163_K	168_K	0.500	0.29

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
4xa3A	2	0.547	11.4	0.957	Contact Map
1lwuB	1	0.265	11	0.957	Contact Map
3ljmA	3	0.1239	8.4	0.959	Contact Map
2eroA	2	0.2735	7.9	0.96	Contact Map
2vmlA	3	0.2308	7.8	0.96	Contact Map
4po5B	3	0.2308	7.4	0.96	Contact Map
1kn1A	3	0.2308	7.2	0.961	Contact Map
1z0kB	1	0.2564	6.9	0.961	Contact Map
4zn6A	2	0.3632	5.8	0.962	Contact Map
1y4mA	6	0.141	5.6	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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