DUF2357 - PFAM28P - GREMLIN Contacts

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DUF2357 - Domain of unknown function (DUF2357)

PFAM:	PF09823	Sequences: TGRINFGNYVGTLELEIRYDGKKLGELTLEVFSTKLDYREDYRAMLEDITEECTDLLFDFLSPTYQSFEPDETDPPTLYEWFAFLRSISDELEEALERILRNPHRRLVEEEEYVPIDRVKRVDSATLRQLAKHPNRLVLLPRGGGGSLPERILVERKEETVDTPENRFVKHALERFLRRLEDLKERLEKKKRSADTRLSPRLLKELEELERRLERLLSHPFFREVGRLTGLPLNSLVLQRRPGYREVYRAW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	251 (246)
Sequences:	1796 (1509)
Seq/√Len:	96.2
META:	0.811

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
37_D	40_E	5.115	1.00
162_D	167_R	4.063	1.00
86_R	205_E	4.021	1.00
236_L	240_R	3.801	1.00
104_H	163_T	3.722	1.00
167_R	226_G	3.675	1.00
165_E	235_S	3.335	1.00
93_E	212_R	3.321	1.00
6_F	13_L	3.186	1.00
30_E	38_Y	2.998	1.00
104_H	237_V	2.789	1.00
174_E	227_R	2.768	1.00
184_K	210_E	2.723	1.00
184_K	207_E	2.694	1.00
162_D	226_G	2.640	1.00
180_L	206_L	2.418	1.00
243_G	246_E	2.399	1.00
177_L	214_E	2.364	1.00
96_L	216_L	2.363	1.00
222_F	225_V	2.298	1.00
110_E	158_E	2.294	1.00
13_L	29_L	2.254	1.00
58_F	68_F	2.240	1.00
100_L	219_H	2.212	1.00
221_F	225_V	2.182	1.00
112_E	156_R	2.044	1.00
228_L	231_L	2.005	1.00
99_I	247_V	1.930	1.00
228_L	232_P	1.890	1.00
168_F	172_A	1.881	1.00
111_E	153_L	1.861	1.00
174_E	217_L	1.826	1.00
173_L	213_L	1.797	1.00
96_L	100_L	1.745	1.00
47_E	51_E	1.738	1.00
181_E	210_E	1.655	1.00
114_V	118_R	1.654	1.00
77_T	80_E	1.628	1.00
123_D	126_T	1.606	1.00
167_R	229_T	1.599	1.00
16_E	23_K	1.595	1.00
164_P	235_S	1.588	1.00
14_E	28_T	1.554	1.00
123_D	155_E	1.552	1.00
170_K	174_E	1.527	1.00
122_V	126_T	1.517	1.00
110_E	156_R	1.494	1.00
19_Y	22_K	1.470	1.00
31_V	35_K	1.463	1.00
104_H	166_N	1.451	1.00
73_T	185_E	1.431	1.00
233_L	248_Y	1.413	0.99
53_C	57_L	1.396	0.99
114_V	154_V	1.374	0.99
99_I	103_P	1.374	0.99
30_E	39_R	1.370	0.99
115_P	118_R	1.368	0.99
113_Y	151_R	1.352	0.99
42_Y	46_L	1.351	0.99
79_Y	83_A	1.341	0.99
6_F	31_V	1.339	0.99
100_L	221_F	1.334	0.99
98_R	102_N	1.326	0.99
78_L	82_F	1.326	0.99
100_L	222_F	1.312	0.99
93_E	216_L	1.303	0.99
105_R	161_V	1.293	0.99
236_L	239_Q	1.292	0.99
12_T	28_T	1.285	0.99
49_I	53_C	1.278	0.99
44_A	47_E	1.263	0.99
44_A	48_D	1.261	0.99
111_E	123_D	1.254	0.99
43_R	47_E	1.247	0.99
135_N	150_E	1.243	0.99
119_V	152_I	1.242	0.99
233_L	236_L	1.234	0.99
5_N	13_L	1.227	0.99
91_E	249_R	1.226	0.99
174_E	177_L	1.213	0.98
14_E	26_E	1.206	0.98
170_K	225_V	1.204	0.98
238_L	243_G	1.195	0.98
136_R	139_L	1.195	0.98
105_R	159_E	1.193	0.98
248_Y	251_W	1.192	0.98
45_M	49_I	1.189	0.98
242_P	246_E	1.188	0.98
166_N	237_V	1.187	0.98
177_L	210_E	1.185	0.98
113_Y	183_L	1.175	0.98
81_W	179_R	1.156	0.98
79_Y	107_L	1.147	0.98
116_I	152_I	1.141	0.98
30_E	41_D	1.133	0.98
219_H	222_F	1.118	0.97
50_T	54_T	1.114	0.97
31_V	235_S	1.114	0.97
172_A	176_F	1.113	0.97
104_H	241_R	1.108	0.97
55_D	80_E	1.099	0.97
92_L	172_A	1.094	0.97
114_V	119_V	1.086	0.97
42_Y	66_Q	1.082	0.97
184_K	188_E	1.074	0.97
13_L	64_T	1.070	0.97
163_T	167_R	1.064	0.96
214_E	217_L	1.064	0.96
33_S	41_D	1.061	0.96
56_L	60_F	1.041	0.96
80_E	84_F	1.039	0.96
9_Y	63_P	1.023	0.96
49_I	92_L	1.019	0.95
114_V	156_R	1.019	0.95
129_Q	153_L	1.007	0.95
14_E	65_Y	1.005	0.95
46_L	54_T	1.005	0.95
247_V	250_A	0.999	0.95
18_R	21_G	0.999	0.95
187_L	206_L	0.991	0.95
41_D	165_E	0.986	0.95
218_S	223_R	0.978	0.94
168_F	171_H	0.969	0.94
207_E	211_R	0.965	0.94
113_Y	153_L	0.962	0.94
184_K	206_L	0.962	0.94
81_W	84_F	0.961	0.94
90_D	94_E	0.959	0.94
31_V	53_C	0.958	0.94
186_R	191_K	0.957	0.94
183_L	187_L	0.944	0.93
234_N	242_P	0.941	0.93
200_P	204_K	0.935	0.93
79_Y	82_F	0.935	0.93
138_V	143_G	0.935	0.93
177_L	181_E	0.933	0.93
230_G	234_N	0.928	0.93
140_L	146_G	0.921	0.92
47_E	50_T	0.920	0.92
111_E	155_E	0.915	0.92
78_L	182_D	0.914	0.92
134_P	139_L	0.907	0.92
137_L	140_L	0.905	0.92
48_D	51_E	0.902	0.91
34_T	41_D	0.897	0.91
164_P	168_F	0.891	0.91
168_F	231_L	0.889	0.91
207_E	210_E	0.888	0.91
97_E	101_R	0.881	0.90
140_L	148_L	0.876	0.90
242_P	245_R	0.876	0.90
16_E	24_L	0.873	0.90
10_V	130_L	0.871	0.90
2_G	15_L	0.871	0.90
53_C	159_E	0.865	0.90
16_E	26_E	0.863	0.90
101_R	185_E	0.860	0.89
29_L	82_F	0.855	0.89
46_L	79_Y	0.855	0.89
54_T	80_E	0.845	0.89
172_A	247_V	0.841	0.88
181_E	214_E	0.840	0.88
38_Y	41_D	0.837	0.88
170_K	217_L	0.835	0.88
2_G	95_A	0.828	0.88
168_F	243_G	0.825	0.87
142_R	191_K	0.825	0.87
182_D	214_E	0.822	0.87
35_K	42_Y	0.821	0.87
210_E	214_E	0.819	0.87
120_K	223_R	0.818	0.87
49_I	56_L	0.812	0.87
170_K	173_L	0.805	0.86
96_L	169_V	0.803	0.86
74_D	213_L	0.798	0.86
20_D	24_L	0.796	0.85
62_S	241_R	0.792	0.85
187_L	190_K	0.780	0.84
106_R	163_T	0.775	0.84
170_K	221_F	0.775	0.84
180_L	213_L	0.774	0.84
135_N	139_L	0.773	0.84
99_I	159_E	0.773	0.84
228_L	251_W	0.771	0.84
10_V	32_F	0.768	0.83
129_Q	133_H	0.764	0.83
216_L	219_H	0.760	0.83
177_L	213_L	0.759	0.83
69_E	207_E	0.758	0.83
10_V	13_L	0.758	0.83
234_N	239_Q	0.752	0.82
203_L	208_E	0.751	0.82
82_F	85_L	0.751	0.82
29_L	127_L	0.750	0.82
136_R	140_L	0.742	0.81
12_T	30_E	0.741	0.81
102_N	213_L	0.739	0.81
13_L	33_S	0.733	0.80
32_F	39_R	0.727	0.80
137_L	141_P	0.724	0.80
72_E	182_D	0.723	0.79
187_L	202_L	0.722	0.79
13_L	31_V	0.721	0.79
178_R	211_R	0.719	0.79
116_I	168_F	0.717	0.79
18_R	26_E	0.717	0.79
103_P	221_F	0.712	0.78
189_K	203_L	0.707	0.78
59_D	64_T	0.705	0.78
212_R	216_L	0.705	0.78
159_E	206_L	0.704	0.78
38_Y	80_E	0.701	0.77
17_I	25_G	0.699	0.77
176_F	206_L	0.697	0.77
33_S	42_Y	0.697	0.77
150_E	204_K	0.695	0.77
181_E	207_E	0.694	0.77
98_R	101_R	0.694	0.77
13_L	41_D	0.692	0.76
50_T	55_D	0.691	0.76
59_D	62_S	0.690	0.76
183_L	186_R	0.689	0.76
40_E	76_P	0.687	0.76
234_N	241_R	0.686	0.76
74_D	183_L	0.685	0.76
20_D	23_K	0.685	0.76
106_R	160_T	0.681	0.75
109_E	155_E	0.681	0.75
189_K	193_S	0.679	0.75
45_M	236_L	0.679	0.75
42_Y	149_P	0.678	0.75
89_S	212_R	0.673	0.74
119_V	126_T	0.673	0.74
17_I	189_K	0.673	0.74
70_P	112_E	0.670	0.74
237_V	247_V	0.669	0.74
38_Y	42_Y	0.669	0.74
166_N	169_V	0.669	0.74
204_K	208_E	0.668	0.74
16_E	224_E	0.666	0.74
56_L	239_Q	0.665	0.74
214_E	218_S	0.665	0.74
189_K	207_E	0.663	0.73
235_S	238_L	0.662	0.73
183_L	206_L	0.659	0.73
201_R	205_E	0.658	0.73
57_L	65_Y	0.658	0.73
19_Y	24_L	0.657	0.73
113_Y	133_H	0.656	0.73
76_P	171_H	0.654	0.72
134_P	137_L	0.653	0.72
30_E	77_T	0.653	0.72
126_T	152_I	0.651	0.72
129_Q	187_L	0.650	0.72
231_L	238_L	0.649	0.72
57_L	80_E	0.644	0.71
239_Q	248_Y	0.644	0.71
163_T	168_F	0.641	0.71
4_I	18_R	0.640	0.71
80_E	83_A	0.638	0.70
109_E	156_R	0.638	0.70
32_F	119_V	0.637	0.70
40_E	44_A	0.636	0.70
224_E	227_R	0.636	0.70
185_E	194_A	0.635	0.70
57_L	68_F	0.633	0.70
12_T	29_L	0.631	0.70
75_P	220_P	0.628	0.69
40_E	43_R	0.625	0.69
87_S	222_F	0.624	0.69
11_G	15_L	0.623	0.69
169_V	247_V	0.622	0.69
236_L	251_W	0.621	0.68
234_N	238_L	0.617	0.68
222_F	228_L	0.613	0.67
149_P	228_L	0.612	0.67
137_L	147_S	0.608	0.67
50_T	58_F	0.602	0.66
222_F	226_G	0.601	0.66
53_C	117_D	0.600	0.66
38_Y	205_E	0.596	0.65
13_L	38_Y	0.596	0.65
45_M	176_F	0.593	0.65
95_A	169_V	0.592	0.65
9_Y	79_Y	0.591	0.65
18_R	24_L	0.589	0.64
27_L	169_V	0.586	0.64
95_A	243_G	0.585	0.64
232_P	245_R	0.584	0.64
6_F	12_T	0.582	0.63
69_E	90_D	0.581	0.63
62_S	98_R	0.581	0.63
19_Y	85_L	0.581	0.63
6_F	173_L	0.579	0.63
51_E	208_E	0.579	0.63
212_R	225_V	0.579	0.63
113_Y	129_Q	0.577	0.63
53_C	157_K	0.575	0.62
6_F	29_L	0.574	0.62
41_D	55_D	0.573	0.62
184_K	189_K	0.570	0.62
133_H	149_P	0.568	0.62
172_A	237_V	0.567	0.61
161_V	225_V	0.566	0.61
42_Y	92_L	0.566	0.61
193_S	223_R	0.566	0.61
103_P	161_V	0.564	0.61
124_S	127_L	0.563	0.61
43_R	46_L	0.561	0.61
112_E	154_V	0.561	0.61
81_W	176_F	0.560	0.60
95_A	99_I	0.560	0.60
185_E	188_E	0.559	0.60
32_F	41_D	0.558	0.60
52_E	99_I	0.558	0.60
225_V	247_V	0.557	0.60
12_T	16_E	0.557	0.60
157_K	180_L	0.556	0.60
240_R	248_Y	0.556	0.60
91_E	167_R	0.553	0.59
238_L	244_Y	0.552	0.59
102_N	126_T	0.551	0.59
173_L	216_L	0.551	0.59
91_E	246_E	0.549	0.59
182_D	188_E	0.547	0.59
182_D	186_R	0.547	0.59
61_L	180_L	0.545	0.58
128_R	131_A	0.544	0.58
53_C	251_W	0.544	0.58
108_V	194_A	0.541	0.58
134_P	141_P	0.541	0.58
45_M	87_S	0.541	0.58
17_I	208_E	0.541	0.58
48_D	107_L	0.538	0.57
173_L	205_E	0.537	0.57
54_T	105_R	0.535	0.57
7_G	172_A	0.533	0.57
10_V	58_F	0.533	0.57
114_V	133_H	0.532	0.57
89_S	209_L	0.531	0.56
29_L	228_L	0.531	0.56
115_P	121_R	0.529	0.56
220_P	249_R	0.525	0.56
36_L	218_S	0.523	0.55
78_L	225_V	0.523	0.55
61_L	84_F	0.522	0.55
226_G	235_S	0.519	0.55
72_E	173_L	0.519	0.55
84_F	247_V	0.519	0.55
176_F	180_L	0.518	0.55
228_L	238_L	0.516	0.54
188_E	207_E	0.516	0.54
36_L	175_R	0.515	0.54
246_E	250_A	0.515	0.54
57_L	66_Q	0.515	0.54
10_V	79_Y	0.514	0.54
12_T	238_L	0.513	0.54
109_E	157_K	0.513	0.54
186_R	190_K	0.513	0.54
134_P	138_V	0.511	0.54
201_R	204_K	0.511	0.54
241_R	246_E	0.510	0.53
96_L	173_L	0.510	0.53
115_P	151_R	0.509	0.53
63_P	180_L	0.509	0.53
127_L	130_L	0.508	0.53
11_G	45_M	0.505	0.53
232_P	239_Q	0.502	0.52
171_H	227_R	0.500	0.52

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
3ijmA	2	0.3665	12.9	0.95	Contact Map
4dinB	1	0.2629	8.3	0.954	Contact Map
3oiqB	1	0.1195	7.2	0.955	Contact Map
4wlpB	2	0.2351	6.3	0.956	Contact Map
2p22D	1	0.3147	4.9	0.959	Contact Map
2becA	1	0.3944	4.8	0.959	Contact Map
3ijtA	2	0.2151	4.7	0.959	Contact Map
3r6fA	2	0.2112	4.6	0.959	Contact Map
2lxtC	1	0.1036	4.5	0.959	Contact Map
2qcsB	1	0.2709	4.5	0.959	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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