DUF1385 - PFAM28P - GREMLIN Contacts

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DUF1385 - Protein of unknown function (DUF1385)

PFAM:	PF07136	Sequences: LPFLRGVVALIESLVLGMKALNFSANVALEEEEEEKLSGWAMALTVVLSLALAIGLFFLLPLLLTSLLSLLFNLVEGLIRLAIFLGYLWLISRMKDIRRVFQYHGAEHKTINAYEAGEPLTVENVRKYSTLHPRCGTSFLLIVMVVSILVFSLLGRPSLWLRILSRILLLPVIAGISYELIRLAGRHDNPLVRILSAPGLWLQRLTTREPDDDQLEVAIAALKAVLE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	227 (226)
Sequences:	9385 (5815)
Seq/√Len:	386.8
META:	0.909

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
126_R	212_D	4.796	1.00
118_E	128_Y	4.644	1.00
126_R	215_L	3.867	1.00
109_K	209_E	3.784	1.00
197_A	201_W	3.492	1.00
118_E	127_K	3.053	1.00
118_E	124_N	2.973	1.00
121_T	124_N	2.812	1.00
131_L	204_R	2.742	1.00
183_L	187_H	2.650	1.00
102_Q	214_Q	2.615	1.00
116_A	128_Y	2.578	1.00
23_F	27_V	2.519	1.00
43_A	47_V	2.456	1.00
125_V	215_L	2.429	1.00
122_V	212_D	2.420	1.00
89_W	93_R	2.364	1.00
125_V	219_I	2.146	1.00
220_A	223_K	2.106	1.00
93_R	98_R	2.023	1.00
51_A	55_G	1.975	1.00
84_F	144_M	1.873	1.00
45_T	49_S	1.856	1.00
59_L	163_I	1.772	1.00
99_R	211_D	1.744	1.00
142_I	181_I	1.724	1.00
190_P	194_I	1.696	1.00
220_A	224_A	1.686	1.00
184_A	196_S	1.686	1.00
141_L	202_L	1.642	1.00
124_N	127_K	1.635	1.00
110_T	222_L	1.634	1.00
9_A	13_S	1.629	1.00
47_V	51_A	1.619	1.00
190_P	193_R	1.607	1.00
98_R	208_R	1.606	1.00
38_S	41_A	1.591	1.00
119_P	124_N	1.575	1.00
63_L	67_L	1.573	1.00
189_N	192_V	1.564	1.00
3_F	175_G	1.541	1.00
97_I	100_V	1.523	1.00
113_A	125_V	1.511	1.00
39_G	43_A	1.504	1.00
15_V	19_K	1.490	1.00
165_S	168_L	1.488	1.00
110_T	125_V	1.468	1.00
22_N	26_N	1.457	1.00
46_V	50_L	1.443	1.00
54_I	59_L	1.419	1.00
98_R	102_Q	1.411	1.00
201_W	204_R	1.410	1.00
130_T	209_E	1.404	1.00
59_L	63_L	1.404	1.00
169_L	172_V	1.388	1.00
123_E	212_D	1.386	1.00
93_R	208_R	1.362	1.00
91_I	97_I	1.361	1.00
50_L	54_I	1.359	1.00
77_G	148_I	1.349	1.00
91_I	101_F	1.348	1.00
102_Q	211_D	1.348	1.00
26_N	29_L	1.340	1.00
112_N	133_P	1.331	1.00
40_W	44_L	1.329	1.00
122_V	126_R	1.310	1.00
18_M	22_N	1.302	1.00
150_V	176_I	1.302	1.00
55_G	59_L	1.296	1.00
99_R	102_Q	1.295	1.00
86_G	90_L	1.284	1.00
110_T	219_I	1.275	1.00
85_L	89_W	1.261	1.00
161_L	164_L	1.260	1.00
181_I	184_A	1.243	1.00
76_E	166_R	1.242	1.00
90_L	93_R	1.238	1.00
141_L	145_V	1.237	1.00
3_F	7_V	1.228	1.00
102_Q	208_R	1.227	1.00
63_L	66_S	1.196	1.00
95_K	98_R	1.191	1.00
7_V	11_I	1.185	1.00
164_L	168_L	1.181	1.00
70_L	73_N	1.175	1.00
122_V	219_I	1.164	1.00
41_A	44_L	1.160	1.00
193_R	197_A	1.152	1.00
65_T	75_V	1.127	1.00
55_G	60_L	1.123	1.00
183_L	192_V	1.120	1.00
84_F	88_L	1.117	1.00
112_N	131_L	1.103	1.00
113_A	124_N	1.098	1.00
11_I	15_V	1.090	1.00
222_L	226_L	1.086	1.00
148_I	152_S	1.082	1.00
56_L	83_I	1.076	1.00
62_L	162_R	1.076	1.00
149_L	153_L	1.072	1.00
92_S	208_R	1.064	1.00
71_L	74_L	1.063	1.00
140_L	144_M	1.054	1.00
40_W	43_A	1.051	1.00
126_R	209_E	1.049	1.00
65_T	72_F	1.047	1.00
112_N	130_T	1.046	1.00
160_W	164_L	1.045	1.00
113_A	118_E	1.037	1.00
110_T	218_A	1.031	1.00
90_L	94_M	1.030	1.00
83_I	86_G	1.019	1.00
46_V	49_S	1.010	1.00
112_N	129_S	1.006	1.00
74_L	78_L	1.004	1.00
138_S	184_A	1.001	1.00
44_L	48_L	0.995	1.00
64_L	67_L	0.984	1.00
52_L	56_L	0.981	1.00
9_A	178_Y	0.977	1.00
37_L	41_A	0.977	1.00
187_H	192_V	0.966	1.00
81_L	144_M	0.961	1.00
64_L	83_I	0.955	1.00
82_A	86_G	0.948	1.00
146_V	177_S	0.945	1.00
158_S	161_L	0.945	1.00
7_V	175_G	0.941	1.00
156_R	162_R	0.941	1.00
4_L	7_V	0.924	1.00
146_V	173_I	0.924	1.00
44_L	47_V	0.908	1.00
143_V	177_S	0.906	1.00
54_I	58_F	0.906	1.00
86_G	89_W	0.906	1.00
154_L	165_S	0.902	1.00
112_N	116_A	0.901	1.00
42_M	45_T	0.900	1.00
20_A	23_F	0.884	1.00
8_V	12_E	0.883	1.00
85_L	202_L	0.883	1.00
181_I	185_G	0.877	1.00
130_T	204_R	0.866	1.00
18_M	46_V	0.865	1.00
78_L	82_A	0.862	1.00
161_L	165_S	0.861	1.00
56_L	60_L	0.859	1.00
194_I	197_A	0.858	1.00
3_F	176_I	0.856	1.00
154_L	169_L	0.855	1.00
147_S	151_F	0.855	1.00
180_L	195_L	0.839	1.00
3_F	172_V	0.837	1.00
113_A	128_Y	0.833	1.00
215_L	218_A	0.832	1.00
36_K	40_W	0.830	1.00
112_N	128_Y	0.828	1.00
142_I	199_G	0.828	1.00
62_L	76_E	0.822	1.00
205_L	208_R	0.821	1.00
27_V	30_E	0.819	1.00
80_R	166_R	0.817	1.00
39_G	42_M	0.811	1.00
162_R	166_R	0.810	1.00
162_R	165_S	0.804	1.00
62_L	72_F	0.802	1.00
64_L	79_I	0.800	1.00
113_A	116_A	0.797	1.00
196_S	200_L	0.794	1.00
99_R	213_D	0.794	1.00
88_L	101_F	0.789	1.00
142_I	177_S	0.784	1.00
89_W	92_S	0.782	1.00
133_P	193_R	0.778	1.00
16_L	19_K	0.778	1.00
120_L	125_V	0.778	1.00
150_V	173_I	0.774	1.00
92_S	205_L	0.774	1.00
22_N	42_M	0.772	1.00
37_L	40_W	0.770	1.00
142_I	180_L	0.770	1.00
12_E	16_L	0.769	1.00
155_G	158_S	0.761	1.00
191_L	194_I	0.755	1.00
50_L	53_A	0.753	1.00
58_F	62_L	0.753	1.00
73_N	155_G	0.752	1.00
143_V	173_I	0.748	1.00
213_D	216_E	0.746	1.00
3_F	8_V	0.745	1.00
176_I	180_L	0.744	1.00
156_R	165_S	0.740	1.00
138_S	142_I	0.738	1.00
155_G	162_R	0.734	1.00
22_N	46_V	0.732	1.00
212_D	215_L	0.730	1.00
92_S	101_F	0.730	1.00
110_T	114_Y	0.723	1.00
112_N	125_V	0.723	1.00
7_V	10_L	0.723	1.00
1_L	4_L	0.723	1.00
26_N	30_E	0.723	1.00
80_R	147_S	0.720	1.00
109_K	126_R	0.719	1.00
188_D	193_R	0.713	1.00
42_M	46_V	0.705	1.00
119_P	223_K	0.703	1.00
157_P	160_W	0.702	1.00
93_R	101_F	0.696	0.99
48_L	52_L	0.692	0.99
109_K	215_L	0.691	0.99
91_I	94_M	0.691	0.99
131_L	200_L	0.691	0.99
75_V	79_I	0.689	0.99
53_A	58_F	0.686	0.99
3_F	10_L	0.686	0.99
99_R	214_Q	0.683	0.99
72_F	162_R	0.683	0.99
41_A	45_T	0.682	0.99
81_L	85_L	0.681	0.99
141_L	200_L	0.681	0.99
155_G	165_S	0.680	0.99
13_S	111_I	0.680	0.99
120_L	219_I	0.678	0.99
114_Y	222_L	0.677	0.99
102_Q	213_D	0.674	0.99
146_V	180_L	0.673	0.99
221_A	224_A	0.672	0.99
84_F	148_I	0.671	0.99
146_V	150_V	0.668	0.99
60_L	83_I	0.667	0.99
4_L	8_V	0.664	0.99
57_F	87_Y	0.654	0.99
91_I	100_V	0.653	0.99
80_R	144_M	0.651	0.99
146_V	176_I	0.650	0.99
113_A	121_T	0.648	0.99
109_K	129_S	0.646	0.99
151_F	170_L	0.645	0.99
94_M	97_I	0.644	0.99
192_V	196_S	0.640	0.99
181_I	196_S	0.639	0.99
145_V	149_L	0.633	0.99
109_K	130_T	0.631	0.99
219_I	223_K	0.631	0.99
31_E	34_E	0.630	0.99
60_L	63_L	0.630	0.99
89_W	205_L	0.630	0.99
66_S	159_L	0.628	0.99
188_D	192_V	0.627	0.99
26_N	37_L	0.623	0.99
124_N	128_Y	0.618	0.99
2_P	5_R	0.616	0.99
85_L	205_L	0.616	0.99
112_N	138_S	0.612	0.99
62_L	166_R	0.611	0.99
13_S	182_R	0.611	0.99
1_L	8_V	0.607	0.99
185_G	196_S	0.605	0.99
69_S	73_N	0.601	0.99
25_A	28_A	0.600	0.99
211_D	214_Q	0.600	0.99
58_F	170_L	0.600	0.99
189_N	194_I	0.599	0.98
69_S	157_P	0.596	0.98
138_S	199_G	0.595	0.98
93_R	96_D	0.592	0.98
49_S	52_L	0.592	0.98
159_L	162_R	0.591	0.98
70_L	74_L	0.590	0.98
122_V	128_Y	0.589	0.98
16_L	20_A	0.588	0.98
153_L	157_P	0.587	0.98
114_Y	226_L	0.585	0.98
112_N	222_L	0.584	0.98
144_M	147_S	0.583	0.98
73_N	76_E	0.581	0.98
143_V	147_S	0.580	0.98
222_L	225_V	0.579	0.98
15_V	42_M	0.579	0.98
64_L	68_L	0.578	0.98
60_L	64_L	0.577	0.98
25_A	29_L	0.575	0.98
157_P	162_R	0.574	0.98
182_R	186_R	0.573	0.98
95_K	102_Q	0.572	0.98
63_L	163_I	0.570	0.98
111_I	114_Y	0.565	0.98
119_P	122_V	0.564	0.98
21_L	24_S	0.560	0.98
143_V	174_A	0.558	0.98
23_F	26_N	0.557	0.98
68_L	75_V	0.557	0.98
108_H	135_C	0.557	0.98
72_F	156_R	0.556	0.98
154_L	157_P	0.554	0.98
15_V	18_M	0.554	0.98
111_I	222_L	0.553	0.97
62_L	65_T	0.550	0.97
89_W	208_R	0.549	0.97
14_L	18_M	0.549	0.97
165_S	169_L	0.548	0.97
18_M	50_L	0.548	0.97
134_R	185_G	0.548	0.97
62_L	156_R	0.547	0.97
65_T	166_R	0.546	0.97
149_L	152_S	0.546	0.97
29_L	33_E	0.546	0.97
65_T	76_E	0.544	0.97
177_S	181_I	0.543	0.97
151_F	155_G	0.543	0.97
197_A	204_R	0.541	0.97
26_N	36_K	0.536	0.97
138_S	196_S	0.535	0.97
21_L	100_V	0.531	0.97
69_S	155_G	0.530	0.97
89_W	101_F	0.529	0.97
35_E	40_W	0.528	0.97
52_L	83_I	0.527	0.97
73_N	152_S	0.527	0.97
169_L	173_I	0.520	0.96
104_H	107_E	0.519	0.96
104_H	108_H	0.519	0.96
197_A	200_L	0.517	0.96
184_A	192_V	0.515	0.96
62_L	163_I	0.515	0.96
35_E	39_G	0.514	0.96
150_V	169_L	0.514	0.96
53_A	87_Y	0.513	0.96
72_F	76_E	0.511	0.96
30_E	33_E	0.510	0.96
74_L	149_L	0.510	0.96
58_F	80_R	0.510	0.96
73_N	166_R	0.508	0.96
133_P	185_G	0.505	0.96
183_L	195_L	0.505	0.96
45_T	48_L	0.503	0.96
36_K	39_G	0.503	0.96
116_A	130_T	0.500	0.96

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
3zdmA	4	0.1894	6.6	0.961	Contact Map
4gofA	2	0.1674	5.5	0.963	Contact Map
4k5yA	1	0.3921	3.8	0.965	Contact Map
3j1zP	8	0.8414	3.6	0.965	Contact Map
3r84A	2	0.2335	3.2	0.967	Contact Map
3bijA	5	0.2687	3.1	0.967	Contact Map
4qr2A	2	0.2467	2.6	0.968	Contact Map
2m20A	2	0.2511	2.2	0.969	Contact Map
4p6vB	1	0.3568	2.2	0.969	Contact Map
3fxdA	1	0.0837	2.1	0.97	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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