DUF1264 - PFAM28P - GREMLIN Contacts

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DUF1264 - Protein of unknown function (DUF1264)

PFAM:	PF06884	Sequences: FAPLKAINAYLCGFHFYKGDPGRQMEAHHYCSHLNEDFAQCVIYDGNTPDARLIGVEYIISEKLFETLPEEEKKLWHSHNYEVKSGQLVAPTPSGIPEAAEKALMKKLVNTYGKTWHTWQTDRGDKLPLGEPQLMMSFTRDGQADPELVAARDKRFGVSTAEKREARADI	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	170 (166)
Sequences:	1206 (741)
Seq/√Len:	57.5
META:	0.65

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
165_E	168_A	3.917	1.00
62_E	66_E	3.384	1.00
60_I	64_L	3.250	1.00
37_D	63_K	3.009	1.00
153_D	160_T	2.968	1.00
150_A	154_K	2.967	1.00
102_K	169_D	2.947	1.00
31_C	41_C	2.806	1.00
10_Y	47_N	2.760	1.00
81_Y	141_D	2.567	1.00
159_S	162_E	2.515	1.00
89_V	158_V	2.496	1.00
42_V	53_L	2.285	1.00
4_L	7_I	2.182	1.00
90_A	104_L	2.153	1.00
75_L	131_E	2.151	1.00
84_K	109_V	2.146	1.00
26_E	155_R	2.105	1.00
116_W	134_L	2.086	1.00
151_A	155_R	2.003	1.00
162_E	165_E	1.996	1.00
56_V	118_T	1.996	1.00
14_F	26_E	1.926	1.00
146_P	150_A	1.853	1.00
147_E	150_A	1.773	0.99
144_A	149_V	1.771	0.99
70_E	73_K	1.771	0.99
152_R	160_T	1.631	0.99
89_V	156_F	1.629	0.99
60_I	68_L	1.620	0.99
23_R	120_Q	1.606	0.99
24_Q	145_D	1.579	0.98
17_Y	23_R	1.576	0.98
15_H	117_H	1.561	0.98
36_E	107_K	1.551	0.98
10_Y	28_H	1.512	0.98
141_D	164_R	1.512	0.98
8_N	12_C	1.425	0.97
2_A	6_A	1.402	0.97
7_I	44_Y	1.402	0.97
59_I	111_T	1.399	0.97
103_A	106_K	1.398	0.97
162_E	166_A	1.397	0.97
83_V	105_M	1.394	0.97
4_L	44_Y	1.384	0.96
108_L	135_M	1.364	0.96
78_S	136_M	1.358	0.96
62_E	110_N	1.356	0.96
17_Y	135_M	1.335	0.96
144_A	148_L	1.331	0.95
54_I	135_M	1.327	0.95
139_T	143_Q	1.308	0.95
102_K	106_K	1.295	0.95
14_F	152_R	1.294	0.95
82_E	117_H	1.291	0.95
19_G	133_Q	1.289	0.95
108_L	111_T	1.288	0.95
90_A	105_M	1.257	0.94
16_F	137_S	1.248	0.94
120_Q	123_R	1.223	0.93
39_A	108_L	1.170	0.91
140_R	143_Q	1.159	0.91
163_K	166_A	1.142	0.90
97_P	100_A	1.140	0.90
80_N	84_K	1.135	0.90
63_K	67_T	1.125	0.90
126_K	129_L	1.114	0.89
98_E	163_K	1.113	0.89
15_H	29_H	1.108	0.89
78_S	139_T	1.082	0.88
150_A	161_A	1.066	0.87
149_V	153_D	1.041	0.86
33_H	39_A	1.035	0.85
34_L	38_F	1.035	0.85
67_T	73_K	1.027	0.85
145_D	150_A	1.018	0.84
46_G	51_A	1.016	0.84
83_V	108_L	1.010	0.84
12_C	16_F	1.007	0.84
15_H	82_E	1.005	0.83
2_A	5_K	0.997	0.83
79_H	113_G	0.995	0.83
98_E	102_K	0.993	0.83
6_A	49_P	0.987	0.82
5_K	8_N	0.978	0.82
100_A	103_A	0.973	0.81
67_T	126_K	0.970	0.81
102_K	166_A	0.942	0.79
59_I	108_L	0.941	0.79
12_C	28_H	0.935	0.79
103_A	107_K	0.930	0.78
80_N	109_V	0.928	0.78
44_Y	48_T	0.928	0.78
80_N	110_N	0.916	0.77
49_P	56_V	0.913	0.77
82_E	88_L	0.905	0.76
9_A	33_H	0.904	0.76
62_E	112_Y	0.898	0.76
24_Q	148_L	0.897	0.76
20_D	23_R	0.896	0.76
106_K	169_D	0.890	0.75
27_A	43_I	0.884	0.75
41_C	116_W	0.866	0.73
146_P	149_V	0.862	0.73
11_L	104_L	0.860	0.73
7_I	42_V	0.858	0.73
37_D	67_T	0.825	0.70
154_K	157_G	0.822	0.69
23_R	123_R	0.820	0.69
120_Q	125_D	0.804	0.68
66_E	73_K	0.804	0.68
66_E	70_E	0.803	0.67
158_V	163_K	0.800	0.67
23_R	122_D	0.798	0.67
147_E	151_A	0.796	0.67
9_A	104_L	0.795	0.67
79_H	82_E	0.791	0.66
107_K	127_L	0.788	0.66
118_T	125_D	0.785	0.66
120_Q	135_M	0.783	0.65
17_Y	54_I	0.778	0.65
160_T	163_K	0.771	0.64
36_E	63_K	0.769	0.64
154_K	165_E	0.764	0.64
24_Q	138_F	0.758	0.63
138_F	145_D	0.755	0.63
149_V	152_R	0.755	0.63
71_E	74_K	0.747	0.62
118_T	124_G	0.745	0.62
18_K	75_L	0.736	0.61
18_K	25_M	0.734	0.60
7_I	32_S	0.734	0.60
11_L	14_F	0.732	0.60
29_H	79_H	0.728	0.60
27_A	137_S	0.725	0.60
27_A	118_T	0.723	0.59
18_K	78_S	0.722	0.59
89_V	152_R	0.721	0.59
32_S	52_R	0.718	0.59
44_Y	95_G	0.718	0.59
18_K	136_M	0.714	0.58
50_D	74_K	0.713	0.58
99_A	103_A	0.709	0.58
35_N	63_K	0.707	0.58
71_E	154_K	0.704	0.57
35_N	127_L	0.703	0.57
18_K	21_P	0.703	0.57
38_F	127_L	0.697	0.57
37_D	64_L	0.687	0.55
82_E	137_S	0.687	0.55
9_A	12_C	0.686	0.55
46_G	121_T	0.682	0.55
64_L	127_L	0.681	0.55
151_A	154_K	0.678	0.54
47_N	156_F	0.678	0.54
36_E	97_P	0.677	0.54
98_E	166_A	0.673	0.54
43_I	115_T	0.671	0.54
43_I	54_I	0.669	0.53
72_E	114_K	0.665	0.53
90_A	100_A	0.663	0.53
12_C	26_E	0.662	0.53
35_N	121_T	0.659	0.52
15_H	27_A	0.658	0.52
75_L	110_N	0.657	0.52
74_K	131_E	0.650	0.51
15_H	88_L	0.649	0.51
149_V	160_T	0.649	0.51
153_D	159_S	0.649	0.51
125_D	129_L	0.647	0.51
37_D	61_S	0.643	0.51
17_Y	43_I	0.640	0.50
15_H	79_H	0.639	0.50
23_R	121_T	0.637	0.50
111_T	136_M	0.628	0.49
27_A	117_H	0.627	0.49
13_G	26_E	0.626	0.49
120_Q	133_Q	0.622	0.48
23_R	54_I	0.621	0.48
15_H	31_C	0.619	0.48
131_E	136_M	0.617	0.48
43_I	117_H	0.617	0.48
32_S	44_Y	0.616	0.48
6_A	42_V	0.616	0.48
41_C	87_Q	0.611	0.47
84_K	170_I	0.606	0.47
54_I	122_D	0.606	0.47
30_Y	47_N	0.598	0.46
120_Q	124_G	0.598	0.46
87_Q	144_A	0.597	0.46
97_P	102_K	0.596	0.45
88_L	117_H	0.595	0.45
98_E	157_G	0.594	0.45
25_M	120_Q	0.594	0.45
99_A	163_K	0.593	0.45
11_L	108_L	0.592	0.45
13_G	115_T	0.590	0.45
89_V	105_M	0.588	0.45
20_D	32_S	0.588	0.45
16_F	136_M	0.585	0.44
23_R	30_Y	0.583	0.44
78_S	109_V	0.582	0.44
44_Y	133_Q	0.582	0.44
32_S	43_I	0.580	0.44
97_P	101_E	0.578	0.43
68_L	129_L	0.577	0.43
27_A	82_E	0.576	0.43
23_R	125_D	0.574	0.43
81_Y	87_Q	0.567	0.42
90_A	101_E	0.565	0.42
75_L	78_S	0.564	0.42
7_I	23_R	0.564	0.42
39_A	59_I	0.563	0.42
29_H	117_H	0.556	0.41
14_F	148_L	0.555	0.41
29_H	82_E	0.551	0.41
6_A	9_A	0.550	0.40
53_L	144_A	0.548	0.40
10_Y	156_F	0.547	0.40
2_A	48_T	0.547	0.40
11_L	39_A	0.545	0.40
49_P	74_K	0.543	0.40
102_K	105_M	0.541	0.40
83_V	164_R	0.538	0.39
56_V	123_R	0.537	0.39
20_D	71_E	0.536	0.39
54_I	123_R	0.528	0.38
58_Y	118_T	0.528	0.38
31_C	88_L	0.525	0.38
35_N	64_L	0.524	0.38
66_E	169_D	0.522	0.38
126_K	157_G	0.521	0.37
146_P	168_A	0.520	0.37
20_D	81_Y	0.520	0.37
11_L	19_G	0.518	0.37
25_M	121_T	0.517	0.37
32_S	151_A	0.517	0.37
26_E	83_V	0.517	0.37
12_C	155_R	0.517	0.37
16_F	21_P	0.514	0.37
39_A	80_N	0.514	0.37
166_A	169_D	0.513	0.37
78_S	84_K	0.512	0.37
142_G	146_P	0.511	0.36
136_M	139_T	0.511	0.36
19_G	22_G	0.511	0.36
129_L	134_L	0.501	0.35
121_T	125_D	0.501	0.35
17_Y	122_D	0.500	0.35

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
3zdfC	1	0.1353	14.1	0.963	Contact Map
2y38A	1	0.7118	10	0.966	Contact Map
3b1jC	1	0.1294	9.6	0.966	Contact Map
2lj9A	1	0.1294	7.1	0.968	Contact Map
3qv1G	1	0.1235	6.3	0.969	Contact Map
1s99A	2	0.4353	5.1	0.97	Contact Map
1oaoA	2	0.3294	4.9	0.97	Contact Map
3b5mA	2	0.3824	4.9	0.97	Contact Map
2c43A	1	0.6529	4.4	0.971	Contact Map
1aabA	1	0.4529	4	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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