DUF2617 - PFAM28P - GREMLIN Contacts

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DUF2617 - Protein of unknown function DUF2617

PFAM:	PF10936	Sequences: LTTLDVPYADTSAADLALALGAELFEILASRRVERGGYEATLRITGAGHVVTWRAGGGTLTEVVACAPGPLRRLPDRVECRGVRYQFSFQVETLSPELFWAVHQELLADAAKRPGGLLHRFPGSPGALTALDVEARPRSLLVQTFHTFPDEGAIVKTQSLW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	161 (136)
Sequences:	1375 (932)
Seq/√Len:	79.9
META:	0.793

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
23_E	26_E	4.068	1.00
68_P	71_L	3.885	1.00
40_A	140_L	3.516	1.00
42_L	131_L	3.397	1.00
75_P	78_V	3.367	1.00
23_E	27_I	3.359	1.00
34_E	39_E	3.297	1.00
44_I	119_H	3.252	1.00
24_L	27_I	2.718	1.00
123_G	126_G	2.455	1.00
76_D	80_C	2.369	1.00
43_R	50_V	2.352	1.00
63_V	68_P	2.260	1.00
128_L	147_T	2.175	1.00
116_G	121_F	2.139	1.00
64_V	68_P	1.917	1.00
48_G	148_F	1.898	1.00
75_P	80_C	1.812	1.00
66_C	71_L	1.793	1.00
48_G	129_T	1.769	1.00
86_Q	158_Q	1.735	1.00
44_I	121_F	1.692	1.00
67_A	70_P	1.628	1.00
48_G	146_H	1.618	1.00
51_V	142_V	1.558	1.00
67_A	71_L	1.552	0.99
63_V	66_C	1.545	0.99
37_G	56_G	1.505	0.99
76_D	79_E	1.460	0.99
54_R	59_T	1.455	0.99
131_L	144_T	1.454	0.99
127_A	149_P	1.441	0.99
94_L	105_E	1.438	0.99
39_E	54_R	1.427	0.99
35_R	38_Y	1.400	0.99
63_V	67_A	1.399	0.99
126_G	129_T	1.397	0.99
40_A	51_V	1.385	0.99
32_R	41_T	1.362	0.99
75_P	81_R	1.339	0.98
129_T	146_H	1.272	0.98
64_V	69_G	1.245	0.98
134_E	141_L	1.238	0.97
147_T	154_I	1.234	0.97
34_E	37_G	1.173	0.96
78_V	81_R	1.167	0.96
40_A	133_V	1.153	0.96
86_Q	160_L	1.139	0.96
52_T	59_T	1.129	0.96
119_H	122_P	1.128	0.96
139_S	160_L	1.126	0.96
92_E	105_E	1.116	0.95
30_S	41_T	1.114	0.95
103_H	128_L	1.093	0.95
106_L	144_T	1.089	0.95
32_R	39_E	1.086	0.95
29_A	117_L	1.066	0.94
93_T	117_L	1.039	0.93
28_L	46_G	1.026	0.93
58_G	61_T	1.019	0.92
63_V	71_L	1.016	0.92
98_L	109_D	0.992	0.91
113_R	132_D	0.992	0.91
58_G	62_E	0.973	0.91
42_L	133_V	0.948	0.89
46_G	129_T	0.946	0.89
76_D	81_R	0.937	0.89
101_A	104_Q	0.931	0.89
133_V	157_T	0.923	0.88
98_L	101_A	0.918	0.88
132_D	157_T	0.909	0.87
92_E	102_V	0.902	0.87
63_V	70_P	0.894	0.87
142_V	145_F	0.889	0.86
92_E	134_E	0.887	0.86
46_G	144_T	0.883	0.86
27_I	43_R	0.882	0.86
144_T	148_F	0.867	0.85
136_R	139_S	0.864	0.85
46_G	148_F	0.864	0.85
37_G	42_L	0.862	0.84
96_P	121_F	0.862	0.84
50_V	63_V	0.850	0.84
44_I	48_G	0.850	0.84
55_A	58_G	0.850	0.84
67_A	150_D	0.847	0.83
105_E	109_D	0.836	0.83
141_L	158_Q	0.831	0.82
95_S	98_L	0.826	0.82
84_R	131_L	0.824	0.82
135_A	139_S	0.821	0.81
46_G	51_V	0.776	0.78
92_E	156_K	0.766	0.77
31_R	117_L	0.752	0.75
144_T	159_S	0.752	0.75
46_G	66_C	0.747	0.75
43_R	69_G	0.747	0.75
84_R	107_L	0.746	0.75
105_E	108_A	0.744	0.75
107_L	120_R	0.740	0.74
25_F	65_A	0.736	0.74
129_T	144_T	0.735	0.74
72_R	82_G	0.717	0.72
38_Y	140_L	0.715	0.72
66_C	129_T	0.709	0.71
127_A	130_A	0.708	0.71
43_R	52_T	0.706	0.71
94_L	98_L	0.702	0.70
103_H	127_A	0.702	0.70
23_E	28_L	0.699	0.70
48_G	121_F	0.698	0.70
65_A	159_S	0.697	0.70
49_H	62_E	0.696	0.70
24_L	92_E	0.696	0.70
42_L	140_L	0.691	0.69
104_Q	108_A	0.691	0.69
58_G	72_R	0.689	0.69
28_L	122_P	0.685	0.68
104_Q	155_V	0.683	0.68
138_R	148_F	0.683	0.68
45_T	129_T	0.683	0.68
130_A	157_T	0.680	0.68
53_W	142_V	0.678	0.68
66_C	69_G	0.673	0.67
30_S	56_G	0.673	0.67
106_L	116_G	0.668	0.67
28_L	94_L	0.666	0.66
51_V	137_P	0.666	0.66
24_L	140_L	0.662	0.66
64_V	70_P	0.657	0.65
33_V	40_A	0.650	0.64
74_L	159_S	0.650	0.64
27_I	128_L	0.649	0.64
113_R	136_R	0.649	0.64
156_K	160_L	0.648	0.64
73_R	158_Q	0.648	0.64
40_A	143_Q	0.647	0.64
91_V	96_P	0.646	0.64
90_Q	98_L	0.645	0.64
92_E	155_V	0.644	0.64
122_P	138_R	0.644	0.64
129_T	148_F	0.638	0.63
41_T	104_Q	0.636	0.63
119_H	142_V	0.635	0.63
64_V	85_Y	0.633	0.62
98_L	102_V	0.629	0.62
96_P	141_L	0.626	0.62
65_A	122_P	0.625	0.61
27_I	30_S	0.623	0.61
34_E	112_K	0.622	0.61
49_H	146_H	0.620	0.61
138_R	155_V	0.617	0.60
96_P	100_W	0.615	0.60
95_S	102_V	0.612	0.60
77_R	80_C	0.601	0.58
33_V	95_S	0.598	0.58
59_T	62_E	0.594	0.58
86_Q	104_Q	0.593	0.57
134_E	158_Q	0.592	0.57
121_F	148_F	0.592	0.57
28_L	40_A	0.590	0.57
122_P	157_T	0.588	0.57
65_A	70_P	0.586	0.57
75_P	84_R	0.577	0.55
148_F	155_V	0.576	0.55
64_V	87_F	0.576	0.55
123_G	127_A	0.575	0.55
25_F	50_V	0.574	0.55
43_R	67_A	0.571	0.55
53_W	87_F	0.569	0.54
111_A	117_L	0.566	0.54
48_G	66_C	0.552	0.52
46_G	121_F	0.551	0.52
88_S	98_L	0.549	0.52
107_L	111_A	0.548	0.52
118_L	121_F	0.545	0.51
117_L	121_F	0.544	0.51
127_A	145_F	0.542	0.51
143_Q	154_I	0.541	0.51
43_R	102_V	0.540	0.51
32_R	120_R	0.539	0.50
132_D	141_L	0.535	0.50
47_A	148_F	0.535	0.50
88_S	140_L	0.533	0.50
38_Y	121_F	0.533	0.50
40_A	59_T	0.532	0.50
42_L	81_R	0.531	0.49
37_G	55_A	0.529	0.49
150_D	153_A	0.528	0.49
64_V	71_L	0.526	0.49
45_T	145_F	0.526	0.49
102_V	105_E	0.522	0.48
36_G	157_T	0.520	0.48
102_V	107_L	0.520	0.48
135_A	140_L	0.519	0.48
130_A	154_I	0.516	0.47
29_A	159_S	0.513	0.47
57_G	78_V	0.511	0.47
89_F	157_T	0.507	0.46
88_S	158_Q	0.503	0.46
62_E	146_H	0.501	0.46
29_A	140_L	0.501	0.46
59_T	83_V	0.500	0.45
41_T	58_G	0.500	0.45

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
4jzaA	2	0.5714	11.1	0.935	Contact Map
3nwoA	1	0.4224	5.3	0.944	Contact Map
1ehyA	1	0.4161	5.2	0.944	Contact Map
2pujA	4	0.4348	4.8	0.945	Contact Map
2xmzA	1	0.4037	4.7	0.945	Contact Map
4batA	2	0.4161	4.4	0.946	Contact Map
2wueA	4	0.3851	4.3	0.946	Contact Map
3wmrA	1	0.3975	4.2	0.947	Contact Map
1mtzA	1	0.3975	3.9	0.947	Contact Map
3w06A	1	0.3975	3.8	0.948	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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