DUF1576 - PFAM28P - GREMLIN Contacts

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DUF1576 - Protein of unknown function (DUF1576)

PFAM:	PF07613	Sequences: NKEILKGLKKILKSPGRLITDYIALGGIGATLINMGLLGLISLLLVLLLGGDLNGPTIAGIFTVVGFSAFGKNLLNILPIMLGVYLYALLKKEPFPGYILAALFGTALAPIVGEFAFGLGLPLGIPLGILAGILAGFLHPPLAAHVGKLHGGYNLYNNGFAAGLVATFLVPILRH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	175 (172)
Sequences:	2429 (1727)
Seq/√Len:	131.7
META:	0.847

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
107_A	162_A	5.035	1.00
38_L	77_I	3.804	1.00
42_S	64_V	3.485	1.00
38_L	68_S	3.252	1.00
90_L	137_F	3.171	1.00
8_L	12_L	3.001	1.00
86_L	133_I	2.996	1.00
39_G	65_V	2.799	1.00
80_I	105_G	2.561	1.00
4_I	33_I	2.432	1.00
23_I	28_I	2.406	1.00
84_V	102_A	2.351	1.00
60_G	104_F	2.265	1.00
36_G	40_L	2.198	1.00
20_T	25_L	2.165	1.00
51_G	99_I	2.149	1.00
35_M	65_V	2.144	1.00
105_G	139_H	2.123	1.00
9_K	13_K	2.081	1.00
14_S	26_G	2.069	1.00
11_I	26_G	2.007	1.00
75_L	116_A	1.988	1.00
82_L	133_I	1.955	1.00
31_T	69_A	1.875	1.00
72_K	106_T	1.732	1.00
11_I	30_A	1.719	1.00
22_Y	73_N	1.718	1.00
139_H	158_N	1.693	1.00
10_K	26_G	1.681	1.00
38_L	74_L	1.616	1.00
8_L	33_I	1.592	1.00
42_S	103_L	1.590	1.00
35_M	69_A	1.563	1.00
87_Y	137_F	1.533	1.00
93_E	98_Y	1.528	1.00
146_V	161_A	1.525	1.00
16_G	22_Y	1.496	1.00
143_A	161_A	1.452	1.00
142_L	161_A	1.448	1.00
19_I	70_F	1.447	1.00
42_S	81_M	1.410	1.00
68_S	77_I	1.399	1.00
130_L	134_L	1.366	1.00
145_H	148_K	1.350	1.00
41_I	74_L	1.345	1.00
14_S	20_T	1.335	1.00
44_L	48_L	1.332	1.00
4_I	30_A	1.331	1.00
12_L	74_L	1.327	1.00
38_L	64_V	1.319	1.00
81_M	102_A	1.306	1.00
31_T	35_M	1.304	1.00
56_P	100_L	1.293	1.00
112_V	132_G	1.271	1.00
93_E	97_G	1.270	1.00
46_V	61_I	1.267	1.00
131_A	173_L	1.263	1.00
59_A	104_F	1.256	1.00
98_Y	140_P	1.255	1.00
131_A	134_L	1.240	1.00
116_A	128_G	1.236	1.00
14_S	25_L	1.214	1.00
84_V	105_G	1.209	1.00
7_G	30_A	1.202	0.99
45_L	49_L	1.193	0.99
6_K	10_K	1.184	0.99
8_L	37_L	1.166	0.99
111_I	135_A	1.163	0.99
145_H	149_L	1.158	0.99
46_V	99_I	1.136	0.99
63_T	107_A	1.126	0.99
102_A	105_G	1.112	0.99
23_I	31_T	1.110	0.99
6_K	9_K	1.091	0.99
88_A	98_Y	1.090	0.99
5_L	9_K	1.089	0.99
72_K	103_L	1.086	0.99
101_A	139_H	1.072	0.99
16_G	113_G	1.065	0.99
44_L	47_L	1.048	0.99
4_I	7_G	1.042	0.99
92_K	95_F	1.017	0.98
49_L	99_I	1.012	0.98
10_K	13_K	1.008	0.98
148_K	151_G	0.993	0.98
146_V	164_L	0.978	0.98
40_L	44_L	0.964	0.98
8_L	30_A	0.960	0.97
18_L	70_F	0.954	0.97
142_L	146_V	0.953	0.97
59_A	63_T	0.950	0.97
164_L	167_T	0.946	0.97
67_F	72_K	0.931	0.97
124_G	128_G	0.929	0.97
46_V	57_T	0.923	0.97
115_F	174_R	0.908	0.96
65_V	103_L	0.907	0.96
76_N	113_G	0.899	0.96
57_T	100_L	0.897	0.96
65_V	93_E	0.890	0.96
11_I	14_S	0.887	0.96
82_L	86_L	0.886	0.96
17_R	114_E	0.884	0.96
26_G	30_A	0.872	0.96
121_L	124_G	0.868	0.95
7_G	29_G	0.864	0.95
27_G	30_A	0.863	0.95
28_I	32_L	0.861	0.95
146_V	149_L	0.859	0.95
20_T	70_F	0.855	0.95
68_S	72_K	0.854	0.95
7_G	10_K	0.852	0.95
41_I	78_L	0.849	0.95
120_G	124_G	0.848	0.95
45_L	102_A	0.847	0.95
114_E	167_T	0.840	0.95
59_A	62_F	0.838	0.94
45_L	95_F	0.836	0.94
79_P	129_I	0.825	0.94
87_Y	141_P	0.821	0.94
73_N	113_G	0.819	0.94
145_H	153_Y	0.816	0.94
108_L	162_A	0.811	0.93
52_D	96_P	0.808	0.93
46_V	51_G	0.803	0.93
50_G	94_P	0.801	0.93
73_N	76_N	0.791	0.93
84_V	150_H	0.791	0.93
7_G	27_G	0.783	0.92
108_L	111_I	0.776	0.92
100_L	113_G	0.772	0.92
111_I	166_A	0.768	0.91
93_E	102_A	0.765	0.91
138_L	165_V	0.758	0.91
120_G	123_L	0.757	0.91
62_F	65_V	0.745	0.90
56_P	59_A	0.736	0.90
33_I	37_L	0.735	0.90
145_H	151_G	0.735	0.90
56_P	62_F	0.731	0.89
41_I	77_I	0.726	0.89
116_A	123_L	0.726	0.89
159_G	163_G	0.722	0.89
80_I	106_T	0.720	0.89
12_L	73_N	0.718	0.89
91_K	141_P	0.711	0.88
60_G	103_L	0.706	0.88
145_H	150_H	0.699	0.87
167_T	171_P	0.696	0.87
30_A	33_I	0.696	0.87
8_L	74_L	0.690	0.86
124_G	127_L	0.688	0.86
23_I	32_L	0.687	0.86
49_L	102_A	0.679	0.86
144_A	148_K	0.676	0.85
78_L	81_M	0.673	0.85
39_G	61_I	0.667	0.85
48_L	134_L	0.667	0.85
64_V	72_K	0.666	0.85
79_P	112_V	0.665	0.84
45_L	98_Y	0.665	0.84
85_Y	102_A	0.660	0.84
45_L	81_M	0.659	0.84
115_F	131_A	0.659	0.84
77_I	109_A	0.653	0.83
143_A	158_N	0.652	0.83
62_F	104_F	0.652	0.83
70_F	114_E	0.648	0.83
119_L	123_L	0.648	0.83
85_Y	93_E	0.646	0.83
119_L	126_P	0.641	0.82
63_T	149_L	0.633	0.81
169_L	173_L	0.628	0.81
170_V	174_R	0.625	0.81
123_L	126_P	0.624	0.80
165_V	168_F	0.624	0.80
144_A	153_Y	0.624	0.80
51_G	100_L	0.620	0.80
37_L	74_L	0.619	0.80
111_I	169_L	0.619	0.80
36_G	148_K	0.617	0.80
116_A	125_I	0.613	0.79
9_K	12_L	0.613	0.79
158_N	161_A	0.610	0.79
116_A	120_G	0.609	0.79
63_T	104_F	0.606	0.79
42_S	105_G	0.605	0.78
41_I	81_M	0.605	0.78
114_E	162_A	0.604	0.78
95_F	98_Y	0.602	0.78
113_G	132_G	0.600	0.78
20_T	26_G	0.599	0.78
146_V	150_H	0.598	0.78
78_L	82_L	0.595	0.77
82_L	85_Y	0.594	0.77
125_I	128_G	0.593	0.77
23_I	69_A	0.591	0.77
5_L	8_L	0.590	0.77
42_S	61_I	0.586	0.76
67_F	70_F	0.586	0.76
119_L	124_G	0.584	0.76
46_V	103_L	0.581	0.76
155_L	162_A	0.580	0.75
7_G	26_G	0.569	0.74
43_L	53_L	0.568	0.74
85_Y	88_A	0.567	0.74
102_A	140_P	0.565	0.74
38_L	72_K	0.565	0.74
49_L	100_L	0.562	0.73
116_A	124_G	0.558	0.73
98_Y	144_A	0.555	0.72
51_G	56_P	0.554	0.72
147_G	151_G	0.553	0.72
88_A	102_A	0.551	0.72
60_G	84_V	0.550	0.72
38_L	42_S	0.548	0.71
6_K	86_L	0.546	0.71
95_F	99_I	0.546	0.71
43_L	61_I	0.544	0.71
7_G	94_P	0.542	0.71
167_T	174_R	0.538	0.70
65_V	68_S	0.538	0.70
89_L	92_K	0.538	0.70
79_P	132_G	0.538	0.70
18_L	25_L	0.537	0.70
135_A	169_L	0.536	0.70
72_K	77_I	0.533	0.69
160_F	164_L	0.532	0.69
38_L	103_L	0.532	0.69
85_Y	129_I	0.531	0.69
85_Y	89_L	0.531	0.69
87_Y	140_P	0.531	0.69
11_I	91_K	0.530	0.69
62_F	107_A	0.530	0.69
123_L	127_L	0.526	0.68
27_G	32_L	0.526	0.68
66_G	155_L	0.525	0.68
10_K	25_L	0.525	0.68
13_K	16_G	0.524	0.68
14_S	22_Y	0.523	0.68
86_L	174_R	0.522	0.68
111_I	124_G	0.520	0.67
19_I	24_A	0.519	0.67
5_L	10_K	0.519	0.67
33_I	146_V	0.518	0.67
120_G	126_P	0.516	0.67
122_P	127_L	0.516	0.67
119_L	127_L	0.513	0.66
5_L	130_L	0.510	0.66
112_V	129_I	0.509	0.66
9_K	24_A	0.508	0.66
118_G	121_L	0.506	0.65
118_G	149_L	0.503	0.65
86_L	137_F	0.502	0.65
105_G	150_H	0.501	0.65
83_G	132_G	0.501	0.65
115_F	128_G	0.500	0.64
91_K	98_Y	0.500	0.64

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
4m5bA	1	0.8114	19.2	0.948	Contact Map
2gfpA	2	0.8971	7.4	0.957	Contact Map
3o7qA	1	0.8914	7.2	0.957	Contact Map
4w252	1	0.3257	6.1	0.958	Contact Map
2nwlA	3	0.3143	4.9	0.96	Contact Map
2ww9B	1	0.3143	3.4	0.963	Contact Map
2cfqA	1	0.8914	3.2	0.964	Contact Map
3wdoA	1	0.8857	2.3	0.966	Contact Map
2kluA	1	0.1943	2.1	0.967	Contact Map
4e17B	1	0.1371	2	0.967	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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