Frag1 - PFAM28P - GREMLIN Contacts

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Frag1 - Frag1/DRAM/Sfk1 family

PFAM:	PF10277	Sequences: YFWLLPLILALLPLAALLACYIIAVALGHVKPVSNHYGYPFPYISDIGAYPPESCIFRIGIALTAFLRLLLVYLRYLRLRPLGSRSERVLNKLALVLGLIGALGLILLANFQSTDHHDVHDIGAILFFVGGLLYMLLQTALSYRLGPHYEHPILRKSFRLRLILALLAFILLILFIVFFIQHNVHCGPGAYSVAAIFEWILAFSFILFFLTFALDFRK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	218 (213)
Sequences:	1739 (1280)
Seq/√Len:	87.7
META:	0.305

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_L	123_G	4.532	1.00
44_I	202_A	4.491	1.00
104_G	123_G	3.684	1.00
16_A	60_G	3.550	1.00
157_S	161_R	3.499	1.00
43_Y	46_D	3.374	1.00
29_H	53_E	3.182	1.00
16_A	20_C	3.165	1.00
104_G	130_G	2.802	1.00
174_L	197_F	2.654	1.00
10_A	210_L	2.600	1.00
104_G	126_L	2.511	1.00
43_Y	194_A	2.467	1.00
62_A	110_N	2.420	1.00
112_Q	115_D	2.369	1.00
136_L	169_F	2.364	1.00
20_C	24_A	2.093	1.00
48_G	57_F	2.090	1.00
178_F	193_V	2.073	1.00
21_Y	25_V	2.035	1.00
76_Y	92_K	1.994	1.00
92_K	96_V	1.978	1.00
58_R	62_A	1.960	1.00
48_G	199_W	1.955	1.00
210_L	213_A	1.926	1.00
105_L	108_L	1.917	1.00
177_V	181_Q	1.893	1.00
22_I	26_A	1.877	1.00
117_H	121_D	1.816	1.00
158_F	162_L	1.724	1.00
105_L	127_F	1.719	1.00
19_A	23_I	1.694	1.00
166_L	170_I	1.683	1.00
20_C	47_I	1.641	1.00
21_Y	29_H	1.612	1.00
79_L	83_G	1.595	1.00
42_P	120_H	1.594	1.00
37_Y	40_P	1.584	1.00
155_R	159_R	1.576	1.00
24_A	30_V	1.574	1.00
46_D	113_S	1.552	1.00
124_A	128_F	1.537	1.00
27_L	53_E	1.528	1.00
120_H	124_A	1.523	1.00
69_L	99_L	1.514	1.00
81_P	84_S	1.499	1.00
84_S	87_E	1.470	0.99
111_F	116_H	1.460	0.99
41_F	195_A	1.452	0.99
53_E	112_Q	1.415	0.99
72_V	98_G	1.412	0.99
159_R	163_I	1.400	0.99
94_A	137_L	1.396	0.99
112_Q	116_H	1.332	0.99
154_L	157_S	1.281	0.99
59_I	110_N	1.275	0.98
161_R	215_D	1.271	0.98
4_L	7_L	1.257	0.98
68_R	101_G	1.251	0.98
205_F	209_F	1.250	0.98
42_P	45_S	1.224	0.98
161_R	175_F	1.222	0.98
51_P	54_S	1.220	0.98
55_C	112_Q	1.217	0.98
13_P	20_C	1.213	0.98
74_L	78_R	1.204	0.98
167_L	200_I	1.190	0.98
62_A	106_I	1.188	0.98
108_L	124_A	1.183	0.97
57_F	110_N	1.173	0.97
119_V	123_G	1.142	0.97
23_I	56_I	1.140	0.97
68_R	102_A	1.117	0.96
121_D	124_A	1.106	0.96
95_L	216_F	1.104	0.96
47_I	57_F	1.103	0.96
35_N	39_Y	1.100	0.96
59_I	106_I	1.095	0.96
45_S	198_E	1.095	0.96
213_A	217_R	1.092	0.96
108_L	112_Q	1.071	0.95
42_P	47_I	1.068	0.95
47_I	53_E	1.067	0.95
143_Y	158_F	1.067	0.95
138_Q	208_F	1.064	0.95
35_N	40_P	1.052	0.95
43_Y	113_S	1.050	0.95
100_I	130_G	1.049	0.95
95_L	99_L	1.048	0.95
79_L	86_S	1.047	0.95
51_P	55_C	1.043	0.95
162_L	166_L	1.037	0.95
28_G	31_K	1.036	0.95
52_P	55_C	1.031	0.94
130_G	135_M	1.026	0.94
122_I	126_L	1.024	0.94
14_L	206_I	1.014	0.94
75_R	138_Q	1.012	0.94
21_Y	199_W	1.011	0.94
201_L	205_F	1.008	0.94
17_L	20_C	1.005	0.94
121_D	125_I	1.001	0.94
7_L	11_L	0.999	0.93
44_I	58_R	0.988	0.93
36_H	40_P	0.987	0.93
63_L	67_L	0.982	0.93
47_I	54_S	0.972	0.92
79_L	82_L	0.969	0.92
9_L	13_P	0.966	0.92
4_L	8_I	0.964	0.92
100_I	122_I	0.956	0.92
75_R	212_F	0.952	0.92
126_L	130_G	0.952	0.92
83_G	87_E	0.949	0.92
208_F	216_F	0.948	0.92
23_I	26_A	0.943	0.91
90_L	140_A	0.942	0.91
118_D	122_I	0.936	0.91
32_P	41_F	0.929	0.91
63_L	78_R	0.926	0.91
123_G	127_F	0.924	0.90
191_Y	194_A	0.921	0.90
43_Y	58_R	0.911	0.90
14_L	18_L	0.909	0.90
57_F	61_I	0.908	0.90
58_R	112_Q	0.904	0.89
117_H	179_F	0.903	0.89
195_A	208_F	0.902	0.89
143_Y	159_R	0.895	0.89
97_L	210_L	0.894	0.89
80_R	156_K	0.889	0.89
157_S	171_L	0.888	0.89
58_R	63_L	0.885	0.88
193_V	196_I	0.884	0.88
93_L	97_L	0.883	0.88
206_I	210_L	0.881	0.88
50_Y	114_T	0.871	0.88
93_L	96_V	0.870	0.88
143_Y	148_H	0.869	0.88
75_R	78_R	0.868	0.88
90_L	137_L	0.861	0.87
43_Y	191_Y	0.861	0.87
111_F	205_F	0.861	0.87
166_L	173_I	0.859	0.87
72_V	78_R	0.852	0.87
13_P	17_L	0.844	0.86
124_A	194_A	0.844	0.86
14_L	203_F	0.840	0.86
135_M	208_F	0.835	0.85
190_A	197_F	0.834	0.85
207_L	210_L	0.833	0.85
24_A	29_H	0.827	0.85
158_F	161_R	0.827	0.85
46_D	49_A	0.827	0.85
16_A	59_I	0.826	0.85
113_S	117_H	0.826	0.85
57_F	199_W	0.823	0.85
69_L	103_L	0.815	0.84
32_P	35_N	0.805	0.83
193_V	197_F	0.802	0.83
81_P	85_R	0.801	0.83
212_F	216_F	0.795	0.82
6_P	10_A	0.787	0.82
107_L	111_F	0.787	0.82
34_S	37_Y	0.779	0.81
43_Y	124_A	0.778	0.81
46_D	58_R	0.777	0.81
90_L	152_P	0.776	0.81
155_R	158_F	0.775	0.81
192_S	195_A	0.771	0.81
151_H	155_R	0.767	0.80
28_G	53_E	0.764	0.80
57_F	60_G	0.764	0.80
139_T	162_L	0.763	0.80
42_P	195_A	0.758	0.79
93_L	100_I	0.757	0.79
97_L	133_L	0.757	0.79
57_F	98_G	0.755	0.79
185_H	200_I	0.750	0.79
157_S	160_L	0.748	0.78
28_G	122_I	0.744	0.78
84_S	118_D	0.740	0.78
214_L	217_R	0.740	0.78
57_F	128_F	0.733	0.77
209_F	212_F	0.730	0.77
120_H	195_A	0.729	0.77
96_V	100_I	0.727	0.76
65_A	106_I	0.727	0.76
198_E	201_L	0.727	0.76
188_P	191_Y	0.723	0.76
98_G	102_A	0.723	0.76
6_P	13_P	0.721	0.76
43_Y	49_A	0.718	0.76
108_L	120_H	0.715	0.75
203_F	207_L	0.711	0.75
48_G	113_S	0.710	0.75
136_L	140_A	0.708	0.75
58_R	110_N	0.703	0.74
9_L	12_L	0.701	0.74
22_I	28_G	0.698	0.74
101_G	209_F	0.697	0.73
3_W	12_L	0.696	0.73
64_T	209_F	0.693	0.73
21_Y	42_P	0.690	0.73
91_N	95_L	0.689	0.73
119_V	122_I	0.688	0.72
163_I	166_L	0.687	0.72
157_S	165_A	0.687	0.72
187_G	190_A	0.686	0.72
95_L	98_G	0.685	0.72
82_L	85_R	0.682	0.72
103_L	119_V	0.679	0.71
167_L	170_I	0.674	0.71
5_L	144_R	0.674	0.71
18_L	203_F	0.673	0.71
165_A	168_A	0.673	0.71
59_I	63_L	0.671	0.71
43_Y	179_F	0.668	0.70
43_Y	195_A	0.665	0.70
86_S	97_L	0.661	0.69
29_H	32_P	0.661	0.69
157_S	164_L	0.661	0.69
142_S	161_R	0.655	0.69
22_I	25_V	0.654	0.69
168_A	172_L	0.648	0.68
174_L	178_F	0.648	0.68
48_G	54_S	0.645	0.68
25_V	29_H	0.642	0.67
45_S	216_F	0.642	0.67
22_I	166_L	0.640	0.67
178_F	197_F	0.639	0.67
57_F	194_A	0.639	0.67
170_I	177_V	0.637	0.67
157_S	162_L	0.634	0.66
175_F	179_F	0.634	0.66
12_L	16_A	0.632	0.66
159_R	162_L	0.631	0.66
167_L	171_L	0.629	0.66
138_Q	141_L	0.628	0.66
156_K	163_I	0.625	0.65
142_S	146_G	0.625	0.65
197_F	201_L	0.623	0.65
28_G	44_I	0.616	0.64
111_F	208_F	0.615	0.64
23_I	53_E	0.611	0.63
28_G	34_S	0.611	0.63
53_E	57_F	0.606	0.63
142_S	158_F	0.605	0.63
42_P	161_R	0.604	0.63
154_L	161_R	0.604	0.63
48_G	123_G	0.604	0.63
97_L	130_G	0.603	0.62
83_G	164_L	0.603	0.62
34_S	38_G	0.602	0.62
171_L	197_F	0.600	0.62
108_L	127_F	0.599	0.62
22_I	210_L	0.599	0.62
18_L	63_L	0.592	0.61
18_L	22_I	0.590	0.61
18_L	26_A	0.589	0.61
124_A	205_F	0.589	0.61
22_I	30_V	0.585	0.60
45_S	111_F	0.579	0.59
84_S	159_R	0.578	0.59
129_V	170_I	0.578	0.59
80_R	84_S	0.578	0.59
191_Y	198_E	0.575	0.59
194_A	199_W	0.573	0.59
113_S	191_Y	0.571	0.58
68_R	205_F	0.569	0.58
12_L	15_A	0.568	0.58
203_F	213_A	0.568	0.58
156_K	160_L	0.566	0.58
79_L	138_Q	0.565	0.57
55_C	105_L	0.562	0.57
169_F	174_L	0.560	0.57
69_L	190_A	0.559	0.57
157_S	200_I	0.558	0.57
66_F	106_I	0.558	0.57
198_E	202_A	0.558	0.57
133_L	137_L	0.558	0.57
80_R	93_L	0.557	0.56
112_Q	131_G	0.553	0.56
55_C	111_F	0.552	0.56
127_F	205_F	0.552	0.56
170_I	180_I	0.551	0.56
9_L	66_F	0.548	0.55
73_Y	90_L	0.548	0.55
104_G	208_F	0.547	0.55
83_G	89_V	0.539	0.54
17_L	47_I	0.539	0.54
93_L	137_L	0.538	0.54
129_V	176_I	0.538	0.54
7_L	213_A	0.538	0.54
11_L	99_L	0.537	0.54
48_G	61_I	0.536	0.54
82_L	99_L	0.536	0.54
36_H	39_Y	0.532	0.53
108_L	195_A	0.531	0.53
71_L	216_F	0.529	0.53
162_L	165_A	0.529	0.53
47_I	56_I	0.527	0.52
194_A	209_F	0.526	0.52
64_T	102_A	0.523	0.52
6_P	48_G	0.519	0.51
112_Q	117_H	0.518	0.51
202_A	206_I	0.516	0.51
113_S	124_A	0.514	0.51
140_A	155_R	0.513	0.50
97_L	211_T	0.512	0.50
35_N	38_G	0.512	0.50
20_C	132_L	0.509	0.50
152_P	167_L	0.505	0.49
177_V	180_I	0.505	0.49
129_V	139_T	0.504	0.49
104_G	108_L	0.504	0.49
51_P	60_G	0.503	0.49
68_R	179_F	0.503	0.49
13_P	24_A	0.502	0.49
10_A	31_K	0.500	0.49

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
4aw6A	2	0.7936	4.7	0.935	Contact Map
3j2wE	1	0.211	4	0.937	Contact Map
2mmuA	1	0.2202	4	0.937	Contact Map
4zwjA	1	0.9954	3.4	0.939	Contact Map
3m73A	3	0.5826	2.7	0.942	Contact Map
4xp4A	1	0.9312	2.5	0.943	Contact Map
2z73A	2	0.9862	2.4	0.943	Contact Map
3pjzA	2	0.8486	2.1	0.945	Contact Map
3rqwA	4	0.4587	1.9	0.947	Contact Map
2wswA	3	0.4541	1.7	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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