CBF - PFAM28P - GREMLIN Contacts

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CBF - CBF/Mak21 family

PFAM:	PF03914	Sequences: SLLALNLLFQLLSGQKNLSDRFYRKLYSLLLDPRLLHSSKRALFLRLLDKSLKSDVPAYRVAAFVKRLLQLALHAPPSFALGVLPLISNLLKRHPKLRALLHEHFEDVTEDEERKGDDPYDPEERDPEYSNALASSLWELELLRSHYHPSVATFA	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	155 (146)
Sequences:	1648 (1113)
Seq/√Len:	92.1
META:	0.24

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
22_F	51_S	5.606	1.00
63_A	130_S	5.079	1.00
15_Q	18_L	4.929	1.00
68_L	83_V	3.567	1.00
131_N	134_A	3.409	1.00
66_K	139_E	3.107	1.00
24_R	126_D	2.419	1.00
57_P	128_E	2.309	1.00
30_L	48_L	2.272	1.00
30_L	68_L	2.215	1.00
126_D	129_Y	2.153	1.00
125_R	129_Y	1.940	1.00
77_P	80_A	1.869	1.00
120_Y	132_A	1.748	1.00
132_A	135_S	1.737	1.00
49_D	89_N	1.709	1.00
65_V	97_L	1.702	1.00
65_V	87_I	1.649	1.00
62_A	133_L	1.611	1.00
11_L	15_Q	1.607	1.00
12_L	15_Q	1.566	1.00
48_L	64_F	1.554	1.00
26_L	51_S	1.552	1.00
150_S	154_F	1.541	1.00
59_Y	133_L	1.520	1.00
98_R	101_L	1.517	1.00
29_L	44_F	1.490	1.00
63_A	132_A	1.472	1.00
69_L	137_L	1.472	1.00
69_L	87_I	1.472	1.00
70_Q	120_Y	1.455	1.00
3_L	11_L	1.448	1.00
54_S	73_L	1.422	0.99
45_L	48_L	1.400	0.99
67_R	122_P	1.389	0.99
89_N	92_K	1.381	0.99
6_N	43_L	1.357	0.99
59_Y	130_S	1.344	0.99
34_R	44_F	1.331	0.99
66_K	137_L	1.328	0.99
9_F	54_S	1.318	0.99
45_L	82_G	1.315	0.99
130_S	141_E	1.315	0.99
30_L	71_L	1.298	0.99
10_Q	14_G	1.287	0.99
124_E	129_Y	1.277	0.99
79_F	83_V	1.254	0.99
121_D	130_S	1.251	0.99
144_R	148_H	1.246	0.98
67_R	70_Q	1.217	0.98
88_S	154_F	1.214	0.98
120_Y	130_S	1.169	0.98
109_T	112_E	1.159	0.98
59_Y	128_E	1.143	0.97
52_L	56_V	1.136	0.97
81_L	150_S	1.128	0.97
77_P	148_H	1.126	0.97
146_H	151_V	1.088	0.96
109_T	115_K	1.045	0.95
84_L	155_A	1.035	0.95
5_L	8_L	1.034	0.95
55_D	60_R	1.030	0.95
42_A	45_L	1.030	0.95
88_S	92_K	1.027	0.95
23_Y	47_L	1.010	0.95
72_A	83_V	1.003	0.94
84_L	143_L	1.000	0.94
30_L	35_L	0.986	0.94
124_E	130_S	0.986	0.94
53_K	89_N	0.984	0.94
58_A	96_K	0.973	0.93
40_K	45_L	0.968	0.93
86_L	89_N	0.966	0.93
121_D	125_R	0.965	0.93
80_A	83_V	0.965	0.93
28_S	125_R	0.961	0.93
39_S	43_L	0.960	0.93
41_R	79_F	0.951	0.93
13_S	48_L	0.933	0.92
108_V	113_E	0.931	0.92
9_F	13_S	0.927	0.92
114_R	117_D	0.924	0.92
90_L	120_Y	0.921	0.91
2_L	5_L	0.913	0.91
67_R	127_P	0.912	0.91
9_F	12_L	0.907	0.91
60_R	127_P	0.896	0.90
49_D	86_L	0.887	0.90
25_K	29_L	0.879	0.89
48_L	82_G	0.852	0.88
51_S	55_D	0.847	0.88
9_F	47_L	0.847	0.88
101_L	140_L	0.842	0.87
46_R	49_D	0.832	0.87
75_A	79_F	0.821	0.86
4_A	8_L	0.818	0.86
117_D	128_E	0.816	0.86
113_E	117_D	0.812	0.85
12_L	96_K	0.801	0.84
3_L	10_Q	0.792	0.84
121_D	124_E	0.790	0.84
2_L	13_S	0.785	0.83
127_P	130_S	0.785	0.83
24_R	124_E	0.783	0.83
9_F	14_G	0.782	0.83
12_L	68_L	0.780	0.83
76_P	136_S	0.778	0.83
8_L	12_L	0.778	0.83
41_R	47_L	0.777	0.83
141_E	144_R	0.777	0.83
26_L	61_V	0.774	0.82
45_L	49_D	0.773	0.82
38_S	41_R	0.770	0.82
65_V	113_E	0.766	0.82
61_V	94_H	0.766	0.82
91_L	101_L	0.763	0.81
35_L	38_S	0.763	0.81
53_K	93_R	0.761	0.81
81_L	151_V	0.759	0.81
30_L	33_P	0.754	0.81
147_Y	151_V	0.752	0.81
24_R	125_R	0.749	0.80
29_L	34_R	0.739	0.79
11_L	76_P	0.737	0.79
2_L	138_W	0.734	0.79
78_S	130_S	0.731	0.79
25_K	146_H	0.726	0.78
75_A	83_V	0.723	0.78
28_S	145_S	0.723	0.78
5_L	52_L	0.722	0.78
50_K	61_V	0.719	0.77
72_A	154_F	0.717	0.77
82_G	149_P	0.715	0.77
6_N	10_Q	0.707	0.76
64_F	136_S	0.704	0.76
72_A	143_L	0.704	0.76
28_S	124_E	0.703	0.76
86_L	90_L	0.702	0.76
54_S	100_L	0.698	0.75
102_H	155_A	0.696	0.75
53_K	56_V	0.694	0.75
49_D	87_I	0.693	0.75
67_R	97_L	0.693	0.75
72_A	80_A	0.690	0.75
64_F	68_L	0.686	0.74
74_H	81_L	0.685	0.74
115_K	118_D	0.684	0.74
51_S	54_S	0.673	0.73
100_L	143_L	0.672	0.73
60_R	82_G	0.665	0.72
71_L	99_A	0.659	0.71
28_S	65_V	0.657	0.71
70_Q	132_A	0.656	0.71
58_A	92_K	0.655	0.71
8_L	15_Q	0.655	0.71
84_L	88_S	0.654	0.71
50_K	55_D	0.651	0.70
22_F	25_K	0.648	0.70
49_D	93_R	0.645	0.70
62_A	76_P	0.645	0.70
52_L	90_L	0.638	0.69
88_S	94_H	0.637	0.69
4_A	7_L	0.636	0.68
57_P	133_L	0.632	0.68
82_G	96_K	0.631	0.68
23_Y	137_L	0.625	0.67
31_L	34_R	0.617	0.66
5_L	150_S	0.615	0.66
21_R	24_R	0.615	0.66
7_L	14_G	0.607	0.65
118_D	134_A	0.607	0.65
66_K	136_S	0.605	0.65
5_L	23_Y	0.605	0.65
69_L	101_L	0.604	0.64
91_L	137_L	0.596	0.63
9_F	15_Q	0.594	0.63
13_S	140_L	0.593	0.63
42_A	46_R	0.587	0.62
9_F	17_N	0.585	0.62
22_F	26_L	0.585	0.62
67_R	72_A	0.583	0.62
21_R	25_K	0.581	0.62
21_R	125_R	0.580	0.61
17_N	113_E	0.577	0.61
109_T	113_E	0.570	0.60
45_L	83_V	0.568	0.60
47_L	69_L	0.567	0.60
37_H	150_S	0.561	0.59
60_R	148_H	0.560	0.59
44_F	47_L	0.560	0.59
77_P	147_Y	0.557	0.58
30_L	148_H	0.555	0.58
131_N	139_E	0.555	0.58
62_A	94_H	0.553	0.58
60_R	70_Q	0.549	0.57
47_L	55_D	0.548	0.57
11_L	119_P	0.545	0.57
48_L	96_K	0.544	0.57
34_R	38_S	0.534	0.55
80_A	87_I	0.533	0.55
152_A	155_A	0.533	0.55
150_S	153_T	0.532	0.55
90_L	96_K	0.528	0.54
69_L	140_L	0.527	0.54
24_R	35_L	0.525	0.54
116_G	119_P	0.524	0.54
3_L	146_H	0.523	0.54
112_E	115_K	0.522	0.53
9_F	72_A	0.521	0.53
37_H	52_L	0.517	0.53
46_R	81_L	0.516	0.53
98_R	102_H	0.516	0.53
120_Y	129_Y	0.509	0.52
76_P	131_N	0.506	0.51
11_L	42_A	0.505	0.51
108_V	116_G	0.503	0.51
63_A	128_E	0.500	0.50
21_R	60_R	0.500	0.50
38_S	83_V	0.500	0.50

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
4pjwA	1	0.8516	22	0.922	Contact Map
1dgwX	1	0.2452	8.7	0.935	Contact Map
1b3uA	1	0.6839	8.1	0.936	Contact Map
4uvkA	1	0.8645	7.6	0.937	Contact Map
5a1uE	1	0.8968	4.2	0.944	Contact Map
4uqiB	1	0.7742	3.5	0.946	Contact Map
4l7mA	1	0.7484	3.5	0.946	Contact Map
2nppB	1	0.7935	3.4	0.946	Contact Map
4p6zG	1	0.8839	3.4	0.946	Contact Map
3tjzB	1	0.5355	3.1	0.947	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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