CD20 - PFAM28P - GREMLIN Contacts

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CD20 - CD20-like family

PFAM:	PF04103	Sequences: VLGVVQILLGLLILALGIILLSVSSSILFYSGYPFWGGLLFIISGSLSIAAEKKPTKCLVQGSLGLNILSALLALAGIILLSISLALLSSYYYCCDSDLDSLPILPTCSCYESSYEEECCSYCYSLKSLLTGILSVLLILSVLELCIALSSSVLGC	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	156 (144)
Sequences:	1098 (792)
Seq/√Len:	66.0
META:	0.026

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
46_S	50_A	4.796	1.00
10_G	38_G	3.629	1.00
10_G	42_I	3.388	1.00
146_C	150_S	3.173	1.00
107_T	110_C	3.088	1.00
1_V	5_V	2.844	1.00
120_C	123_C	2.651	1.00
14_L	38_G	2.574	1.00
135_S	139_I	2.253	1.00
33_Y	37_G	2.170	1.00
105_L	108_C	2.160	1.00
61_Q	65_G	2.040	1.00
144_E	151_S	1.948	1.00
34_P	38_G	1.918	1.00
33_Y	77_G	1.889	1.00
33_Y	41_F	1.862	1.00
9_L	65_G	1.786	1.00
118_E	123_C	1.781	1.00
118_E	121_S	1.771	1.00
33_Y	141_S	1.718	1.00
106_P	109_S	1.713	0.99
82_S	86_A	1.697	0.99
32_G	36_W	1.626	0.99
84_S	130_L	1.623	0.99
119_C	123_C	1.613	0.99
7_I	49_I	1.575	0.99
85_L	138_L	1.560	0.99
17_G	32_G	1.548	0.99
48_S	63_S	1.540	0.99
105_L	109_S	1.523	0.99
38_G	55_P	1.492	0.99
106_P	110_C	1.461	0.98
35_F	70_S	1.424	0.98
10_G	45_G	1.409	0.98
115_Y	118_E	1.358	0.97
149_L	153_V	1.341	0.97
115_Y	119_C	1.335	0.97
40_L	44_S	1.328	0.97
114_S	118_E	1.291	0.96
54_K	74_A	1.278	0.96
79_I	83_I	1.274	0.96
122_Y	125_S	1.261	0.96
50_A	59_L	1.236	0.95
53_K	136_V	1.222	0.95
133_I	140_L	1.218	0.95
119_C	125_S	1.205	0.95
97_S	106_P	1.197	0.95
105_L	110_C	1.191	0.94
6_Q	44_S	1.184	0.94
49_I	63_S	1.176	0.94
37_G	138_L	1.175	0.94
97_S	105_L	1.118	0.92
120_C	125_S	1.082	0.91
42_I	63_S	1.078	0.91
29_F	43_I	1.062	0.90
117_E	122_Y	1.041	0.89
11_L	62_G	1.040	0.89
75_L	135_S	1.038	0.89
97_S	110_C	1.036	0.89
44_S	56_T	1.033	0.89
17_G	34_P	1.028	0.89
35_F	52_E	1.026	0.88
44_S	70_S	1.020	0.88
16_L	20_L	1.018	0.88
112_E	121_S	1.017	0.88
122_Y	126_L	1.017	0.88
73_L	151_S	1.011	0.88
14_L	52_E	0.985	0.86
66_L	151_S	0.980	0.86
131_T	135_S	0.979	0.86
48_S	69_L	0.975	0.86
65_G	143_L	0.971	0.86
67_N	145_L	0.966	0.85
118_E	122_Y	0.963	0.85
78_I	142_V	0.959	0.85
21_L	35_F	0.957	0.85
54_K	69_L	0.938	0.84
106_P	111_Y	0.938	0.84
62_G	65_G	0.936	0.83
9_L	149_L	0.930	0.83
115_Y	121_S	0.928	0.83
5_V	16_L	0.928	0.83
76_A	83_I	0.927	0.83
38_G	81_L	0.925	0.83
74_A	145_L	0.920	0.82
2_L	66_L	0.910	0.82
97_S	109_S	0.908	0.82
13_I	67_N	0.906	0.81
47_L	140_L	0.899	0.81
121_S	125_S	0.898	0.81
117_E	123_C	0.897	0.81
113_S	116_E	0.895	0.81
78_I	113_S	0.887	0.80
64_L	155_G	0.886	0.80
45_G	49_I	0.885	0.80
75_L	86_A	0.881	0.80
73_L	94_C	0.878	0.79
134_L	155_G	0.877	0.79
48_S	52_E	0.864	0.78
14_L	59_L	0.863	0.78
2_L	113_S	0.850	0.77
81_L	141_S	0.850	0.77
121_S	124_Y	0.850	0.77
112_E	115_Y	0.850	0.77
44_S	49_I	0.831	0.75
17_G	36_W	0.823	0.75
110_C	113_S	0.820	0.74
35_F	65_G	0.818	0.74
120_C	124_Y	0.817	0.74
38_G	93_Y	0.810	0.74
4_V	15_A	0.801	0.73
119_C	124_Y	0.800	0.73
15_A	68_I	0.790	0.72
43_I	47_L	0.774	0.70
114_S	124_Y	0.774	0.70
140_L	153_V	0.771	0.70
24_S	29_F	0.769	0.70
38_G	155_G	0.768	0.70
108_C	111_Y	0.754	0.68
105_L	112_E	0.753	0.68
5_V	51_A	0.751	0.68
141_S	147_I	0.748	0.67
8_L	41_F	0.747	0.67
76_A	85_L	0.746	0.67
72_L	76_A	0.746	0.67
6_Q	34_P	0.739	0.67
60_V	155_G	0.734	0.66
48_S	68_I	0.733	0.66
28_L	33_Y	0.731	0.66
69_L	130_L	0.728	0.65
10_G	122_Y	0.726	0.65
9_L	13_I	0.718	0.64
89_S	147_I	0.716	0.64
78_I	82_S	0.714	0.64
70_S	85_L	0.713	0.64
76_A	142_V	0.710	0.63
107_T	111_Y	0.708	0.63
7_I	74_A	0.708	0.63
111_Y	114_S	0.707	0.63
88_L	92_Y	0.696	0.62
75_L	89_S	0.695	0.62
12_L	24_S	0.694	0.62
52_E	81_L	0.691	0.61
54_K	60_V	0.690	0.61
47_L	120_C	0.690	0.61
59_L	145_L	0.690	0.61
4_V	140_L	0.687	0.61
93_Y	124_Y	0.682	0.60
63_S	72_L	0.681	0.60
25_S	130_L	0.680	0.60
48_S	85_L	0.675	0.60
20_L	91_Y	0.675	0.60
119_C	122_Y	0.663	0.58
42_I	46_S	0.662	0.58
137_L	153_V	0.660	0.58
7_I	67_N	0.658	0.58
10_G	139_I	0.657	0.57
20_L	29_F	0.654	0.57
44_S	52_E	0.652	0.57
16_L	24_S	0.652	0.57
56_T	72_L	0.646	0.56
72_L	131_T	0.646	0.56
85_L	148_A	0.644	0.56
115_Y	122_Y	0.642	0.56
89_S	124_Y	0.641	0.56
133_I	137_L	0.637	0.55
13_I	42_I	0.634	0.55
19_I	77_G	0.630	0.54
109_S	117_E	0.628	0.54
66_L	71_A	0.627	0.54
138_L	144_E	0.626	0.54
97_S	108_C	0.616	0.53
49_I	141_S	0.615	0.53
7_I	46_S	0.614	0.52
19_I	147_I	0.612	0.52
78_I	138_L	0.610	0.52
78_I	141_S	0.607	0.52
40_L	85_L	0.605	0.51
67_N	150_S	0.603	0.51
38_G	124_Y	0.600	0.51
49_I	53_K	0.599	0.51
32_G	37_G	0.599	0.51
4_V	13_I	0.593	0.50
5_V	92_Y	0.587	0.49
142_V	146_C	0.586	0.49
130_L	152_S	0.586	0.49
32_G	84_S	0.585	0.49
38_G	54_K	0.585	0.49
86_A	131_T	0.576	0.48
132_G	144_E	0.576	0.48
72_L	80_L	0.568	0.47
52_E	63_S	0.567	0.47
15_A	55_P	0.566	0.47
114_S	122_Y	0.565	0.47
135_S	138_L	0.560	0.46
44_S	63_S	0.555	0.46
84_S	88_L	0.554	0.45
56_T	63_S	0.553	0.45
51_A	60_V	0.544	0.44
28_L	34_P	0.544	0.44
47_L	70_S	0.543	0.44
8_L	11_L	0.541	0.44
55_P	80_L	0.538	0.44
19_I	23_V	0.537	0.43
86_A	94_C	0.536	0.43
150_S	153_V	0.536	0.43
84_S	134_L	0.534	0.43
42_I	53_K	0.531	0.43
136_V	139_I	0.517	0.41
10_G	14_L	0.515	0.41
117_E	120_C	0.514	0.41
20_L	35_F	0.513	0.41
43_I	71_A	0.510	0.40
23_V	73_L	0.505	0.40
90_S	151_S	0.503	0.40
10_G	81_L	0.500	0.39

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
4p79A	1	0.5641	11.7	0.904	Contact Map
3x29A	1	0.5192	10.2	0.906	Contact Map
4o6yA	2	0.5513	6.1	0.916	Contact Map
4ev6A	3	0.3654	5.8	0.916	Contact Map
4i0uA	4	0.3526	5.3	0.918	Contact Map
2i68A	2	0.3846	3.3	0.926	Contact Map
3rvyA	3	0.5321	3.2	0.926	Contact Map
3pjsK	4	0.8141	3.1	0.926	Contact Map
4mqsA	1	0.1987	3.1	0.927	Contact Map
4xesA	1	0.2692	2.9	0.928	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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