MAGE_N - PFAM28P - GREMLIN Contacts

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MAGE_N - Melanoma associated antigen family N terminal

PFAM:	PF12440	Sequences: RGQKSKLRAREKRRQARGETQGLEGAQATAAEEEESPSSSSPLSGGTPQSSPAAGTPSTPQSPQGAPSTTTAAAAVSCSRSDEGASSQEEESPS	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	94 (93)
Sequences:	959 (737)
Seq/√Len:	76.4
META:	0.002

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
10_R	13_R	3.345	1.00
3_Q	8_R	2.746	1.00
2_G	5_S	2.437	1.00
5_S	8_R	2.267	1.00
13_R	17_R	2.126	1.00
5_S	13_R	2.092	1.00
6_K	12_K	2.053	1.00
59_T	63_P	2.019	1.00
25_G	49_Q	1.921	1.00
1_R	13_R	1.828	1.00
65_G	74_A	1.795	1.00
6_K	9_A	1.742	1.00
4_K	9_A	1.724	1.00
33_E	60_P	1.702	1.00
61_Q	91_E	1.681	1.00
3_Q	87_S	1.578	0.99
8_R	13_R	1.566	0.99
61_Q	66_A	1.548	0.99
89_E	93_P	1.543	0.99
83_E	87_S	1.496	0.99
45_G	59_T	1.481	0.99
43_L	48_P	1.466	0.99
3_Q	7_L	1.442	0.99
34_E	42_P	1.423	0.99
1_R	10_R	1.361	0.98
2_G	9_A	1.360	0.98
6_K	10_R	1.348	0.98
6_K	17_R	1.341	0.98
7_L	11_E	1.313	0.98
2_G	8_R	1.312	0.98
72_A	79_S	1.297	0.98
9_A	12_K	1.272	0.98
1_R	8_R	1.259	0.97
68_S	93_P	1.252	0.97
35_E	93_P	1.250	0.97
51_S	85_A	1.245	0.97
2_G	10_R	1.235	0.97
61_Q	89_E	1.217	0.97
82_D	91_E	1.215	0.97
83_E	93_P	1.214	0.97
76_V	83_E	1.214	0.97
1_R	6_K	1.199	0.96
49_Q	69_T	1.196	0.96
10_R	21_Q	1.193	0.96
49_Q	83_E	1.166	0.96
23_L	76_V	1.152	0.96
11_E	82_D	1.085	0.94
37_P	43_L	1.076	0.94
11_E	14_R	1.076	0.94
81_S	91_E	1.012	0.91
65_G	68_S	0.987	0.90
72_A	81_S	0.970	0.89
11_E	16_A	0.966	0.89
44_S	60_P	0.956	0.89
78_C	92_S	0.952	0.89
22_G	39_S	0.940	0.88
83_E	86_S	0.940	0.88
6_K	13_R	0.926	0.87
4_K	11_E	0.923	0.87
32_E	40_S	0.922	0.87
82_D	88_Q	0.914	0.86
82_D	93_P	0.903	0.86
8_R	17_R	0.886	0.85
63_P	82_D	0.869	0.84
46_G	54_A	0.862	0.83
44_S	48_P	0.855	0.83
9_A	13_R	0.841	0.81
5_S	10_R	0.840	0.81
62_S	65_G	0.837	0.81
83_E	91_E	0.829	0.81
5_S	9_A	0.823	0.80
37_P	85_A	0.822	0.80
26_A	31_A	0.818	0.80
29_T	36_S	0.815	0.79
42_P	75_A	0.780	0.76
80_R	92_S	0.780	0.76
56_T	77_S	0.765	0.75
22_G	27_Q	0.763	0.75
7_L	16_A	0.758	0.74
69_T	72_A	0.740	0.73
21_Q	37_P	0.734	0.72
29_T	32_E	0.730	0.71
39_S	44_S	0.730	0.71
2_G	6_K	0.723	0.71
74_A	77_S	0.715	0.70
69_T	74_A	0.714	0.70
45_G	91_E	0.711	0.69
83_E	89_E	0.708	0.69
19_E	32_E	0.708	0.69
6_K	30_A	0.705	0.69
78_C	83_E	0.705	0.69
42_P	60_P	0.702	0.69
69_T	88_Q	0.701	0.68
86_S	90_E	0.699	0.68
72_A	86_S	0.693	0.68
21_Q	59_T	0.686	0.67
25_G	30_A	0.682	0.66
9_A	17_R	0.678	0.66
16_A	55_G	0.673	0.65
48_P	70_T	0.673	0.65
16_A	53_A	0.672	0.65
41_S	93_P	0.664	0.64
2_G	13_R	0.664	0.64
50_S	56_T	0.653	0.63
20_T	23_L	0.646	0.62
27_Q	33_E	0.643	0.62
38_S	41_S	0.642	0.62
1_R	12_K	0.636	0.61
77_S	81_S	0.628	0.60
26_A	57_P	0.627	0.60
47_T	80_R	0.626	0.60
46_G	52_P	0.625	0.60
5_S	14_R	0.606	0.57
2_G	11_E	0.602	0.57
20_T	38_S	0.599	0.56
49_Q	75_A	0.590	0.55
70_T	79_S	0.582	0.54
79_S	82_D	0.582	0.54
1_R	4_K	0.579	0.54
18_G	24_E	0.575	0.53
53_A	68_S	0.566	0.52
25_G	57_P	0.566	0.52
19_E	64_Q	0.566	0.52
12_K	52_P	0.565	0.52
32_E	84_G	0.561	0.52
45_G	78_C	0.559	0.51
44_S	80_R	0.552	0.50
20_T	28_A	0.543	0.49
42_P	48_P	0.531	0.48
29_T	66_A	0.530	0.48
34_E	47_T	0.519	0.46
2_G	7_L	0.518	0.46
33_E	92_S	0.513	0.46
46_G	66_A	0.509	0.45
48_P	61_Q	0.509	0.45
5_S	36_S	0.507	0.45
60_P	64_Q	0.505	0.44
30_A	38_S	0.503	0.44
58_S	64_Q	0.500	0.44
65_G	80_R	0.500	0.44

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
1wgsA	1	0.383	1.5	0.921	Contact Map
4gnkB	1	0.5106	1.3	0.924	Contact Map
5a2fA	1	0	1.1	0.927	Contact Map
3quvA	2	0.2234	1	0.93	Contact Map
1onvB	1	0.2234	0.8	0.934	Contact Map
1zxgA	1	0.3298	0.7	0.936	Contact Map
3mi9C	1	0.0106	0.7	0.937	Contact Map
2y96A	3	0.2128	0.7	0.937	Contact Map
3qwoC	1	0.2979	0.7	0.937	Contact Map
4npdA	1	0.3191	0.6	0.938	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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