Nucleoporin_FG - PFAM28P - GREMLIN Contacts

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Nucleoporin_FG - Nucleoporin FG repeat region

PFAM:	PF13634	Sequences: QQQQQQPATGGGLFGNQTATGGGLFGNTTTTAATGGGLFGNSSTQTQTTTGGGLFGNTTQQTTGGGLFGNTNTTQQQQTGGGLFGNTNNQQQQQTGGGLFG	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	101 (96)
Sequences:	4673 (4392)
Seq/√Len:	448.3
META:	0.31

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
70_N	86_N	2.398	1.00
71_T	87_T	2.220	1.00
57_N	70_N	2.201	1.00
28_T	71_T	2.130	1.00
27_N	57_N	2.086	1.00
91_Q	94_Q	1.825	1.00
37_G	66_G	1.792	1.00
24_L	38_L	1.742	1.00
27_N	70_N	1.712	1.00
66_G	82_G	1.625	1.00
57_N	86_N	1.571	1.00
27_N	86_N	1.537	1.00
81_G	97_G	1.534	1.00
72_N	88_N	1.505	1.00
10_G	13_L	1.503	1.00
64_G	67_L	1.494	1.00
28_T	58_T	1.490	1.00
83_L	99_L	1.467	1.00
24_L	27_N	1.464	1.00
58_T	71_T	1.460	1.00
43_S	46_T	1.426	1.00
13_L	54_L	1.390	1.00
58_T	87_T	1.384	1.00
18_T	21_G	1.375	1.00
87_T	90_Q	1.371	1.00
29_T	72_N	1.358	1.00
71_T	74_T	1.358	1.00
36_G	65_G	1.323	1.00
13_L	38_L	1.320	1.00
11_G	36_G	1.273	1.00
34_T	63_T	1.271	1.00
24_L	67_L	1.256	1.00
38_L	67_L	1.241	1.00
11_G	22_G	1.240	1.00
73_T	89_N	1.240	1.00
16_N	19_A	1.237	1.00
13_L	67_L	1.227	1.00
24_L	54_L	1.206	1.00
38_L	54_L	1.203	1.00
65_G	81_G	1.200	1.00
12_G	66_G	1.198	1.00
23_G	37_G	1.187	1.00
17_Q	20_T	1.172	1.00
67_L	99_L	1.168	1.00
21_G	35_G	1.150	1.00
6_Q	9_T	1.144	1.00
19_A	33_A	1.119	1.00
67_L	83_L	1.115	1.00
38_L	83_L	1.114	1.00
64_G	80_G	1.109	1.00
21_G	24_L	1.108	1.00
35_G	38_L	1.104	1.00
13_L	83_L	1.103	1.00
28_T	31_T	1.096	1.00
54_L	67_L	1.087	1.00
72_N	75_Q	1.075	1.00
35_G	80_G	1.071	1.00
80_G	96_G	1.049	1.00
20_T	34_T	1.046	1.00
23_G	82_G	1.045	1.00
18_T	32_A	1.021	1.00
94_Q	97_G	1.011	1.00
27_N	30_T	0.965	1.00
12_G	37_G	0.965	1.00
51_G	54_L	0.957	1.00
12_G	23_G	0.957	1.00
54_L	83_L	0.942	1.00
74_T	90_Q	0.934	1.00
59_T	62_T	0.930	1.00
7_P	10_G	0.925	1.00
35_G	64_G	0.919	1.00
8_A	11_G	0.915	1.00
23_G	66_G	0.913	1.00
47_Q	50_T	0.910	1.00
50_T	54_L	0.895	1.00
30_T	73_T	0.891	1.00
25_F	55_F	0.888	1.00
56_G	85_G	0.878	1.00
75_Q	91_Q	0.874	1.00
28_T	87_T	0.863	1.00
37_G	53_G	0.862	1.00
22_G	36_G	0.853	1.00
14_F	39_F	0.842	1.00
29_T	88_N	0.835	1.00
46_T	49_T	0.829	1.00
31_T	74_T	0.824	1.00
89_N	93_Q	0.820	1.00
53_G	66_G	0.818	1.00
62_T	94_Q	0.813	1.00
37_G	82_G	0.809	1.00
82_G	98_G	0.804	1.00
40_G	69_G	0.801	1.00
96_G	99_L	0.790	1.00
90_Q	93_Q	0.789	1.00
24_L	83_L	0.768	1.00
60_Q	63_T	0.766	1.00
26_G	56_G	0.753	1.00
37_G	98_G	0.737	1.00
22_G	25_F	0.734	1.00
80_G	83_L	0.732	1.00
73_T	76_Q	0.730	1.00
13_L	24_L	0.717	1.00
89_N	92_Q	0.709	1.00
76_Q	92_Q	0.698	1.00
94_Q	98_G	0.678	1.00
66_G	98_G	0.676	1.00
21_G	80_G	0.675	1.00
15_G	69_G	0.674	1.00
15_G	56_G	0.674	1.00
43_S	47_Q	0.670	1.00
22_G	65_G	0.656	1.00
15_G	26_G	0.656	1.00
33_A	62_T	0.642	0.99
69_G	85_G	0.637	0.99
88_N	91_Q	0.628	0.99
44_T	47_Q	0.626	0.99
63_T	95_T	0.626	0.99
76_Q	79_T	0.620	0.99
64_G	96_G	0.617	0.99
40_G	101_G	0.612	0.99
50_T	64_G	0.609	0.99
86_N	89_N	0.608	0.99
16_N	45_Q	0.591	0.99
84_F	88_N	0.586	0.99
61_Q	64_G	0.583	0.99
15_G	40_G	0.583	0.99
26_G	40_G	0.582	0.99
45_Q	48_T	0.579	0.99
54_L	99_L	0.577	0.99
66_G	70_N	0.574	0.99
42_S	45_Q	0.570	0.99
5_Q	8_A	0.562	0.99
53_G	82_G	0.560	0.99
23_G	53_G	0.558	0.99
20_T	63_T	0.547	0.98
72_N	76_Q	0.535	0.98
74_T	77_Q	0.530	0.98
20_T	23_G	0.522	0.98
10_G	64_G	0.521	0.98
19_A	22_G	0.515	0.98
67_L	70_N	0.515	0.98
12_G	82_G	0.510	0.97
90_Q	94_Q	0.507	0.97
36_G	81_G	0.500	0.97

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
4x2oC	1	0.0792	2.3	0.872	Contact Map
4l6yA	2	0	0.9	0.9	Contact Map
2bptB	1	0.1089	0.7	0.905	Contact Map
2ebrA	1	0.1584	0.3	0.93	Contact Map
2c55A	1	0.4059	0.3	0.933	Contact Map
3e1kB	1	0.1386	0.3	0.933	Contact Map
3wyfB	1	0.1683	0.3	0.935	Contact Map
3n56C	1	0.0198	0.3	0.936	Contact Map
3wy9C	1	0.1485	0.3	0.936	Contact Map
1q01A	1	0.1584	0.2	0.936	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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