PrgI - PFAM28P - GREMLIN Contacts

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PrgI - PrgI family protein

PFAM:	PF12666	Sequences: KVPQDITEVEDKIFGPLTLRQFIYLAGGAGIGFLLYFLLPPFLTELAALLAILVALPFAALAFYKINGRPLEKWLLAFIRFLLRPKKRVW	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	90 (86)
Sequences:	10161 (7486)
Seq/√Len:	807.2
META:	0.918

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
33_F	37_F	3.080	1.00
49_L	53_L	2.898	1.00
53_L	57_P	2.609	1.00
47_A	51_A	2.451	1.00
69_R	73_K	2.426	1.00
78_F	82_L	2.231	1.00
28_G	58_F	2.157	1.00
76_L	80_R	2.128	1.00
10_E	20_R	2.084	1.00
20_R	72_E	2.046	1.00
81_F	86_K	1.946	1.00
69_R	77_A	1.751	1.00
24_Y	72_E	1.702	1.00
23_I	27_G	1.699	1.00
40_P	43_L	1.694	1.00
60_A	71_L	1.647	1.00
50_L	53_L	1.629	1.00
73_K	76_L	1.607	1.00
60_A	64_Y	1.491	1.00
51_A	55_A	1.469	1.00
32_G	55_A	1.442	1.00
14_F	22_F	1.440	1.00
73_K	77_A	1.360	1.00
80_R	84_R	1.333	1.00
5_D	8_E	1.332	1.00
13_I	22_F	1.323	1.00
74_W	78_F	1.299	1.00
22_F	26_A	1.288	1.00
35_L	54_V	1.284	1.00
84_R	87_K	1.270	1.00
32_G	35_L	1.259	1.00
50_L	54_V	1.220	1.00
70_P	73_K	1.201	1.00
39_L	43_L	1.191	1.00
52_I	56_L	1.185	1.00
74_W	77_A	1.158	1.00
47_A	53_L	1.144	1.00
24_Y	28_G	1.112	1.00
59_A	63_F	1.074	1.00
35_L	39_L	1.072	1.00
82_L	86_K	1.068	1.00
48_A	52_I	1.046	1.00
79_I	83_L	1.046	1.00
18_T	21_Q	1.035	1.00
52_I	55_A	1.030	1.00
48_A	51_A	1.020	1.00
2_V	5_D	1.017	1.00
58_F	61_L	0.984	1.00
58_F	62_A	0.973	1.00
51_A	54_V	0.942	1.00
66_I	74_W	0.939	1.00
29_A	33_F	0.925	1.00
40_P	47_A	0.924	1.00
47_A	57_P	0.923	1.00
37_F	40_P	0.904	1.00
32_G	51_A	0.896	1.00
13_I	19_L	0.878	1.00
54_V	58_F	0.842	1.00
28_G	32_G	0.839	1.00
54_V	57_P	0.817	1.00
72_E	76_L	0.810	1.00
37_F	41_P	0.807	1.00
32_G	58_F	0.806	1.00
47_A	50_L	0.801	1.00
46_L	50_L	0.799	1.00
77_A	81_F	0.791	1.00
7_T	11_D	0.789	1.00
17_L	63_F	0.779	1.00
82_L	85_P	0.778	1.00
69_R	74_W	0.778	1.00
10_E	18_T	0.773	1.00
49_L	52_I	0.770	1.00
2_V	9_V	0.742	1.00
78_F	81_F	0.738	1.00
8_E	12_K	0.736	1.00
35_L	40_P	0.723	1.00
75_L	78_F	0.709	1.00
48_A	54_V	0.699	1.00
3_P	13_I	0.697	1.00
19_L	23_I	0.693	1.00
83_L	86_K	0.690	1.00
10_E	65_K	0.677	1.00
57_P	60_A	0.675	1.00
34_L	37_F	0.675	1.00
48_A	56_L	0.671	1.00
43_L	46_L	0.670	1.00
18_T	22_F	0.669	1.00
59_A	62_A	0.664	1.00
24_Y	61_L	0.659	1.00
71_L	76_L	0.644	1.00
65_K	68_G	0.638	1.00
6_I	11_D	0.636	1.00
56_L	59_A	0.634	1.00
3_P	6_I	0.633	1.00
11_D	19_L	0.627	1.00
72_E	77_A	0.624	1.00
50_L	57_P	0.623	1.00
31_I	35_L	0.622	1.00
36_Y	40_P	0.614	1.00
23_I	30_G	0.610	1.00
25_L	28_G	0.607	1.00
33_F	36_Y	0.604	1.00
57_P	61_L	0.601	1.00
6_I	9_V	0.600	1.00
38_L	41_P	0.597	1.00
24_Y	62_A	0.594	1.00
53_L	56_L	0.581	1.00
5_D	88_R	0.579	1.00
47_A	58_F	0.579	1.00
8_E	11_D	0.570	1.00
39_L	42_F	0.566	1.00
49_L	57_P	0.561	1.00
31_I	34_L	0.559	1.00
17_L	25_L	0.552	1.00
83_L	87_K	0.549	1.00
61_L	64_Y	0.549	1.00
46_L	53_L	0.542	1.00
41_P	47_A	0.540	1.00
47_A	54_V	0.538	1.00
12_K	18_T	0.532	1.00
27_G	30_G	0.525	1.00
26_A	30_G	0.525	1.00
32_G	36_Y	0.524	1.00
61_L	71_L	0.517	1.00
3_P	12_K	0.515	1.00
55_A	59_A	0.514	1.00
64_Y	71_L	0.511	1.00
65_K	70_P	0.509	1.00
29_A	32_G	0.500	1.00

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
3j01B	1	0.8111	10.1	0.865	Contact Map
1pp0A	1	0.4556	4.7	0.884	Contact Map
4qtnA	3	0.8889	4.4	0.886	Contact Map
4qncA	2	0.7333	3.5	0.891	Contact Map
4qndA	2	0.7778	3.3	0.892	Contact Map
4b03D	5	0.5778	3	0.894	Contact Map
2lzpA	1	0.3444	2.8	0.896	Contact Map
3ux2A	2	0.3333	2.8	0.896	Contact Map
2xa0A	1	0.2333	2.8	0.897	Contact Map
4u9nA	2	0.9222	2.4	0.899	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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