LRRC37 - PFAM28P - GREMLIN Contacts

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LRRC37 - Leucine-rich repeat-containing protein 37 family

PFAM:	PF15779	Sequences: VEPSPTQQETPTQPPEPPKEVVAQPPVHHEVTVPPPGQDQAQHPTLPSVTVQPLDLELTITPEPTTEVEHSP	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	72 (71)
Sequences:	884 (665)
Seq/√Len:	78.9
META:	0.007

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
7_Q	10_T	4.449	1.00
7_Q	12_T	3.008	1.00
29_H	35_P	1.993	1.00
5_P	11_P	1.965	1.00
62_P	68_V	1.918	1.00
32_T	35_P	1.832	1.00
19_K	22_V	1.823	1.00
54_L	61_T	1.653	1.00
56_L	65_T	1.588	1.00
21_V	28_H	1.588	1.00
2_E	6_T	1.568	1.00
68_V	72_P	1.534	0.99
66_T	69_E	1.506	0.99
38_Q	41_A	1.420	0.99
6_T	10_T	1.408	0.99
11_P	17_P	1.372	0.99
55_D	59_T	1.340	0.98
49_V	63_E	1.329	0.98
57_E	62_P	1.319	0.98
6_T	17_P	1.313	0.98
42_Q	56_L	1.263	0.98
11_P	14_P	1.250	0.97
66_T	70_H	1.210	0.97
6_T	15_P	1.186	0.97
17_P	26_P	1.173	0.96
9_E	12_T	1.165	0.96
32_T	39_D	1.155	0.96
61_T	70_H	1.146	0.96
49_V	53_P	1.138	0.96
65_T	71_S	1.106	0.95
2_E	5_P	1.105	0.95
8_Q	19_K	1.100	0.95
60_I	71_S	1.066	0.94
54_L	57_E	1.057	0.94
50_T	56_L	1.049	0.93
7_Q	28_H	1.047	0.93
39_D	47_P	1.038	0.93
33_V	49_V	1.033	0.93
8_Q	26_P	1.032	0.93
53_P	58_L	1.029	0.93
37_G	51_V	0.971	0.90
44_P	47_P	0.958	0.90
62_P	66_T	0.955	0.89
39_D	48_S	0.955	0.89
51_V	56_L	0.953	0.89
20_E	53_P	0.946	0.89
48_S	57_E	0.940	0.89
57_E	60_I	0.926	0.88
5_P	12_T	0.900	0.87
30_E	41_A	0.887	0.86
22_V	27_V	0.881	0.85
43_H	66_T	0.878	0.85
13_Q	34_P	0.851	0.83
58_L	61_T	0.842	0.83
23_A	31_V	0.839	0.82
25_P	31_V	0.834	0.82
7_Q	35_P	0.824	0.81
42_Q	71_S	0.812	0.80
57_E	69_E	0.809	0.80
26_P	37_G	0.807	0.80
36_P	44_P	0.805	0.80
65_T	72_P	0.796	0.79
38_Q	53_P	0.780	0.78
21_V	40_Q	0.778	0.77
44_P	51_V	0.778	0.77
9_E	18_P	0.769	0.77
44_P	61_T	0.761	0.76
20_E	23_A	0.755	0.75
5_P	15_P	0.755	0.75
25_P	68_V	0.750	0.75
16_E	71_S	0.743	0.74
5_P	30_E	0.735	0.73
19_K	56_L	0.724	0.72
4_S	15_P	0.708	0.70
28_H	38_Q	0.693	0.69
67_E	72_P	0.691	0.69
37_G	47_P	0.683	0.68
58_L	63_E	0.682	0.68
42_Q	50_T	0.664	0.66
43_H	47_P	0.660	0.65
21_V	27_V	0.658	0.65
26_P	41_A	0.654	0.64
47_P	64_P	0.629	0.61
19_K	24_Q	0.624	0.61
6_T	9_E	0.623	0.61
35_P	52_Q	0.618	0.60
13_Q	65_T	0.608	0.59
19_K	27_V	0.606	0.59
24_Q	29_H	0.600	0.58
28_H	34_P	0.597	0.57
17_P	21_V	0.594	0.57
22_V	38_Q	0.594	0.57
45_T	54_L	0.591	0.57
12_T	17_P	0.589	0.56
19_K	33_V	0.577	0.55
50_T	61_T	0.575	0.55
21_V	62_P	0.572	0.54
20_E	59_T	0.571	0.54
42_Q	62_P	0.568	0.54
28_H	33_V	0.568	0.54
56_L	60_I	0.564	0.53
59_T	63_E	0.560	0.53
36_P	55_D	0.558	0.52
3_P	50_T	0.537	0.50
3_P	13_Q	0.519	0.47
32_T	37_G	0.500	0.45

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
5bwxA	2	0.3056	0.8	0.918	Contact Map
4gaaA	2	0.4861	0.8	0.92	Contact Map
4ghuB	1	0.1944	0.7	0.924	Contact Map
4x2uA	1	0.5139	0.6	0.926	Contact Map
2m9xA	1	0.5	0.6	0.927	Contact Map
2k4zA	1	0.5139	0.5	0.93	Contact Map
4qhpA	1	0.5278	0.5	0.93	Contact Map
3c66C	1	0.25	0.5	0.931	Contact Map
4nk6A	2	0.0556	0.5	0.931	Contact Map
3u9wA	1	0.5	0.4	0.934	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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