Q9HSS3 - HALSA - GREMLIN Contacts

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Q9HSS3 - Cold shock protein

UniProt:	Q9HSS3	Sequences: MSARRHSTVAMATGEVDFFNDTGGYGFIETEDADEDVFFHMEDVGGPDLEEGQEVEFDIEQADKGPRATNLTRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	74 (61)
Sequences:	1134 (570)
Seq/√Len:	73.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
39_F	71_L	4.144	1.00
58_D	70_N	2.588	1.00
31_E	54_E	2.466	1.00
60_E	69_T	2.452	1.00
56_E	72_T	2.220	1.00
17_D	36_D	2.196	1.00
14_G	68_A	2.030	1.00
14_G	28_I	1.861	1.00
15_E	54_E	1.789	1.00
21_D	50_E	1.679	1.00
30_T	34_D	1.627	0.99
39_F	49_L	1.625	0.99
50_E	53_Q	1.571	0.99
27_F	40_H	1.482	0.99
17_D	23_G	1.436	0.99
62_A	67_R	1.416	0.99
13_T	56_E	1.376	0.98
18_F	23_G	1.365	0.98
28_I	57_F	1.344	0.98
19_F	41_M	1.272	0.97
49_L	55_V	1.258	0.97
16_V	49_L	1.239	0.97
28_I	55_V	1.225	0.96
62_A	65_G	1.221	0.96
30_T	33_A	1.143	0.95
19_F	23_G	1.125	0.94
57_F	68_A	1.065	0.92
15_E	33_A	1.043	0.92
41_M	47_P	1.024	0.91
20_N	38_F	1.023	0.91
18_F	36_D	1.016	0.90
31_E	71_L	0.997	0.90
44_V	47_P	0.973	0.88
12_A	30_T	0.940	0.87
30_T	57_F	0.933	0.86
46_G	52_G	0.867	0.82
45_G	56_E	0.864	0.82
37_V	43_D	0.861	0.81
37_V	44_V	0.857	0.81
21_D	48_D	0.827	0.79
24_G	65_G	0.823	0.78
13_T	54_E	0.799	0.76
43_D	70_N	0.787	0.75
19_F	39_F	0.781	0.75
61_Q	66_P	0.779	0.75
15_E	29_E	0.770	0.74
43_D	57_F	0.766	0.73
59_I	66_P	0.762	0.73
28_I	68_A	0.756	0.72
17_D	71_L	0.746	0.71
12_A	33_A	0.746	0.71
14_G	41_M	0.736	0.70
13_T	32_D	0.731	0.70
14_G	55_V	0.721	0.69
39_F	53_Q	0.719	0.69
27_F	36_D	0.717	0.68
30_T	37_V	0.716	0.68
38_F	53_Q	0.714	0.68
60_E	68_A	0.705	0.67
27_F	38_F	0.693	0.66
53_Q	57_F	0.688	0.65
42_E	58_D	0.674	0.64
25_Y	37_V	0.672	0.63
15_E	34_D	0.666	0.63
24_G	44_V	0.656	0.61
37_V	68_A	0.649	0.61
21_D	57_F	0.649	0.61
60_E	70_N	0.631	0.58
12_A	35_E	0.609	0.56
16_V	43_D	0.603	0.55
15_E	59_I	0.592	0.54
19_F	44_V	0.592	0.54
43_D	47_P	0.591	0.54
42_E	57_F	0.590	0.53
25_Y	40_H	0.586	0.53
33_A	67_R	0.583	0.53
22_T	54_E	0.576	0.52
35_E	67_R	0.563	0.50
23_G	36_D	0.562	0.50
63_D	69_T	0.551	0.49
22_T	51_E	0.549	0.48
32_D	70_N	0.546	0.48
38_F	62_A	0.540	0.47
18_F	39_F	0.537	0.47
24_G	36_D	0.537	0.47
62_A	66_P	0.528	0.46
18_F	24_G	0.527	0.46
19_F	24_G	0.517	0.44
37_V	63_D	0.517	0.44
21_D	35_E	0.510	0.44
22_T	50_E	0.506	0.43
64_K	67_R	0.500	0.42

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
3i2zB	2	0.9189	99.6	0.247	Contact Map
3aqqA	4	1	99.6	0.254	Contact Map
3camA	2	0.8649	99.6	0.264	Contact Map
1h95A	1	0.9595	99.6	0.27	Contact Map
2lssA	1	0.9054	99.6	0.272	Contact Map
2k5nA	1	0.8649	99.6	0.278	Contact Map
1x65A	1	0.9324	99.6	0.28	Contact Map
1c9oA	2	0.8514	99.6	0.281	Contact Map
1g6pA	1	0.8378	99.6	0.283	Contact Map
2lxjA	1	0.8514	99.6	0.285	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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