Stealth_CR4 - PFAM28P - GREMLIN Contacts

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Stealth_CR4 - Stealth protein CR4, conserved region 4

PFAM:	PF17103	Sequences: DRLLRRRYDFFCLNDNSDPEDEEVAALLRDFLESYFPEPSPFELPPGRRNRFLY	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	54 (45)
Sequences:	2097 (1588)
Seq/√Len:	236.7
META:	0.796

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
31_F	35_Y	3.873	1.00
4_L	34_S	3.006	1.00
29_R	33_E	2.516	1.00
10_F	16_N	1.922	1.00
11_F	36_F	1.805	1.00
25_A	29_R	1.765	1.00
4_L	7_R	1.701	1.00
16_N	24_V	1.616	1.00
6_R	35_Y	1.609	1.00
23_E	27_L	1.568	1.00
24_V	27_L	1.512	1.00
11_F	32_L	1.388	1.00
17_S	24_V	1.321	1.00
10_F	31_F	1.270	1.00
27_L	30_D	1.194	1.00
17_S	25_A	1.106	1.00
3_L	8_Y	1.090	1.00
11_F	35_Y	1.058	1.00
22_E	29_R	1.053	1.00
3_L	14_N	1.049	1.00
12_C	17_S	1.049	1.00
8_Y	18_D	1.010	1.00
13_L	28_L	1.007	1.00
38_E	41_P	0.991	1.00
26_A	30_D	0.973	1.00
28_L	32_L	0.944	1.00
25_A	30_D	0.921	1.00
21_D	27_L	0.918	1.00
30_D	34_S	0.905	1.00
10_F	17_S	0.893	0.99
15_D	36_F	0.853	0.99
39_P	46_P	0.853	0.99
23_E	46_P	0.848	0.99
2_R	8_Y	0.835	0.99
29_R	46_P	0.808	0.99
10_F	24_V	0.806	0.99
4_L	30_D	0.800	0.99
7_R	35_Y	0.790	0.99
9_D	34_S	0.776	0.99
3_L	11_F	0.775	0.99
2_R	6_R	0.761	0.98
2_R	13_L	0.728	0.98
2_R	5_R	0.721	0.98
22_E	25_A	0.708	0.97
12_C	28_L	0.703	0.97
30_D	44_L	0.703	0.97
39_P	45_P	0.670	0.96
32_L	36_F	0.652	0.96
39_P	44_L	0.634	0.95
12_C	27_L	0.622	0.95
14_N	25_A	0.611	0.94
5_R	23_E	0.599	0.93
3_L	15_D	0.578	0.92
12_C	36_F	0.576	0.92
6_R	15_D	0.569	0.92
10_F	15_D	0.568	0.92
9_D	16_N	0.563	0.91
2_R	11_F	0.563	0.91
10_F	18_D	0.562	0.91
25_A	28_L	0.561	0.91
22_E	26_A	0.558	0.91
16_N	19_P	0.542	0.90
5_R	30_D	0.522	0.88
14_N	40_S	0.521	0.88
22_E	46_P	0.516	0.87
9_D	17_S	0.508	0.86
16_N	38_E	0.505	0.86
8_Y	22_E	0.500	0.85

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
1vphA	4	0.9259	17.5	0.819	Contact Map
2p6hA	3	0.9259	17.1	0.82	Contact Map
1ve0A	3	0.9259	16.5	0.822	Contact Map
1vmhA	3	0.9074	9.1	0.841	Contact Map
2cu5A	3	0.9074	7.6	0.846	Contact Map
2p6cA	3	0.9259	7.2	0.848	Contact Map
4dx8H	1	0.7963	6.7	0.85	Contact Map
3u1wA	3	0.5741	5.7	0.855	Contact Map
1vmfA	3	0.9074	5.5	0.856	Contact Map
1vmjA	4	0.9259	4.8	0.86	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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