SpoIIIAC - PFAM28P - GREMLIN Contacts

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SpoIIIAC - Stage III sporulation protein AC/AD protein family

PFAM:	PF06686	Sequences: ILKIAGIGIIAAFLAQILKDAGPEEIALLIELAGKIIILLLALPIISALFETIKSL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	56 (56)
Sequences:	7095 (4600)
Seq/√Len:	614.7
META:	0.833

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
11_A	34_G	6.177	1.00
19_K	24_E	4.133	1.00
4_I	38_I	2.068	1.00
22_G	25_E	1.973	1.00
16_Q	28_L	1.696	1.00
48_A	51_E	1.663	1.00
45_I	48_A	1.610	1.00
47_S	51_E	1.564	1.00
14_L	30_I	1.512	1.00
15_A	31_E	1.508	1.00
8_G	38_I	1.479	1.00
5_A	9_I	1.367	1.00
44_P	47_S	1.357	1.00
26_I	29_L	1.296	1.00
11_A	30_I	1.266	1.00
12_A	16_Q	1.260	1.00
7_I	34_G	1.235	1.00
33_A	37_I	1.225	1.00
44_P	48_A	1.223	1.00
18_L	30_I	1.211	1.00
48_A	52_T	1.210	1.00
42_A	45_I	1.172	1.00
9_I	13_F	1.165	1.00
7_I	41_L	1.164	1.00
20_D	25_E	1.158	1.00
15_A	19_K	1.136	1.00
51_E	54_K	1.105	1.00
36_I	40_L	1.084	1.00
15_A	27_A	1.079	1.00
16_Q	24_E	1.074	1.00
18_L	23_P	1.072	1.00
51_E	55_S	1.029	1.00
5_A	8_G	1.013	1.00
35_K	38_I	1.005	1.00
37_I	41_L	0.954	1.00
43_L	47_S	0.929	1.00
52_T	55_S	0.911	1.00
26_I	30_I	0.908	1.00
24_E	28_L	0.860	1.00
2_L	6_G	0.798	1.00
29_L	33_A	0.765	1.00
16_Q	19_K	0.731	1.00
41_L	44_P	0.720	1.00
19_K	31_E	0.706	1.00
13_F	32_L	0.688	1.00
28_L	32_L	0.677	1.00
44_P	52_T	0.675	1.00
27_A	30_I	0.672	1.00
41_L	45_I	0.666	1.00
12_A	28_L	0.666	1.00
45_I	52_T	0.652	1.00
33_A	36_I	0.645	1.00
28_L	31_E	0.632	1.00
46_I	50_F	0.621	1.00
2_L	50_F	0.619	1.00
12_A	15_A	0.617	1.00
17_I	21_A	0.609	1.00
15_A	30_I	0.609	1.00
26_I	52_T	0.599	1.00
37_I	40_L	0.593	1.00
35_K	49_L	0.592	1.00
11_A	15_A	0.592	1.00
3_K	41_L	0.587	1.00
47_S	54_K	0.587	1.00
8_G	31_E	0.586	1.00
32_L	36_I	0.577	1.00
34_G	38_I	0.575	1.00
50_F	54_K	0.573	1.00
5_A	14_L	0.571	1.00
45_I	55_S	0.567	1.00
6_G	9_I	0.556	1.00
4_I	41_L	0.553	1.00
35_K	39_L	0.549	0.99
12_A	35_K	0.548	0.99
4_I	49_L	0.535	0.99
20_D	31_E	0.527	0.99
1_I	21_A	0.525	0.99
16_Q	23_P	0.521	0.99
2_L	44_P	0.517	0.99
39_L	46_I	0.516	0.99
26_I	38_I	0.515	0.99
13_F	29_L	0.515	0.99
12_A	38_I	0.504	0.99
3_K	33_A	0.500	0.99

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
4uisB	1	0.6071	3.8	0.802	Contact Map
4dx5A	3	0.9821	2.7	0.815	Contact Map
3w9iA	3	0.9821	2.5	0.819	Contact Map
3ne5A	3	0.9821	2.4	0.821	Contact Map
4mt1A	3	0.9821	2.3	0.822	Contact Map
5a63B	1	0.4643	2.2	0.824	Contact Map
4k0jA	3	0.9107	1.7	0.835	Contact Map
2ww8A	1	0	1.7	0.836	Contact Map
3aqpA	1	0.9643	1.6	0.837	Contact Map
4bwzA	2	0.9643	1.6	0.838	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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