SPVIF - BACSU - GREMLIN Contacts

Home
GREMLIN
- Submit - Monomer
- Submit - Complex
Contacts
Metagenomics
- Contacts
- Structures
Structures
- List
Old Projects
- Complexes (2014)
- PFAM (2013)

SPVIF - Sporulation-specific transcription factor SpoVIF

UniProt:	O31625	Sequences: MDNQFFKNIEKKTGVKMQDVMNLAGSLQNANFKDENTVRSVINRVAQMANRRVPKELEDKIVESITSGKEKLDFGTISKMMDNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	84 (81)
Sequences:	153 (106)
Seq/√Len:	11.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
42_I	53_V	4.571	1.00
27_L	41_V	3.687	0.99
63_E	67_S	2.708	0.92
32_F	64_S	2.105	0.78
31_N	82_D	2.072	0.76
20_V	75_G	1.948	0.72
18_Q	22_N	1.938	0.71
23_L	35_E	1.921	0.71
5_F	13_T	1.881	0.69
10_E	80_M	1.851	0.68
31_N	34_D	1.770	0.64
30_A	37_T	1.687	0.60
32_F	38_V	1.682	0.60
36_N	43_N	1.659	0.59
16_K	19_D	1.507	0.51
19_D	40_S	1.459	0.49
34_D	70_E	1.393	0.46
17_M	20_V	1.388	0.45
23_L	45_V	1.333	0.43
39_R	73_D	1.326	0.42
61_I	79_K	1.317	0.42
14_G	81_M	1.313	0.42
28_Q	51_R	1.248	0.39
19_D	49_A	1.247	0.39
27_L	42_I	1.238	0.38
15_V	46_A	1.237	0.38
34_D	37_T	1.211	0.37
38_V	68_G	1.185	0.36
17_M	50_N	1.155	0.34
41_V	64_S	1.151	0.34
59_D	62_V	1.151	0.34
57_L	66_T	1.147	0.34
3_N	13_T	1.140	0.34
9_I	20_V	1.105	0.32
61_I	70_E	1.096	0.32
6_F	28_Q	1.082	0.31
57_L	64_S	1.065	0.31
23_L	80_M	1.046	0.30
39_R	58_E	1.035	0.29
30_A	62_V	1.026	0.29
10_E	14_G	1.019	0.29
19_D	26_S	1.007	0.28
12_K	46_A	0.994	0.28
39_R	59_D	0.968	0.27
56_E	76_T	0.964	0.26
7_K	22_N	0.951	0.26
11_K	46_A	0.949	0.26
10_E	17_M	0.943	0.26
10_E	13_T	0.940	0.26
15_V	45_V	0.933	0.25
23_L	73_D	0.926	0.25
38_V	62_V	0.897	0.24
28_Q	77_I	0.890	0.24
14_G	17_M	0.882	0.23
24_A	31_N	0.875	0.23
57_L	71_K	0.871	0.23
16_K	73_D	0.869	0.23
56_E	65_I	0.864	0.23
43_N	58_E	0.860	0.23
36_N	46_A	0.849	0.22
71_K	81_M	0.828	0.22
5_F	41_V	0.801	0.21
31_N	40_S	0.800	0.21
27_L	37_T	0.796	0.20
55_K	58_E	0.792	0.20
2_D	74_F	0.789	0.20
21_M	66_T	0.784	0.20
48_M	59_D	0.783	0.20
26_S	37_T	0.780	0.20
53_V	64_S	0.770	0.20
30_A	38_V	0.770	0.20
71_K	77_I	0.762	0.19
6_F	10_E	0.745	0.19
38_V	46_A	0.744	0.19
27_L	60_K	0.742	0.19
46_A	52_R	0.737	0.19
2_D	52_R	0.737	0.19
18_Q	71_K	0.734	0.19
68_G	81_M	0.733	0.18
55_K	63_E	0.733	0.18
6_F	33_K	0.730	0.18
13_T	23_L	0.718	0.18
45_V	60_K	0.714	0.18
17_M	81_M	0.707	0.18
34_D	53_V	0.701	0.18
54_P	57_L	0.695	0.17
17_M	38_V	0.683	0.17
59_D	63_E	0.681	0.17
25_G	28_Q	0.681	0.17
14_G	80_M	0.676	0.17
18_Q	72_L	0.674	0.17
31_N	59_D	0.673	0.17
5_F	40_S	0.668	0.17
52_R	63_E	0.661	0.16
26_S	49_A	0.647	0.16
7_K	81_M	0.623	0.15
48_M	72_L	0.616	0.15
45_V	49_A	0.610	0.15
20_V	72_L	0.607	0.15
77_I	81_M	0.602	0.15
46_A	69_K	0.597	0.15
74_F	78_S	0.584	0.14
25_G	72_L	0.563	0.14
13_T	70_E	0.562	0.14
52_R	57_L	0.561	0.14
7_K	14_G	0.560	0.14
3_N	29_N	0.542	0.13
45_V	80_M	0.540	0.13
5_F	9_I	0.537	0.13
36_N	61_I	0.537	0.13
37_T	41_V	0.535	0.13
47_Q	64_S	0.525	0.13
8_N	74_F	0.523	0.13
9_I	22_N	0.520	0.13
56_E	69_K	0.520	0.13
38_V	65_I	0.516	0.13
78_S	82_D	0.509	0.13
31_N	60_K	0.506	0.13
15_V	40_S	0.503	0.13
15_V	48_M	0.501	0.13
23_L	42_I	0.501	0.13
18_Q	74_F	0.500	0.12

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
3d23B	4	0.5714	21.2	0.913	Contact Map
2ynaA	2	0.6071	19.7	0.914	Contact Map
3tntA	2	0.6071	18.5	0.916	Contact Map
3tloA	2	0.5952	15.9	0.918	Contact Map
1lvoA	5	0.5952	15.6	0.918	Contact Map
2q6fA	2	0.5476	10.7	0.924	Contact Map
2h9aB	1	0.9286	10.2	0.925	Contact Map
2lnbA	1	0.5595	10	0.925	Contact Map
2grcA	1	0.6786	9.3	0.926	Contact Map
1h67A	1	0.5833	8.5	0.927	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.

Page generated in 0.0048 seconds.