SOXS - ECOLI - GREMLIN Contacts

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

SOXS - Regulatory protein SoxS

UniProt:	P0A9E2	Sequences: MSHQKIIQDLIAWIDEHIDQPLNIDVVAKKSGYSKWYLQRMFRTVTHQTLGDYIRQRRLLLAAVELRTTERPIFDIAMDLGYVSQQTFSRVFRRQFDRTPSDYRHRL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10958
Length:	107 (100)
Sequences:	33184 (25988)
Seq/√Len:	2598.8

ECOLI - SOXS ROB MELR RCLR YPDC RHAR YDIP YQHC YKGA YIJO YIDL CHBR EUTR RHAS ARAC MARA XYLR GADX YEAM APPY ENVY GADW ADIY YBCM FEAR YDEO ADA
BACSU - YTDP YESS BTR ADAA YDEE YDEC YISR YOBQ YBFI YFIF YESN YBFP

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
63_A	96_F	3.003	1.00
48_Q	56_Q	2.629	1.00
71_R	79_D	2.382	1.00
15_D	57_R	2.302	1.00
25_D	35_K	2.119	1.00
56_Q	95_Q	1.975	1.00
62_A	88_F	1.972	1.00
13_W	17_H	1.957	1.00
10_L	38_L	1.953	1.00
61_L	64_V	1.949	1.00
92_F	103_Y	1.878	1.00
65_E	79_D	1.822	1.00
11_I	46_T	1.750	1.00
59_L	96_F	1.705	1.00
23_N	26_V	1.629	1.00
85_Q	89_S	1.629	1.00
65_E	80_L	1.612	1.00
42_F	53_Y	1.578	1.00
17_H	20_Q	1.557	1.00
71_R	75_D	1.545	1.00
13_W	30_K	1.484	1.00
18_I	57_R	1.471	1.00
91_V	94_R	1.452	1.00
57_R	61_L	1.407	1.00
36_W	40_R	1.390	1.00
64_V	68_T	1.379	1.00
27_V	50_L	1.371	1.00
37_Y	41_M	1.357	1.00
51_G	55_R	1.346	1.00
14_I	54_I	1.324	1.00
48_Q	52_D	1.314	1.00
72_P	75_D	1.296	1.00
35_K	39_Q	1.296	1.00
65_E	71_R	1.239	1.00
87_T	91_V	1.236	1.00
57_R	60_L	1.234	1.00
11_I	15_D	1.232	1.00
55_R	91_V	1.216	1.00
74_F	85_Q	1.212	1.00
63_A	103_Y	1.193	1.00
74_F	78_M	1.151	1.00
33_Y	37_Y	1.136	1.00
39_Q	50_L	1.120	1.00
59_L	95_Q	1.105	1.00
66_L	73_I	1.096	1.00
75_D	78_M	1.089	1.00
12_A	16_E	1.073	1.00
26_V	30_K	1.072	1.00
13_W	22_L	1.068	1.00
41_M	45_V	1.065	1.00
56_Q	60_L	1.061	1.00
37_Y	40_R	1.059	1.00
10_L	31_S	1.034	1.00
61_L	65_E	1.026	1.00
98_R	102_D	1.015	1.00
75_D	79_D	1.002	1.00
38_L	50_L	1.002	1.00
18_I	61_L	0.999	1.00
49_T	52_D	0.983	1.00
101_S	105_H	0.973	1.00
55_R	94_R	0.965	1.00
69_T	104_R	0.965	1.00
86_Q	89_S	0.943	1.00
11_I	42_F	0.940	1.00
6_I	33_Y	0.936	1.00
24_I	39_Q	0.898	1.00
7_I	46_T	0.891	1.00
63_A	67_R	0.881	1.00
61_L	80_L	0.864	1.00
91_V	95_Q	0.854	1.00
99_T	102_D	0.847	1.00
34_S	37_Y	0.846	1.00
71_R	76_I	0.845	1.00
101_S	104_R	0.844	1.00
33_Y	38_L	0.839	1.00
82_Y	91_V	0.838	1.00
19_D	79_D	0.830	1.00
36_W	39_Q	0.830	1.00
41_M	44_T	0.825	1.00
11_I	53_Y	0.821	1.00
14_I	50_L	0.815	1.00
50_L	54_I	0.802	1.00
42_F	50_L	0.800	1.00
9_D	31_S	0.791	1.00
6_I	41_M	0.786	1.00
60_L	63_A	0.780	1.00
25_D	29_K	0.778	1.00
18_I	54_I	0.777	1.00
52_D	56_Q	0.774	1.00
58_R	80_L	0.770	1.00
6_I	31_S	0.760	1.00
14_I	57_R	0.759	1.00
22_L	27_V	0.757	1.00
21_P	83_V	0.749	1.00
93_R	99_T	0.747	1.00
52_D	55_R	0.742	1.00
24_I	50_L	0.735	1.00
55_R	95_Q	0.735	1.00
69_T	76_I	0.731	1.00
89_S	101_S	0.729	1.00
86_Q	90_R	0.723	1.00
89_S	93_R	0.722	1.00
77_A	85_Q	0.702	1.00
28_A	35_K	0.698	1.00
102_D	105_H	0.696	1.00
9_D	12_A	0.696	1.00
26_V	29_K	0.689	1.00
9_D	30_K	0.687	1.00
52_D	95_Q	0.687	1.00
13_W	31_S	0.684	1.00
76_I	80_L	0.679	1.00
66_L	76_I	0.678	1.00
90_R	94_R	0.671	1.00
15_D	53_Y	0.666	1.00
51_G	87_T	0.663	1.00
66_L	104_R	0.659	1.00
7_I	45_V	0.657	1.00
8_Q	12_A	0.655	1.00
10_L	27_V	0.655	1.00
20_Q	26_V	0.651	1.00
62_A	80_L	0.641	1.00
53_Y	57_R	0.638	1.00
17_H	30_K	0.635	1.00
73_I	76_I	0.628	1.00
98_R	103_Y	0.628	1.00
24_I	35_K	0.625	1.00
43_R	49_T	0.608	1.00
84_S	87_T	0.592	1.00
33_Y	41_M	0.592	1.00
31_S	38_L	0.591	1.00
27_V	30_K	0.584	1.00
89_S	99_T	0.581	1.00
19_D	61_L	0.575	1.00
84_S	90_R	0.569	1.00
60_L	96_F	0.565	1.00
24_I	36_W	0.558	1.00
63_A	92_F	0.558	1.00
78_M	83_V	0.557	1.00
7_I	41_M	0.555	1.00
10_L	42_F	0.552	1.00
83_V	87_T	0.541	1.00
48_Q	53_Y	0.537	1.00
96_F	103_Y	0.535	1.00
18_I	22_L	0.524	1.00
42_F	46_T	0.522	1.00
8_Q	11_I	0.521	1.00
6_I	9_D	0.521	1.00
29_K	32_G	0.506	1.00
40_R	44_T	0.502	1.00
87_T	90_R	0.500	1.00

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
3gbgA	1	0.9907	100	0.086	Contact Map
4fe7A	2	1	100	0.139	Contact Map
3w6vA	1	0.972	100	0.144	Contact Map
3oioA	1	1	100	0.146	Contact Map
1bl0A	1	0.9813	100	0.147	Contact Map
3mn2A	1	0.972	100	0.15	Contact Map
3oouA	1	0.972	100	0.16	Contact Map
3lsgA	2	0.9533	99.9	0.164	Contact Map
2k9sA	1	0.9813	99.9	0.164	Contact Map
3mklA	1	0.9907	99.9	0.167	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 0.0062 seconds.