RUTC - ECOLI - GREMLIN Contacts

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RUTC - Putative aminoacrylate peracid reductase RutC

UniProt:	P0AFQ5	Sequences: MPKSVIIPAGSSAPLAPFVPGTLADGVVYVSGTLAFDQHNNVLFADDPKAQTRHVLETIRKVIETAGGTMADVTFNSIFITDWKNYAAINEIYAEFFPGDKPARFCIQCGLVKPDALVEIATIAHIAK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13857
Length:	128 (116)
Sequences:	7438 (4611)
Seq/√Len:	428.1

ECOLI - RUTC TDCF RIDA YJGH YOAB
BACSU - RIDA
HALSA - Q9HNH7
SULSO - Y3206

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
53_R	95_E	3.346	1.00
60_R	70_M	3.107	1.00
68_G	72_D	2.806	1.00
75_F	121_A	2.708	1.00
47_D	50_A	2.651	1.00
49_K	88_A	2.441	1.00
53_R	57_E	2.176	1.00
79_F	107_I	2.113	1.00
49_K	91_E	2.088	1.00
78_I	89_I	1.990	1.00
59_I	122_T	1.978	1.00
57_E	96_F	1.954	1.00
34_L	116_A	1.909	1.00
108_Q	111_L	1.902	1.00
51_Q	117_L	1.870	1.00
60_R	64_E	1.857	1.00
63_I	124_A	1.849	1.00
54_H	58_T	1.736	1.00
53_R	96_F	1.652	1.00
111_L	115_D	1.628	1.00
83_W	108_Q	1.622	1.00
76_N	122_T	1.612	1.00
85_N	117_L	1.611	1.00
28_V	68_G	1.593	1.00
24_A	74_T	1.526	1.00
57_E	60_R	1.497	1.00
48_P	52_T	1.491	1.00
43_L	116_A	1.481	1.00
24_A	125_H	1.475	1.00
69_T	72_D	1.462	1.00
80_I	89_I	1.426	1.00
35_A	116_A	1.402	1.00
54_H	57_E	1.383	1.00
29_Y	123_I	1.372	1.00
23_L	26_G	1.363	1.00
73_V	122_T	1.345	1.00
37_D	40_N	1.307	1.00
80_I	106_C	1.300	1.00
85_N	88_A	1.245	1.00
105_F	121_A	1.240	1.00
88_A	91_E	1.237	1.00
28_V	66_A	1.194	1.00
92_I	95_E	1.185	1.00
32_G	119_E	1.184	1.00
45_A	50_A	1.172	1.00
37_D	44_F	1.155	1.00
23_L	28_V	1.152	1.00
77_S	121_A	1.142	1.00
63_I	68_G	1.133	1.00
79_F	109_C	1.128	1.00
81_T	85_N	1.128	1.00
27_V	125_H	1.124	1.00
30_V	62_V	1.107	1.00
90_N	104_R	1.105	1.00
35_A	55_V	1.105	1.00
53_R	92_I	1.104	1.00
93_Y	104_R	1.102	1.00
23_L	68_G	1.067	1.00
42_V	114_P	1.042	1.00
84_K	111_L	1.040	1.00
81_T	111_L	1.038	1.00
10_G	64_E	1.037	1.00
42_V	45_A	1.008	1.00
98_P	101_K	1.000	1.00
21_G	62_V	0.997	1.00
30_V	122_T	0.984	1.00
82_D	85_N	0.978	1.00
60_R	96_F	0.967	1.00
73_V	97_F	0.967	1.00
11_S	20_P	0.963	1.00
49_K	92_I	0.957	1.00
52_T	89_I	0.952	1.00
27_V	74_T	0.950	1.00
64_E	69_T	0.925	1.00
63_I	73_V	0.920	1.00
79_F	105_F	0.919	1.00
49_K	53_R	0.917	1.00
48_P	89_I	0.911	1.00
70_M	73_V	0.910	1.00
91_E	94_A	0.892	1.00
76_N	93_Y	0.884	1.00
81_T	115_D	0.881	1.00
81_T	117_L	0.870	1.00
33_T	62_V	0.846	1.00
91_E	95_E	0.834	1.00
61_K	64_E	0.833	1.00
37_D	42_V	0.831	1.00
26_G	125_H	0.820	1.00
48_P	85_N	0.809	1.00
35_A	51_Q	0.797	1.00
56_L	96_F	0.784	1.00
86_Y	106_C	0.776	1.00
56_L	70_M	0.773	1.00
70_M	96_F	0.740	1.00
49_K	95_E	0.733	1.00
92_I	96_F	0.726	1.00
38_Q	61_K	0.725	1.00
56_L	120_I	0.721	1.00
73_V	124_A	0.720	1.00
46_D	51_Q	0.719	1.00
48_P	118_V	0.718	1.00
40_N	44_F	0.713	1.00
81_T	109_C	0.707	1.00
38_Q	54_H	0.706	1.00
28_V	124_A	0.697	1.00
76_N	97_F	0.695	1.00
48_P	92_I	0.690	1.00
81_T	110_G	0.688	1.00
50_A	53_R	0.686	1.00
68_G	124_A	0.680	1.00
94_A	101_K	0.674	1.00
36_F	41_N	0.670	1.00
83_W	111_L	0.670	1.00
30_V	59_I	0.668	1.00
21_G	66_A	0.667	1.00
46_D	50_A	0.667	1.00
78_I	104_R	0.665	1.00
10_G	61_K	0.658	0.99
24_A	29_Y	0.657	0.99
71_A	98_P	0.653	0.99
87_A	91_E	0.652	0.99
79_F	121_A	0.648	0.99
52_T	118_V	0.642	0.99
90_N	93_Y	0.637	0.99
21_G	28_V	0.636	0.99
47_D	117_L	0.632	0.99
27_V	123_I	0.629	0.99
77_S	105_F	0.624	0.99
61_K	65_T	0.618	0.99
47_D	88_A	0.618	0.99
37_D	41_N	0.615	0.99
78_I	120_I	0.614	0.99
55_V	120_I	0.612	0.99
48_P	88_A	0.610	0.99
15_L	114_P	0.599	0.99
56_L	93_Y	0.593	0.99
77_S	123_I	0.591	0.99
86_Y	90_N	0.587	0.99
57_E	61_K	0.583	0.99
17_P	90_N	0.583	0.99
44_F	54_H	0.574	0.99
39_H	42_V	0.568	0.98
55_V	118_V	0.558	0.98
80_I	83_W	0.558	0.98
78_I	118_V	0.554	0.98
68_G	125_H	0.551	0.98
75_F	105_F	0.547	0.98
22_T	74_T	0.540	0.98
62_V	65_T	0.539	0.98
63_I	70_M	0.537	0.98
45_A	117_L	0.536	0.98
25_D	125_H	0.535	0.98
81_T	108_Q	0.527	0.98
33_T	59_I	0.526	0.98
18_F	32_G	0.526	0.98
44_F	50_A	0.525	0.97
73_V	76_N	0.524	0.97
112_V	116_A	0.524	0.97
34_L	55_V	0.523	0.97
28_V	62_V	0.522	0.97
63_I	122_T	0.521	0.97
20_P	62_V	0.520	0.97
86_Y	113_K	0.514	0.97
35_A	43_L	0.511	0.97
85_N	108_Q	0.511	0.97
55_V	59_I	0.510	0.97
23_L	66_A	0.508	0.97
33_T	58_T	0.507	0.97
82_D	117_L	0.505	0.97
38_Q	41_N	0.504	0.97
24_A	27_V	0.503	0.97
90_N	94_A	0.502	0.97
15_L	18_F	0.500	0.97
83_W	114_P	0.500	0.97

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
3r0pA	5	0.9844	100	0.116	Contact Map
3m1xA	3	0.9766	100	0.119	Contact Map
1xrgA	3	0.9844	100	0.121	Contact Map
3k0tA	3	0.9688	100	0.122	Contact Map
3v4dA	3	1	100	0.122	Contact Map
1qahA	3	1	100	0.123	Contact Map
2dyyA	3	0.9844	100	0.126	Contact Map
1x25A	3	0.9922	100	0.132	Contact Map
3l7qA	3	0.9688	100	0.141	Contact Map
2b33A	3	0.9844	100	0.147	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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