YOEC - BACSU - GREMLIN Contacts

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YOEC - Probable integrase/recombinase YoeC

UniProt:	O35009	Sequences: MHIVQPIRSLEKIQEVKQYLLNKNKRDYFLFIFGINSALRISDILPLQVKDVQNKDHLWATESKTKKKRKILILESLKQEIYEYTKDMKENEYLFKSVRTRKPISRIQAYRILREAAAACGLEEIGTHTLRKTFGYHFYQRTKDIAELQRILNHSSPSITMRYIGIDEDTTRAAYKVFGGL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	181 (170)
Sequences:	27924 (21673)
Seq/√Len:	1662.3

ECOLI - FIME FIMB INTF INTR XERC INTQ INTD XERD INTB INTZ INTA INTS INTE
BACSU - YOEC XERC XERD INT YOPP YOMM
HALSA - Q9HR66 Q9HQV5 O52010 Q9HSI7 O54590
SULSO - Q980D9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
135_G	152_L	4.596	1.00
49_V	85_T	3.183	1.00
69_R	153_N	2.944	1.00
134_F	151_I	2.679	1.00
126_G	129_T	2.674	1.00
57_H	78_K	2.281	1.00
34_G	44_I	2.244	1.00
48_Q	103_P	2.212	1.00
34_G	127_T	2.210	1.00
48_Q	93_Y	2.183	1.00
38_A	134_F	2.107	1.00
41_I	128_H	2.051	1.00
146_A	149_Q	2.011	1.00
60_A	70_K	1.961	1.00
132_K	165_G	1.897	1.00
36_N	74_L	1.877	1.00
13_I	35_I	1.808	1.00
29_F	84_Y	1.764	1.00
78_K	82_Y	1.749	1.00
144_D	147_E	1.742	1.00
138_F	143_K	1.707	1.00
73_I	78_K	1.687	1.00
154_H	160_T	1.676	1.00
67_K	155_S	1.673	1.00
139_Y	148_L	1.670	1.00
32_I	80_E	1.641	1.00
146_A	150_R	1.639	1.00
27_D	112_I	1.625	1.00
140_Q	170_T	1.571	1.00
58_L	70_K	1.569	1.00
72_L	151_I	1.566	1.00
152_L	160_T	1.562	1.00
20_L	116_A	1.502	1.00
9_S	12_K	1.478	1.00
43_D	69_R	1.465	1.00
42_S	46_P	1.437	1.00
41_I	45_L	1.408	1.00
13_I	137_H	1.402	1.00
53_Q	56_D	1.401	1.00
10_L	137_H	1.372	1.00
48_Q	51_D	1.370	1.00
35_I	137_H	1.359	1.00
28_Y	32_I	1.340	1.00
138_F	148_L	1.319	1.00
30_L	109_A	1.315	1.00
48_Q	92_E	1.300	1.00
139_Y	164_I	1.296	1.00
149_Q	157_P	1.291	1.00
108_Q	111_R	1.285	1.00
136_Y	165_G	1.274	1.00
39_L	44_I	1.274	1.00
93_Y	103_P	1.255	1.00
54_N	82_Y	1.251	1.00
117_A	125_I	1.238	1.00
112_I	115_E	1.238	1.00
49_V	94_L	1.230	1.00
140_Q	167_D	1.226	1.00
41_I	106_R	1.221	1.00
19_Y	119_A	1.207	1.00
134_F	138_F	1.199	1.00
159_I	162_R	1.194	1.00
36_N	77_L	1.189	1.00
35_I	130_L	1.185	1.00
8_R	133_T	1.178	1.00
10_L	141_R	1.177	1.00
158_S	161_M	1.167	1.00
29_F	80_E	1.158	1.00
51_D	62_E	1.154	1.00
106_R	110_Y	1.147	1.00
8_R	125_I	1.144	1.00
145_I	161_M	1.135	1.00
53_Q	58_L	1.127	1.00
62_E	68_K	1.120	1.00
30_L	44_I	1.119	1.00
107_I	110_Y	1.118	1.00
35_I	133_T	1.112	1.00
157_P	161_M	1.103	1.00
8_R	16_V	1.097	1.00
113_L	117_A	1.095	1.00
12_K	15_E	1.092	1.00
156_S	162_R	1.088	1.00
28_Y	80_E	1.081	1.00
50_K	92_E	1.077	1.00
57_H	75_E	1.075	1.00
147_E	174_A	1.072	1.00
17_K	32_I	1.068	1.00
64_K	67_K	1.066	1.00
36_N	76_S	1.063	1.00
19_Y	120_C	1.061	1.00
137_H	140_Q	1.052	1.00
41_I	110_Y	1.045	1.00
25_K	87_D	1.038	1.00
150_R	171_T	1.033	1.00
133_T	137_H	1.030	1.00
29_F	83_E	1.016	1.00
54_N	78_K	1.016	1.00
15_E	19_Y	1.009	1.00
39_L	61_T	1.000	1.00
20_L	31_F	0.995	1.00
158_S	162_R	0.986	1.00
30_L	95_F	0.982	1.00
105_S	108_Q	0.980	1.00
41_I	109_A	0.979	1.00
110_Y	114_R	0.976	1.00
74_L	77_L	0.951	1.00
63_S	67_K	0.949	1.00
114_R	124_E	0.946	1.00
45_L	109_A	0.946	1.00
47_L	59_W	0.940	1.00
156_S	159_I	0.926	1.00
14_Q	18_Q	0.926	1.00
93_Y	96_K	0.925	1.00
37_S	71_I	0.921	1.00
60_A	68_K	0.918	1.00
50_K	91_N	0.917	1.00
170_T	173_A	0.917	1.00
110_Y	127_T	0.907	1.00
75_E	79_Q	0.907	1.00
62_E	66_K	0.898	1.00
7_I	133_T	0.888	1.00
115_E	119_A	0.888	1.00
16_V	31_F	0.885	1.00
97_S	102_K	0.878	1.00
46_P	103_P	0.877	1.00
146_A	161_M	0.872	1.00
63_S	69_R	0.869	1.00
10_L	14_Q	0.865	1.00
32_I	76_S	0.861	1.00
151_I	171_T	0.858	1.00
116_A	119_A	0.857	1.00
33_F	95_F	0.843	1.00
134_F	152_L	0.842	1.00
108_Q	112_I	0.838	1.00
77_L	80_E	0.834	1.00
113_L	130_L	0.833	1.00
149_Q	160_T	0.831	1.00
6_P	129_T	0.826	1.00
19_Y	116_A	0.815	1.00
10_L	140_Q	0.810	1.00
83_E	87_D	0.806	1.00
8_R	12_K	0.802	1.00
43_D	63_S	0.801	1.00
29_F	95_F	0.799	1.00
7_I	165_G	0.794	1.00
33_F	77_L	0.792	1.00
40_R	128_H	0.788	1.00
34_G	130_L	0.782	1.00
143_K	147_E	0.781	1.00
172_R	176_K	0.781	1.00
97_S	100_T	0.777	1.00
140_Q	169_D	0.771	1.00
112_I	116_A	0.769	1.00
33_F	39_L	0.761	1.00
29_F	77_L	0.760	1.00
25_K	83_E	0.753	1.00
73_I	77_L	0.751	1.00
20_L	28_Y	0.750	1.00
113_L	127_T	0.748	1.00
53_Q	60_A	0.747	1.00
72_L	172_R	0.742	1.00
13_I	17_K	0.742	1.00
32_I	36_N	0.739	1.00
32_I	77_L	0.730	1.00
76_S	79_Q	0.730	1.00
80_E	83_E	0.727	1.00
149_Q	161_M	0.727	1.00
114_R	118_A	0.726	1.00
169_D	173_A	0.722	1.00
143_K	174_A	0.713	1.00
168_E	171_T	0.708	1.00
99_R	102_K	0.707	1.00
125_I	129_T	0.706	1.00
145_I	157_P	0.705	1.00
41_I	127_T	0.700	1.00
11_E	15_E	0.695	1.00
33_F	59_W	0.685	1.00
138_F	142_T	0.683	1.00
84_Y	87_D	0.680	1.00
31_F	130_L	0.680	1.00
45_L	106_R	0.670	1.00
54_N	57_H	0.670	1.00
33_F	44_I	0.670	1.00
111_R	115_E	0.669	1.00
19_Y	22_N	0.667	1.00
26_R	84_Y	0.667	1.00
31_F	113_L	0.667	1.00
167_D	170_T	0.665	1.00
27_D	116_A	0.663	1.00
139_Y	167_D	0.659	1.00
25_K	29_F	0.653	1.00
109_A	127_T	0.647	1.00
34_G	41_I	0.647	1.00
107_I	114_R	0.645	1.00
26_R	29_F	0.640	1.00
129_T	132_K	0.629	1.00
135_G	148_L	0.627	1.00
37_S	74_L	0.625	1.00
29_F	81_I	0.620	1.00
135_G	164_I	0.619	1.00
52_V	94_L	0.616	1.00
26_R	112_I	0.614	1.00
25_K	28_Y	0.612	1.00
7_I	136_Y	0.611	1.00
143_K	148_L	0.610	1.00
17_K	28_Y	0.606	1.00
136_Y	164_I	0.604	1.00
29_F	33_F	0.603	1.00
15_E	120_C	0.602	1.00
114_R	117_A	0.599	1.00
54_N	73_I	0.592	1.00
39_L	59_W	0.585	1.00
139_Y	144_D	0.585	1.00
8_R	129_T	0.582	1.00
8_R	13_I	0.580	1.00
89_K	92_E	0.580	1.00
155_S	159_I	0.571	1.00
57_H	73_I	0.570	1.00
147_E	151_I	0.567	1.00
53_Q	57_H	0.565	1.00
52_V	59_W	0.565	1.00
82_Y	86_K	0.563	1.00
110_Y	126_G	0.562	1.00
39_L	43_D	0.562	1.00
117_A	122_L	0.555	1.00
173_A	176_K	0.554	1.00
135_G	160_T	0.553	1.00
146_A	164_I	0.549	1.00
38_A	152_L	0.549	1.00
79_Q	83_E	0.548	1.00
113_L	125_I	0.546	1.00
11_E	14_Q	0.545	1.00
83_E	86_K	0.542	1.00
26_R	104_I	0.540	1.00
12_K	123_E	0.539	1.00
85_T	94_L	0.534	1.00
108_Q	115_E	0.534	1.00
148_L	164_I	0.533	1.00
33_F	81_I	0.533	1.00
15_E	18_Q	0.527	1.00
116_A	120_C	0.525	1.00
142_T	148_L	0.524	1.00
97_S	108_Q	0.521	1.00
96_K	103_P	0.521	1.00
136_Y	166_I	0.514	1.00
146_A	157_P	0.513	1.00
16_V	113_L	0.511	1.00
17_K	20_L	0.510	1.00
139_Y	166_I	0.507	1.00
79_Q	82_Y	0.506	1.00
54_N	94_L	0.504	1.00
139_Y	143_K	0.503	1.00
48_Q	91_N	0.503	1.00
5_Q	132_K	0.502	1.00
81_I	94_L	0.501	1.00
16_V	117_A	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
3nkhA	2	0.989	100	0.191	Contact Map
2a3vA	3	0.9834	100	0.211	Contact Map
1a0pA	1	0.9282	100	0.231	Contact Map
4a8eA	2	0.9503	100	0.248	Contact Map
1z1bA	3	0.9503	100	0.27	Contact Map
1xo0A	3	0.9945	100	0.278	Contact Map
1z19A	3	0.9558	100	0.28	Contact Map
1ae9A	4	0.884	100	0.284	Contact Map
1aihA	2	0.895	100	0.333	Contact Map
3vcfA	1	0.8508	99.9	0.411	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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