YQJL - BACSU - GREMLIN Contacts

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YQJL - Uncharacterized protein YqjL

UniProt:	P54549	Sequences: MKSAWMEKTYTIDGCAFHTQHRKGSSGVTIVFEAGYGTSSETWKPLMADIDDEFGIFTYDRAGIGKSGQSRAKRTADQQVKELESLLKAADVKPPYLAVSHSYGAVITGLWACKNKHDIIGMVLLDPALGDCASFTFIPEEMHKSHTRKMMLEGTHAEFSKSLQELKKRQVHLGNMPLLVLSSGERTEKFAAEQEWQNLHSSILSLSNQSGWIQAKNSSHNIHHDEPHIVHLAIYDVWCAACQQAAPLYQAVN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	253 (213)
Sequences:	54979 (44111)
Seq/√Len:	3022.5

ECOLI - RUTD MHPC PLDB YBFF BIOH MENH YFHR YCJY
BACSU - YQJL YUGF NAP YBFK YFHM YBDG YDJP YCGS YRAK RSBQ YISY YBAC MENH YVAM PLBAC YCLE EST YQKD CAH
HALSA - Q9HPT9 Q9HHP4 Q9HRJ0
SULSO - PIP Q97WG0 Q7LXY9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_L	121_G	3.917	1.00
62_A	82_E	3.188	1.00
46_L	231_H	2.867	1.00
226_E	229_I	2.659	1.00
84_E	111_W	2.647	1.00
213_I	233_A	2.524	1.00
184_G	216_K	2.522	1.00
179_L	237_V	2.493	1.00
53_E	235_Y	2.492	1.00
21_H	55_G	2.433	1.00
126_D	186_R	2.387	1.00
97_L	120_I	2.370	1.00
215_A	233_A	2.279	1.00
125_L	230_V	2.238	1.00
16_A	68_G	2.171	1.00
22_R	55_G	2.067	1.00
94_P	120_I	2.050	1.00
84_E	118_D	1.993	1.00
11_T	16_A	1.986	1.00
84_E	115_N	1.959	1.00
84_E	88_K	1.956	1.00
111_W	115_N	1.930	1.00
184_G	214_Q	1.899	1.00
49_D	231_H	1.828	1.00
87_L	96_Y	1.807	1.00
98_A	108_T	1.803	1.00
97_L	238_W	1.794	1.00
204_L	210_S	1.781	1.00
18_H	66_K	1.778	1.00
88_K	118_D	1.764	1.00
105_A	127_P	1.742	1.00
218_S	226_E	1.714	1.00
28_V	97_L	1.695	1.00
29_T	55_G	1.688	1.00
197_Q	214_Q	1.658	1.00
18_H	40_S	1.644	1.00
29_T	57_F	1.641	1.00
110_L	114_K	1.636	1.00
112_A	122_M	1.621	1.00
29_T	92_V	1.616	1.00
19_T	86_L	1.610	1.00
81_K	114_K	1.582	1.00
28_V	120_I	1.546	1.00
34_A	64_I	1.512	1.00
34_A	61_R	1.501	1.00
233_A	236_D	1.492	1.00
178_L	207_S	1.491	1.00
38_T	42_T	1.474	1.00
13_D	85_S	1.468	1.00
33_E	61_R	1.464	1.00
179_L	213_I	1.449	1.00
97_L	123_V	1.446	1.00
202_S	206_L	1.442	1.00
54_F	97_L	1.434	1.00
33_E	83_L	1.433	1.00
77_D	114_K	1.424	1.00
61_R	107_I	1.421	1.00
108_T	122_M	1.414	1.00
80_V	110_L	1.412	1.00
59_Y	83_L	1.392	1.00
49_D	235_Y	1.362	1.00
40_S	60_D	1.343	1.00
111_W	119_I	1.339	1.00
18_H	60_D	1.336	1.00
232_L	236_D	1.318	1.00
115_N	118_D	1.318	1.00
83_L	111_W	1.281	1.00
109_G	124_L	1.269	1.00
110_L	113_C	1.235	1.00
47_M	58_T	1.234	1.00
33_E	108_T	1.234	1.00
229_I	233_A	1.225	1.00
170_Q	173_L	1.223	1.00
40_S	66_K	1.219	1.00
123_V	234_I	1.217	1.00
99_V	125_L	1.215	1.00
207_S	210_S	1.213	1.00
101_H	223_H	1.213	1.00
75_T	78_Q	1.212	1.00
22_R	58_T	1.177	1.00
15_C	62_A	1.172	1.00
32_F	99_V	1.168	1.00
53_E	239_C	1.155	1.00
24_G	27_G	1.151	1.00
111_W	118_D	1.142	1.00
197_Q	201_S	1.140	1.00
124_L	127_P	1.135	1.00
88_K	115_N	1.133	1.00
102_S	220_H	1.131	1.00
23_K	55_G	1.130	1.00
37_G	64_I	1.129	1.00
17_F	82_E	1.124	1.00
229_I	232_L	1.122	1.00
49_D	52_D	1.109	1.00
235_Y	239_C	1.102	1.00
40_S	58_T	1.102	1.00
30_I	54_F	1.100	1.00
86_L	90_A	1.098	1.00
182_S	200_H	1.094	1.00
57_F	86_L	1.091	1.00
42_T	223_H	1.091	1.00
37_G	102_S	1.084	1.00
142_M	146_H	1.072	1.00
32_F	56_I	1.069	1.00
201_S	205_S	1.048	1.00
123_V	179_L	1.048	1.00
182_S	214_Q	1.041	1.00
215_A	218_S	1.037	1.00
211_G	233_A	1.020	1.00
35_G	102_S	1.015	1.00
182_S	212_W	1.013	1.00
181_L	215_A	1.008	1.00
92_V	96_Y	0.985	1.00
28_V	54_F	0.979	1.00
230_V	234_I	0.970	1.00
33_E	98_A	0.968	1.00
19_T	90_A	0.961	1.00
179_L	211_G	0.959	1.00
219_S	225_D	0.958	1.00
101_H	221_N	0.949	1.00
99_V	234_I	0.946	1.00
31_V	87_L	0.945	1.00
22_R	47_M	0.944	1.00
49_D	228_H	0.944	1.00
54_F	238_W	0.940	1.00
51_D	56_I	0.939	1.00
121_G	177_P	0.931	1.00
96_Y	119_I	0.931	1.00
12_I	85_S	0.930	1.00
172_H	206_L	0.926	1.00
218_S	225_D	0.921	1.00
215_A	229_I	0.920	1.00
171_V	174_G	0.916	1.00
204_L	212_W	0.915	1.00
77_D	110_L	0.911	1.00
59_Y	86_L	0.909	1.00
182_S	197_Q	0.905	1.00
213_I	236_D	0.904	1.00
15_C	68_G	0.903	1.00
80_V	107_I	0.900	1.00
152_L	156_H	0.900	1.00
54_F	239_C	0.896	1.00
32_F	43_W	0.895	1.00
125_L	223_H	0.880	1.00
84_E	114_K	0.880	1.00
60_D	65_G	0.878	1.00
100_S	108_T	0.876	1.00
228_H	232_L	0.871	1.00
158_E	162_S	0.864	1.00
201_S	204_L	0.859	1.00
113_C	170_Q	0.858	1.00
143_H	146_H	0.852	1.00
152_L	155_T	0.850	1.00
202_S	205_S	0.849	1.00
155_T	158_E	0.849	1.00
201_S	214_Q	0.841	1.00
201_S	212_W	0.836	1.00
87_L	111_W	0.833	1.00
181_L	233_A	0.828	1.00
31_V	96_Y	0.826	1.00
28_V	94_P	0.823	1.00
78_Q	81_K	0.814	1.00
21_H	57_F	0.813	1.00
44_K	58_T	0.812	1.00
48_A	51_D	0.804	1.00
96_Y	118_D	0.803	1.00
57_F	90_A	0.802	1.00
213_I	229_I	0.802	1.00
91_D	94_P	0.793	1.00
33_E	59_Y	0.788	1.00
17_F	67_S	0.786	1.00
45_P	48_A	0.783	1.00
144_K	147_T	0.780	1.00
162_S	165_E	0.778	1.00
79_Q	103_Y	0.766	1.00
47_M	56_I	0.763	1.00
85_S	88_K	0.762	1.00
85_S	89_A	0.754	1.00
49_D	53_E	0.754	1.00
175_N	208_N	0.752	1.00
28_V	121_G	0.752	1.00
184_G	217_N	0.746	1.00
80_V	114_K	0.745	1.00
112_A	119_I	0.744	1.00
125_L	222_I	0.741	1.00
157_A	161_K	0.737	1.00
81_K	85_S	0.737	1.00
218_S	222_I	0.736	1.00
61_R	103_Y	0.731	1.00
30_I	56_I	0.728	1.00
163_L	166_L	0.726	1.00
87_L	92_V	0.726	1.00
159_F	163_L	0.716	1.00
73_K	78_Q	0.716	1.00
199_L	202_S	0.711	1.00
29_T	54_F	0.706	1.00
122_M	178_L	0.706	1.00
143_H	147_T	0.704	1.00
29_T	96_Y	0.704	1.00
36_Y	103_Y	0.703	1.00
27_G	55_G	0.702	1.00
30_I	99_V	0.701	1.00
81_K	84_E	0.701	1.00
98_A	119_I	0.700	1.00
31_V	83_L	0.695	1.00
157_A	160_S	0.692	1.00
121_G	237_V	0.691	1.00
80_V	111_W	0.691	1.00
54_F	235_Y	0.690	1.00
185_E	217_N	0.688	1.00
162_S	166_L	0.688	1.00
84_E	87_L	0.687	1.00
101_H	126_D	0.685	1.00
101_H	125_L	0.684	1.00
180_V	210_S	0.680	1.00
41_E	44_K	0.680	1.00
158_E	161_K	0.679	1.00
40_S	59_Y	0.678	1.00
200_H	212_W	0.677	1.00
30_I	238_W	0.674	1.00
61_R	79_Q	0.672	1.00
100_S	105_A	0.668	1.00
123_V	237_V	0.665	1.00
149_K	152_L	0.665	1.00
60_D	66_K	0.663	1.00
231_H	235_Y	0.658	1.00
52_D	235_Y	0.654	1.00
232_L	235_Y	0.652	1.00
126_D	222_I	0.652	1.00
174_G	178_L	0.650	1.00
121_G	238_W	0.649	1.00
47_M	51_D	0.649	1.00
162_S	169_R	0.648	1.00
160_S	164_Q	0.648	1.00
106_V	128_A	0.647	1.00
12_I	15_C	0.644	1.00
198_N	201_S	0.644	1.00
159_F	162_S	0.636	1.00
99_V	123_V	0.634	1.00
227_P	231_H	0.632	1.00
98_A	111_W	0.632	1.00
57_F	92_V	0.631	1.00
30_I	97_L	0.631	1.00
109_G	129_L	0.629	1.00
34_A	59_Y	0.627	1.00
25_S	55_G	0.625	1.00
183_S	222_I	0.623	1.00
110_L	170_Q	0.622	1.00
126_D	183_S	0.622	1.00
215_A	226_E	0.621	1.00
112_A	176_M	0.619	1.00
153_E	156_H	0.618	1.00
160_S	163_L	0.617	1.00
55_G	92_V	0.615	1.00
126_D	182_S	0.611	1.00
161_K	164_Q	0.609	1.00
96_Y	120_I	0.609	1.00
217_N	226_E	0.608	1.00
18_H	67_S	0.608	1.00
48_A	52_D	0.606	1.00
17_F	62_A	0.605	1.00
100_S	104_G	0.605	1.00
181_L	230_V	0.601	1.00
154_G	158_E	0.598	1.00
123_V	238_W	0.597	1.00
164_Q	167_K	0.595	1.00
11_T	14_G	0.595	1.00
46_L	230_V	0.591	1.00
148_R	152_L	0.591	1.00
155_T	162_S	0.589	1.00
44_K	48_A	0.588	1.00
119_I	176_M	0.585	1.00
13_D	78_Q	0.584	1.00
62_A	79_Q	0.583	1.00
186_R	220_H	0.582	1.00
31_V	98_A	0.582	1.00
148_R	151_M	0.582	1.00
211_G	236_D	0.577	1.00
43_W	47_M	0.577	1.00
77_D	81_K	0.577	1.00
151_M	155_T	0.577	1.00
76_A	110_L	0.574	1.00
151_M	154_G	0.572	1.00
23_K	26_S	0.571	1.00
165_E	169_R	0.569	1.00
13_D	81_K	0.564	1.00
37_G	103_Y	0.560	1.00
24_G	55_G	0.557	1.00
158_E	163_L	0.556	1.00
61_R	64_I	0.554	1.00
184_G	197_Q	0.554	1.00
113_C	173_L	0.545	1.00
154_G	162_S	0.545	1.00
35_G	101_H	0.543	1.00
38_T	221_N	0.543	1.00
196_W	199_L	0.541	1.00
93_K	118_D	0.541	1.00
155_T	159_F	0.540	1.00
149_K	153_E	0.540	1.00
80_V	84_E	0.539	1.00
11_T	15_C	0.538	1.00
102_S	221_N	0.536	1.00
154_G	157_A	0.533	1.00
156_H	160_S	0.532	1.00
36_Y	64_I	0.528	1.00
174_G	207_S	0.528	1.00
234_I	238_W	0.525	1.00
30_I	50_I	0.524	1.00
46_L	49_D	0.524	1.00
50_I	234_I	0.522	1.00
150_M	153_E	0.521	1.00
42_T	101_H	0.514	1.00
200_H	204_L	0.514	1.00
79_Q	107_I	0.513	1.00
105_A	124_L	0.512	1.00
23_K	51_D	0.509	1.00
43_W	46_L	0.505	1.00
32_F	50_I	0.504	1.00
155_T	166_L	0.501	1.00
150_M	154_G	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
4inzA	1	0.8933	100	0.217	Contact Map
1ehyA	1	0.8933	100	0.24	Contact Map
4psuA	1	0.913	100	0.245	Contact Map
1iupA	2	0.9091	100	0.246	Contact Map
2pujA	4	0.917	100	0.253	Contact Map
3om8A	4	0.9091	100	0.256	Contact Map
3oosA	1	0.8972	100	0.257	Contact Map
4opmA	2	0.9447	100	0.26	Contact Map
4lxhA	2	0.917	100	0.262	Contact Map
1c4xA	3	0.917	100	0.263	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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