YBJS - ECOLI - GREMLIN Contacts

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YBJS - Uncharacterized protein YbjS

UniProt:	P75821	Sequences: MKVLVTGATSGLGRNAVEFLCQKGISVRATGRNEAMGKLLEKMGAEFVPADLTELVSSQAKVMLAGIDTLWHCSSFTSPWGTQQAFDLANVRATRRLGEWAVAWGVRNFIHISSPSLYFDYHHHRDIKEDFRPHRFANEFARSKAASEEVINMLSQANPQTRFTILRPQSLFGPHDKVFIPRLAHMMHHYGSILLPHGGSALVDMTYYENAVHAMWLASQEACDKLPSGRVYNITNGEHRTLRSIVQKLIDELNIDCRIRSVPYPMLDMIARSMERLGRKSAKEPPLTHYGVSKLNFDFTLDITRAQEELGYQPVITLDEGIEKTAAWLRDHGKLPR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13688
Length:	337 (289)
Sequences:	58388 (41765)
Seq/√Len:	2456.8

ECOLI - YBJS GM4D GALE RMLB1 RMLB2 HLDD FCL YFCH RMLD YEEZ QOR2 YBJT ARNA YRAR
BACSU - GALE YTCB YFNG RMLB YFHF SPSK YTBQ YESF YHFK YWNB YHEG EPSC
HALSA - Q9HSV1 Q9HSU9 Q9HML4 Q9HRD1 Q9HSE7 Q9HS50 Q9HNV3 Q9HSQ3 Q9HPF1 Q9HR86
SULSO - Q97VN5 Q7LXG5 Q980W1 Q7LXE8 Q97UM3 Q97XG1 Q97XJ9 Q7LX44 Q7LXE6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
8_A	29_A	3.065	1.00
248_K	319_D	3.015	1.00
214_A	234_I	2.636	1.00
19_F	213_H	2.598	1.00
88_L	92_R	2.563	1.00
230_R	305_R	2.529	1.00
69_T	219_S	2.401	1.00
317_T	320_E	2.347	1.00
232_Y	309_E	2.326	1.00
30_T	50_A	2.274	1.00
112_I	215_M	2.250	1.00
19_F	216_W	2.203	1.00
252_E	323_E	2.184	1.00
19_F	23_K	2.149	1.00
251_D	319_D	2.096	1.00
213_H	315_V	2.088	1.00
60_A	64_L	2.029	1.00
243_R	247_Q	2.023	1.00
54_E	57_S	2.009	1.00
304_T	308_E	1.986	1.00
72_H	111_H	1.968	1.00
108_N	162_R	1.965	1.00
128_K	131_F	1.965	1.00
307_Q	313_Q	1.941	1.00
168_P	215_M	1.929	1.00
50_A	57_S	1.924	1.00
71_W	219_S	1.921	1.00
151_I	163_F	1.894	1.00
213_H	217_L	1.868	1.00
28_R	46_E	1.863	1.00
4_L	67_I	1.862	1.00
6_T	72_H	1.859	1.00
166_L	218_A	1.858	1.00
209_E	324_K	1.849	1.00
248_K	251_D	1.843	1.00
28_R	48_V	1.839	1.00
28_R	67_I	1.820	1.00
5_V	17_V	1.815	1.00
55_L	99_E	1.796	1.00
237_G	307_Q	1.755	1.00
95_R	150_V	1.732	1.00
241_T	244_S	1.721	1.00
23_K	216_W	1.716	1.00
172_F	321_G	1.693	1.00
23_K	220_Q	1.669	1.00
26_S	46_E	1.623	1.00
95_R	99_E	1.608	1.00
92_R	95_R	1.608	1.00
145_A	149_E	1.591	1.00
216_W	220_Q	1.588	1.00
94_T	147_S	1.574	1.00
207_Y	324_K	1.572	1.00
53_T	88_L	1.564	1.00
16_A	212_V	1.549	1.00
87_D	146_A	1.545	1.00
16_A	71_W	1.523	1.00
19_F	22_Q	1.511	1.00
68_D	107_R	1.509	1.00
217_L	221_E	1.507	1.00
303_I	307_Q	1.506	1.00
28_R	65_A	1.503	1.00
33_N	47_F	1.488	1.00
16_A	73_C	1.474	1.00
185_H	189_H	1.462	1.00
323_E	327_A	1.457	1.00
113_S	117_L	1.455	1.00
306_A	310_L	1.451	1.00
55_L	96_R	1.441	1.00
248_K	252_E	1.441	1.00
84_Q	88_L	1.429	1.00
19_F	212_V	1.398	1.00
17_V	29_A	1.390	1.00
134_H	145_A	1.389	1.00
61_K	103_A	1.387	1.00
70_L	101_A	1.383	1.00
12_L	171_L	1.378	1.00
202_L	239_H	1.363	1.00
73_C	112_I	1.360	1.00
38_K	41_E	1.359	1.00
62_V	67_I	1.355	1.00
168_P	211_A	1.338	1.00
155_S	163_F	1.330	1.00
129_E	305_R	1.327	1.00
18_E	175_H	1.321	1.00
207_Y	321_G	1.310	1.00
102_V	159_P	1.309	1.00
149_E	152_N	1.308	1.00
112_I	168_P	1.300	1.00
244_S	247_Q	1.288	1.00
62_V	65_A	1.287	1.00
320_E	323_E	1.283	1.00
111_H	147_S	1.278	1.00
316_I	324_K	1.262	1.00
230_R	309_E	1.262	1.00
8_A	17_V	1.256	1.00
25_I	220_Q	1.256	1.00
194_L	260_R	1.252	1.00
3_V	25_I	1.252	1.00
98_G	154_L	1.246	1.00
124_H	131_F	1.236	1.00
166_L	215_M	1.233	1.00
108_N	164_T	1.223	1.00
71_W	215_M	1.223	1.00
320_E	324_K	1.222	1.00
152_N	165_I	1.221	1.00
124_H	128_K	1.219	1.00
90_N	143_S	1.215	1.00
64_L	67_I	1.208	1.00
99_E	102_V	1.205	1.00
52_L	93_A	1.193	1.00
186_M	191_G	1.188	1.00
243_R	261_S	1.188	1.00
57_S	60_A	1.182	1.00
4_L	30_T	1.172	1.00
118_Y	233_N	1.166	1.00
140_F	144_K	1.164	1.00
305_R	309_E	1.163	1.00
72_H	94_T	1.161	1.00
101_A	109_F	1.158	1.00
192_S	260_R	1.152	1.00
60_A	63_M	1.141	1.00
150_V	153_M	1.139	1.00
29_A	45_A	1.130	1.00
169_Q	301_L	1.128	1.00
142_R	146_A	1.127	1.00
127_I	131_F	1.122	1.00
208_Y	212_V	1.122	1.00
97_L	109_F	1.120	1.00
206_T	211_A	1.119	1.00
111_H	151_I	1.118	1.00
200_S	241_T	1.108	1.00
200_S	243_R	1.105	1.00
9_T	31_G	1.087	1.00
303_I	314_P	1.087	1.00
18_E	22_Q	1.083	1.00
240_R	318_L	1.077	1.00
128_K	302_D	1.076	1.00
98_G	109_F	1.076	1.00
111_H	165_I	1.074	1.00
46_E	65_A	1.072	1.00
20_L	216_W	1.066	1.00
152_N	231_V	1.063	1.00
250_I	256_D	1.060	1.00
221_E	226_L	1.059	1.00
19_F	209_E	1.053	1.00
130_D	305_R	1.047	1.00
265_P	268_D	1.045	1.00
110_I	166_L	1.043	1.00
167_R	231_V	1.032	1.00
319_D	323_E	1.030	1.00
247_Q	250_I	1.030	1.00
52_L	74_S	1.024	1.00
214_A	306_A	1.017	1.00
92_R	96_R	1.017	1.00
21_C	44_G	1.016	1.00
3_V	20_L	1.016	1.00
76_F	89_A	1.013	1.00
14_R	175_H	1.006	1.00
3_V	69_T	1.005	1.00
240_R	244_S	1.003	1.00
202_L	298_D	1.002	1.00
62_V	66_G	0.998	1.00
107_R	162_R	0.994	1.00
21_C	45_A	0.993	1.00
30_T	57_S	0.989	1.00
253_L	326_A	0.988	1.00
99_E	103_A	0.986	1.00
204_D	237_G	0.985	1.00
100_W	104_W	0.983	1.00
239_H	300_T	0.979	1.00
235_T	301_L	0.974	1.00
15_N	209_E	0.969	1.00
11_G	173_G	0.969	1.00
101_A	106_V	0.965	1.00
182_R	186_M	0.961	1.00
34_E	49_P	0.960	1.00
162_R	228_S	0.960	1.00
152_N	163_F	0.960	1.00
213_H	316_I	0.957	1.00
96_R	99_E	0.952	1.00
179_F	183_L	0.950	1.00
217_L	220_Q	0.943	1.00
89_A	93_A	0.943	1.00
252_E	326_A	0.942	1.00
324_K	327_A	0.939	1.00
262_V	267_L	0.938	1.00
33_N	36_M	0.937	1.00
91_V	146_A	0.931	1.00
87_D	92_R	0.927	1.00
207_Y	316_I	0.920	1.00
109_F	151_I	0.919	1.00
6_T	97_L	0.919	1.00
73_C	215_M	0.917	1.00
213_H	312_Y	0.916	1.00
171_L	211_A	0.913	1.00
209_E	316_I	0.908	1.00
87_D	91_V	0.907	1.00
148_E	167_R	0.905	1.00
102_V	161_T	0.903	1.00
100_W	103_A	0.902	1.00
185_H	188_H	0.902	1.00
48_V	64_L	0.901	1.00
167_R	233_N	0.900	1.00
38_K	42_K	0.897	1.00
61_K	65_A	0.894	1.00
31_G	47_F	0.892	1.00
98_G	151_I	0.892	1.00
263_P	266_M	0.891	1.00
11_G	208_Y	0.890	1.00
264_Y	268_D	0.888	1.00
99_E	154_L	0.886	1.00
252_E	319_D	0.886	1.00
239_H	298_D	0.876	1.00
39_L	42_K	0.873	1.00
232_Y	305_R	0.871	1.00
182_R	185_H	0.870	1.00
304_T	307_Q	0.868	1.00
15_N	18_E	0.867	1.00
15_N	208_Y	0.866	1.00
32_R	51_D	0.861	1.00
164_T	218_A	0.860	1.00
152_N	156_Q	0.859	1.00
33_N	49_P	0.858	1.00
250_I	255_I	0.853	1.00
192_S	258_R	0.853	1.00
250_I	257_C	0.852	1.00
210_N	236_N	0.847	1.00
69_T	108_N	0.845	1.00
316_I	320_E	0.844	1.00
190_Y	193_I	0.841	1.00
227_P	230_R	0.840	1.00
96_R	100_W	0.836	1.00
166_L	234_I	0.832	1.00
115_P	169_Q	0.825	1.00
15_N	19_F	0.824	1.00
16_A	20_L	0.821	1.00
262_V	265_P	0.820	1.00
149_E	153_M	0.817	1.00
217_L	310_L	0.816	1.00
86_F	143_S	0.813	1.00
17_V	27_V	0.806	1.00
171_L	206_T	0.802	1.00
21_C	27_V	0.802	1.00
214_A	312_Y	0.800	1.00
98_G	150_V	0.800	1.00
235_T	303_I	0.799	1.00
165_I	231_V	0.798	1.00
264_Y	267_L	0.798	1.00
244_S	248_K	0.798	1.00
238_E	317_T	0.798	1.00
25_I	68_D	0.794	1.00
125_R	131_F	0.794	1.00
199_G	243_R	0.793	1.00
265_P	269_M	0.790	1.00
213_H	216_W	0.790	1.00
202_L	241_T	0.787	1.00
172_F	207_Y	0.787	1.00
76_F	85_A	0.779	1.00
70_L	97_L	0.779	1.00
146_A	149_E	0.776	1.00
261_S	264_Y	0.771	1.00
6_T	74_S	0.770	1.00
305_R	308_E	0.765	1.00
174_P	324_K	0.763	1.00
113_S	148_E	0.763	1.00
48_V	65_A	0.762	1.00
94_T	151_I	0.761	1.00
53_T	89_A	0.759	1.00
72_H	97_L	0.757	1.00
218_A	310_L	0.756	1.00
55_L	103_A	0.754	1.00
263_P	267_L	0.754	1.00
257_C	260_R	0.751	1.00
94_T	98_G	0.750	1.00
252_E	327_A	0.746	1.00
63_M	104_W	0.746	1.00
262_V	269_M	0.746	1.00
210_N	213_H	0.744	1.00
61_K	64_L	0.744	1.00
16_A	215_M	0.742	1.00
115_P	301_L	0.741	1.00
102_V	154_L	0.740	1.00
261_S	267_L	0.739	1.00
180_I	183_L	0.738	1.00
76_F	86_F	0.737	1.00
87_D	143_S	0.733	1.00
237_G	303_I	0.730	1.00
56_V	60_A	0.728	1.00
69_T	107_R	0.721	1.00
123_H	131_F	0.719	1.00
26_S	44_G	0.716	1.00
3_V	71_W	0.715	1.00
60_A	67_I	0.714	1.00
136_F	141_A	0.713	1.00
217_L	312_Y	0.713	1.00
247_Q	251_D	0.709	1.00
154_L	159_P	0.705	1.00
187_M	250_I	0.705	1.00
24_G	44_G	0.705	1.00
83_Q	142_R	0.704	1.00
266_M	269_M	0.703	1.00
85_A	88_L	0.702	1.00
252_E	322_I	0.701	1.00
129_E	306_A	0.700	1.00
221_E	227_P	0.696	1.00
261_S	268_D	0.696	1.00
207_Y	210_N	0.695	1.00
3_V	219_S	0.693	1.00
262_V	268_D	0.692	1.00
138_N	141_A	0.692	1.00
70_L	109_F	0.692	1.00
146_A	150_V	0.690	1.00
82_T	85_A	0.684	1.00
245_I	318_L	0.682	1.00
248_K	318_L	0.680	1.00
163_F	229_G	0.674	1.00
256_D	259_I	0.673	1.00
227_P	309_E	0.672	1.00
218_A	306_A	0.672	1.00
116_S	141_A	0.671	1.00
14_R	18_E	0.671	1.00
93_A	96_R	0.669	1.00
48_V	61_K	0.660	1.00
183_L	186_M	0.654	1.00
240_R	245_I	0.653	1.00
85_A	89_A	0.653	1.00
316_I	321_G	0.653	1.00
101_A	105_G	0.653	1.00
168_P	171_L	0.647	1.00
5_V	20_L	0.646	1.00
30_T	61_K	0.646	1.00
15_N	212_V	0.646	1.00
307_Q	314_P	0.639	1.00
62_V	100_W	0.635	1.00
181_P	185_H	0.634	1.00
142_R	149_E	0.632	1.00
12_L	211_A	0.628	1.00
184_A	188_H	0.628	1.00
169_Q	235_T	0.627	1.00
234_I	306_A	0.625	1.00
28_R	66_G	0.625	1.00
147_S	151_I	0.623	1.00
51_D	54_E	0.623	1.00
102_V	160_Q	0.621	1.00
20_L	219_S	0.619	1.00
139_E	142_R	0.619	1.00
217_L	311_G	0.617	1.00
61_K	67_I	0.612	1.00
153_M	158_N	0.612	1.00
174_P	207_Y	0.610	1.00
62_V	70_L	0.608	1.00
150_V	154_L	0.607	1.00
117_L	148_E	0.607	1.00
262_V	266_M	0.606	1.00
212_V	216_W	0.605	1.00
25_I	69_T	0.604	1.00
110_I	219_S	0.597	1.00
155_S	229_G	0.596	1.00
110_I	215_M	0.592	1.00
69_T	110_I	0.592	1.00
126_D	302_D	0.590	1.00
153_M	156_Q	0.590	1.00
117_L	167_R	0.589	1.00
23_K	213_H	0.588	1.00
29_A	47_F	0.584	1.00
55_L	100_W	0.582	1.00
250_I	253_L	0.580	1.00
4_L	50_A	0.580	1.00
62_V	104_W	0.580	1.00
184_A	326_A	0.578	1.00
183_L	187_M	0.577	1.00
194_L	262_V	0.577	1.00
246_V	250_I	0.574	1.00
263_P	268_D	0.572	1.00
202_L	300_T	0.571	1.00
250_I	259_I	0.570	1.00
181_P	184_A	0.569	1.00
261_S	265_P	0.569	1.00
261_S	266_M	0.568	1.00
143_S	147_S	0.566	1.00
210_N	315_V	0.566	1.00
128_K	304_T	0.564	1.00
136_F	145_A	0.562	1.00
315_V	320_E	0.562	1.00
154_L	161_T	0.560	1.00
4_L	70_L	0.560	1.00
57_S	61_K	0.559	1.00
60_A	65_A	0.554	1.00
142_R	153_M	0.552	1.00
191_G	194_L	0.552	1.00
204_D	236_N	0.551	1.00
87_D	142_R	0.551	1.00
23_K	217_L	0.551	1.00
240_R	248_K	0.550	1.00
15_N	175_H	0.550	1.00
165_I	229_G	0.548	1.00
114_S	117_L	0.547	1.00
101_A	104_W	0.546	1.00
20_L	24_G	0.545	1.00
24_G	27_V	0.545	1.00
238_E	319_D	0.545	1.00
75_S	90_N	0.544	1.00
121_Y	127_I	0.543	1.00
152_N	155_S	0.541	1.00
123_H	127_I	0.539	1.00
139_E	143_S	0.538	1.00
259_I	262_V	0.536	1.00
267_L	270_I	0.536	1.00
72_H	109_F	0.535	1.00
166_L	214_A	0.534	1.00
65_A	104_W	0.533	1.00
264_Y	269_M	0.528	1.00
201_A	242_L	0.527	1.00
17_V	21_C	0.526	1.00
61_K	104_W	0.526	1.00
126_D	300_T	0.523	1.00
190_Y	194_L	0.523	1.00
33_N	37_G	0.523	1.00
64_L	70_L	0.522	1.00
164_T	226_L	0.522	1.00
18_E	209_E	0.521	1.00
125_R	298_D	0.520	1.00
151_I	165_I	0.519	1.00
303_I	312_Y	0.519	1.00
248_K	322_I	0.518	1.00
204_D	239_H	0.518	1.00
119_F	135_R	0.510	1.00
306_A	314_P	0.508	1.00
11_G	15_N	0.508	1.00
179_F	182_R	0.507	1.00
189_H	192_S	0.507	1.00
110_I	218_A	0.505	1.00
98_G	102_V	0.505	1.00
148_E	165_I	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)
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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
3m2pA	2	0.8694	100	0.238	Contact Map
2c20A	2	0.908	100	0.242	Contact Map
2x4gA	2	0.8694	100	0.244	Contact Map
1sb8A	2	0.905	100	0.246	Contact Map
3rufA	2	0.8902	100	0.246	Contact Map
1rkxA	3	0.9021	100	0.247	Contact Map
1gy8A	2	0.9139	100	0.248	Contact Map
1orrA	3	0.8902	100	0.251	Contact Map
1udbA	2	0.9139	100	0.254	Contact Map
2bllA	2	0.9139	100	0.255	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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