YQGI - BACSU - GREMLIN Contacts

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YQGI - Probable ABC transporter permease protein YqgI

UniProt:	P46340	Sequences: MNRKITDKLATGMFGLCAAIIAAILVGLFSYIIINGVSQLSFQFITTKSSAIAAGGGIRDQLFNSFYILFITMLITIPLGVGGGVFMAEYAPNNKVTDFIRTCIEVLSSLPSIVIGMFGLLMFVNLTGWGYTIIGGALALTVFNLPVMVRVTEDAIRSVPKDLKEASLALGVSRWHTVKTVLIPSAIPSIITGAILASGRVFGEAAALLFTAGLTTPRLNFTEWNPFSETSPLNIFRPAETLAVHIWNVNTQGMIPDAEAIANGGSAVLVISVLVFNLAARWLGTMIYKKLTAN	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	294 (249)
Sequences:	71388 (47328)
Seq/√Len:	2999.3

ECOLI - PSTA PSTC POTH YCJO CYST YDCV UGPA POTC POTI MALG YCJP POTB CYSW THIP YDCU UGPE MALF YNJC SSUC MODB TAUC YEHY YEHW PHNE METI PROW YECS GLNP
BACSU - YQGI GANP MDXG MDXF AMYD YQGH YTEP YURN YESP ARAP GANQ ARAQ LPLB YESQ AMYC YURM LPLC YTCP YVGM SSUC OPUAB YTLD METP TCYB TCYL YXEN OPUCB OPUBD OPUCD OPUBB ARTQ
HALSA - Q9HML6 Q9HP02 Q9HP01 Q9HMT4 Q9HHQ7 Q9HS11 Q9HPK3 Q9HHQ6 Q9HR05 Q9HS12 Q9HNI9 Q9HML7
SULSO - Q97YY2 Q97UY9 Q97UF3 Q97ZT7 Q97YY3 Q97ZT6 Q97UZ0 Q97ZC1 Q97ZC2 Q97Z98 Q97UF4 Q97VC0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
176_H	180_T	4.017	1.00
24_I	28_L	3.343	1.00
63_F	67_Y	3.257	1.00
153_E	157_R	3.032	1.00
168_L	177_T	3.023	1.00
60_D	63_F	2.609	1.00
89_E	164_K	2.584	1.00
173_S	176_H	2.544	1.00
167_S	177_T	2.504	1.00
47_T	50_S	2.478	1.00
75_I	141_T	2.474	1.00
61_Q	245_H	2.471	1.00
164_K	182_L	2.467	1.00
155_A	189_S	2.428	1.00
71_I	137_A	2.407	1.00
59_R	63_F	2.331	1.00
73_M	194_A	2.292	1.00
175_W	179_K	2.278	1.00
174_R	177_T	2.274	1.00
34_I	38_S	2.267	1.00
240_E	248_N	2.211	1.00
152_T	190_I	2.173	1.00
47_T	51_A	2.120	1.00
50_S	54_A	2.077	1.00
172_V	176_H	2.029	1.00
176_H	179_K	1.991	1.00
81_V	178_V	1.975	1.00
148_M	193_G	1.943	1.00
156_I	186_A	1.929	1.00
163_L	185_S	1.928	1.00
88_A	157_R	1.917	1.00
67_Y	133_I	1.854	1.00
92_P	96_V	1.806	1.00
167_S	172_V	1.806	1.00
81_V	186_A	1.761	1.00
60_D	64_N	1.736	1.00
164_K	177_T	1.719	1.00
101_R	153_E	1.709	1.00
168_L	174_R	1.692	1.00
80_G	148_M	1.680	1.00
69_L	198_S	1.680	1.00
67_Y	71_I	1.668	1.00
81_V	152_T	1.667	1.00
77_I	194_A	1.633	1.00
164_K	168_L	1.632	1.00
72_T	201_V	1.626	1.00
258_A	261_I	1.616	1.00
83_G	149_V	1.607	1.00
36_G	49_S	1.600	1.00
51_A	261_I	1.597	1.00
87_M	149_V	1.595	1.00
30_S	34_I	1.575	1.00
31_Y	35_N	1.544	1.00
27_G	31_Y	1.540	1.00
278_L	282_W	1.529	1.00
92_P	97_T	1.510	1.00
161_K	164_K	1.483	1.00
245_H	249_V	1.437	1.00
84_G	152_T	1.400	1.00
31_Y	34_I	1.399	1.00
205_A	209_L	1.389	1.00
96_V	99_F	1.385	1.00
148_M	197_A	1.369	1.00
192_T	196_L	1.348	1.00
46_T	50_S	1.335	1.00
91_A	97_T	1.330	1.00
183_I	190_I	1.329	1.00
45_I	48_K	1.327	1.00
76_T	197_A	1.321	1.00
78_P	82_G	1.318	1.00
156_I	182_L	1.317	1.00
152_T	193_G	1.311	1.00
28_L	32_I	1.308	1.00
57_G	60_D	1.307	1.00
88_A	153_E	1.302	1.00
167_S	181_V	1.269	1.00
207_A	211_T	1.267	1.00
89_E	161_K	1.262	1.00
173_S	177_T	1.261	1.00
161_K	165_E	1.253	1.00
8_K	12_G	1.253	1.00
11_T	15_G	1.241	1.00
68_I	241_T	1.241	1.00
51_A	54_A	1.237	1.00
10_A	14_F	1.219	1.00
162_D	165_E	1.202	1.00
139_A	211_T	1.198	1.00
282_W	285_T	1.188	1.00
241_T	244_V	1.185	1.00
85_V	156_I	1.178	1.00
81_V	190_I	1.178	1.00
205_A	247_W	1.177	1.00
15_G	19_A	1.176	1.00
49_S	267_A	1.175	1.00
65_S	242_L	1.169	1.00
71_I	74_L	1.161	1.00
249_V	258_A	1.152	1.00
24_I	32_I	1.150	1.00
64_N	67_Y	1.150	1.00
129_W	134_I	1.150	1.00
136_G	208_L	1.146	1.00
99_F	102_T	1.129	1.00
26_V	30_S	1.122	1.00
159_V	185_S	1.114	1.00
74_L	78_P	1.101	1.00
38_S	43_Q	1.101	1.00
35_N	38_S	1.090	1.00
77_I	190_I	1.083	1.00
249_V	253_G	1.073	1.00
22_A	26_V	1.066	1.00
164_K	174_R	1.066	1.00
28_L	37_V	1.060	1.00
99_F	103_C	1.059	1.00
123_F	135_G	1.055	1.00
240_E	245_H	1.043	1.00
248_N	252_Q	1.040	1.00
33_I	267_A	1.037	1.00
129_W	132_T	1.031	1.00
187_I	191_I	1.022	1.00
51_A	55_G	1.020	1.00
88_A	156_I	1.019	1.00
152_T	189_S	1.017	1.00
131_Y	134_I	1.016	1.00
72_T	76_T	1.015	1.00
151_V	193_G	1.015	1.00
240_E	244_V	1.015	1.00
72_T	140_L	1.012	1.00
75_I	137_A	1.012	1.00
18_A	22_A	1.011	1.00
66_F	70_F	1.010	1.00
28_L	36_G	1.007	1.00
145_L	149_V	1.004	1.00
82_G	86_F	0.991	1.00
250_N	262_A	0.981	1.00
85_V	174_R	0.980	1.00
71_I	75_I	0.979	1.00
97_T	157_R	0.971	1.00
85_V	178_V	0.970	1.00
32_I	49_S	0.965	1.00
24_I	37_V	0.961	1.00
185_S	188_P	0.958	1.00
19_A	23_A	0.955	1.00
172_V	177_T	0.953	1.00
204_E	208_L	0.951	1.00
134_I	138_L	0.948	1.00
48_K	260_A	0.944	1.00
204_E	207_A	0.940	1.00
137_A	141_T	0.937	1.00
140_L	201_V	0.936	1.00
245_H	265_G	0.929	1.00
245_H	248_N	0.922	1.00
133_I	137_A	0.910	1.00
53_A	59_R	0.910	1.00
32_I	267_A	0.901	1.00
70_F	74_L	0.899	1.00
67_Y	70_F	0.897	1.00
17_C	21_I	0.895	1.00
177_T	180_T	0.895	1.00
74_L	194_A	0.887	1.00
119_G	139_A	0.887	1.00
119_G	211_T	0.885	1.00
62_L	242_L	0.882	1.00
130_G	133_I	0.876	1.00
72_T	137_A	0.876	1.00
62_L	66_F	0.868	1.00
130_G	134_I	0.868	1.00
155_A	186_A	0.867	1.00
75_I	78_P	0.867	1.00
279_A	282_W	0.864	1.00
52_I	268_V	0.860	1.00
148_M	152_T	0.858	1.00
24_I	35_N	0.852	1.00
9_L	13_M	0.851	1.00
68_I	133_I	0.850	1.00
51_A	258_A	0.843	1.00
32_I	36_G	0.840	1.00
247_W	251_T	0.840	1.00
80_G	149_V	0.839	1.00
105_E	150_R	0.833	1.00
67_Y	134_I	0.824	1.00
187_I	190_I	0.824	1.00
14_F	18_A	0.824	1.00
208_L	241_T	0.823	1.00
84_G	156_I	0.822	1.00
84_G	88_A	0.821	1.00
186_A	189_S	0.816	1.00
152_T	186_A	0.814	1.00
174_R	178_V	0.812	1.00
178_V	183_I	0.809	1.00
197_A	201_V	0.809	1.00
12_G	16_L	0.808	1.00
179_K	183_I	0.808	1.00
76_T	80_G	0.804	1.00
58_I	265_G	0.796	1.00
209_L	244_V	0.795	1.00
98_D	101_R	0.794	1.00
63_F	66_F	0.794	1.00
86_F	92_P	0.789	1.00
8_K	11_T	0.786	1.00
68_I	140_L	0.784	1.00
177_T	182_L	0.783	1.00
172_V	180_T	0.780	1.00
28_L	39_Q	0.780	1.00
132_T	135_G	0.776	1.00
112_S	143_F	0.769	1.00
178_V	182_L	0.760	1.00
87_M	101_R	0.755	1.00
28_L	35_N	0.751	1.00
139_A	207_A	0.750	1.00
35_N	39_Q	0.750	1.00
39_Q	42_F	0.741	1.00
212_A	216_T	0.741	1.00
215_T	240_E	0.741	1.00
116_G	206_A	0.741	1.00
64_N	133_I	0.740	1.00
249_V	261_I	0.737	1.00
46_T	49_S	0.735	1.00
71_I	141_T	0.735	1.00
273_V	277_N	0.732	1.00
38_S	42_F	0.732	1.00
76_T	148_M	0.726	1.00
131_Y	214_L	0.726	1.00
136_G	140_L	0.725	1.00
244_V	248_N	0.723	1.00
282_W	286_M	0.720	1.00
69_L	73_M	0.720	1.00
9_L	12_G	0.719	1.00
80_G	152_T	0.714	1.00
44_F	47_T	0.713	1.00
120_L	124_V	0.713	1.00
163_L	181_V	0.712	1.00
135_G	139_A	0.712	1.00
161_K	168_L	0.712	1.00
33_I	37_V	0.706	1.00
249_V	265_G	0.705	1.00
124_V	130_G	0.705	1.00
159_V	186_A	0.703	1.00
166_A	170_L	0.702	1.00
61_Q	64_N	0.702	1.00
275_V	279_A	0.699	1.00
28_L	34_I	0.698	1.00
84_G	149_V	0.696	1.00
116_G	210_F	0.693	1.00
32_I	37_V	0.693	1.00
68_I	136_G	0.692	1.00
87_M	100_I	0.691	1.00
105_E	108_S	0.689	1.00
83_G	145_L	0.689	1.00
134_I	137_A	0.688	1.00
152_T	156_I	0.681	1.00
144_N	197_A	0.681	1.00
77_I	152_T	0.680	1.00
48_K	51_A	0.679	1.00
261_I	265_G	0.679	1.00
49_S	264_G	0.677	1.00
23_A	27_G	0.677	1.00
73_M	198_S	0.674	1.00
189_S	193_G	0.674	1.00
263_N	267_A	0.670	1.00
254_M	258_A	0.669	1.00
76_T	144_N	0.667	1.00
274_L	278_L	0.663	1.00
281_R	286_M	0.662	1.00
131_Y	135_G	0.660	1.00
212_A	240_E	0.659	1.00
76_T	201_V	0.658	1.00
259_E	262_A	0.657	1.00
108_S	146_P	0.655	1.00
182_L	185_S	0.654	1.00
87_M	153_E	0.649	1.00
121_L	126_L	0.648	1.00
28_L	38_S	0.642	1.00
56_G	60_D	0.640	1.00
259_E	263_N	0.640	1.00
151_V	189_S	0.638	1.00
55_G	59_R	0.638	1.00
28_L	40_L	0.628	1.00
45_I	49_S	0.628	1.00
190_I	194_A	0.627	1.00
190_I	193_G	0.626	1.00
65_S	243_A	0.622	1.00
119_G	122_M	0.622	1.00
65_S	202_F	0.620	1.00
59_R	62_L	0.618	1.00
263_N	266_S	0.614	1.00
27_G	30_S	0.613	1.00
112_S	206_A	0.613	1.00
16_L	19_A	0.611	1.00
279_A	283_L	0.611	1.00
90_Y	97_T	0.608	1.00
115_I	142_V	0.608	1.00
31_Y	38_S	0.607	1.00
42_F	45_I	0.606	1.00
177_T	181_V	0.606	1.00
43_Q	47_T	0.605	1.00
43_Q	46_T	0.604	1.00
243_A	269_L	0.604	1.00
52_I	261_I	0.602	1.00
73_M	77_I	0.597	1.00
52_I	265_G	0.597	1.00
101_R	150_R	0.595	1.00
83_G	104_I	0.594	1.00
280_A	283_L	0.592	1.00
121_L	124_V	0.588	1.00
68_I	137_A	0.585	1.00
79_L	141_T	0.584	1.00
135_G	211_T	0.581	1.00
42_F	46_T	0.578	1.00
204_E	241_T	0.578	1.00
199_G	203_G	0.575	1.00
76_T	141_T	0.575	1.00
269_L	273_V	0.575	1.00
15_G	18_A	0.574	1.00
136_G	212_A	0.571	1.00
166_A	169_A	0.571	1.00
91_A	96_V	0.569	1.00
79_L	145_L	0.569	1.00
27_G	34_I	0.568	1.00
73_M	201_V	0.563	1.00
242_L	269_L	0.562	1.00
50_S	53_A	0.561	1.00
61_Q	242_L	0.561	1.00
129_W	138_L	0.560	1.00
140_L	208_L	0.558	1.00
143_F	146_P	0.558	1.00
24_I	34_I	0.557	1.00
246_I	265_G	0.557	1.00
96_V	100_I	0.554	1.00
24_I	36_G	0.553	1.00
278_L	281_R	0.552	1.00
100_I	104_I	0.552	1.00
31_Y	39_Q	0.550	1.00
179_K	182_L	0.546	1.00
144_N	200_R	0.546	1.00
206_A	210_F	0.545	1.00
98_D	102_T	0.542	1.00
11_T	14_F	0.540	1.00
260_A	263_N	0.539	1.00
206_A	209_L	0.539	1.00
108_S	147_V	0.538	1.00
191_I	194_A	0.538	1.00
72_T	141_T	0.537	1.00
194_A	197_A	0.537	1.00
173_S	179_K	0.536	1.00
21_I	25_L	0.535	1.00
69_L	201_V	0.534	1.00
249_V	252_Q	0.534	1.00
280_A	284_G	0.532	1.00
56_G	59_R	0.529	1.00
112_S	116_G	0.529	1.00
140_L	204_E	0.528	1.00
83_G	86_F	0.525	1.00
272_S	275_V	0.525	1.00
92_P	100_I	0.525	1.00
200_R	203_G	0.525	1.00
53_A	56_G	0.525	1.00
12_G	15_G	0.522	1.00
244_V	247_W	0.522	1.00
13_M	16_L	0.521	1.00
103_C	107_L	0.518	1.00
86_F	90_Y	0.516	1.00
110_L	114_V	0.513	1.00
22_A	25_L	0.512	1.00
78_P	81_V	0.511	1.00
253_G	258_A	0.509	1.00
85_V	182_L	0.507	1.00
68_I	72_T	0.506	1.00
120_L	130_G	0.506	1.00
16_L	20_I	0.504	1.00
113_I	210_F	0.504	1.00
34_I	37_V	0.503	1.00
84_G	153_E	0.502	1.00
272_S	276_F	0.500	1.00
261_I	264_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
2onkC	2	0.8231	100	0.313	Contact Map
4tquM	1	0.8878	100	0.319	Contact Map
3d31C	2	0.8061	100	0.332	Contact Map
3rlfG	1	0.8776	100	0.361	Contact Map
3rlfF	1	0.898	100	0.376	Contact Map
4tquN	1	0.8707	100	0.378	Contact Map
4ymuD	2	0.7279	99.9	0.481	Contact Map
3tuiA	2	0.7177	99.9	0.495	Contact Map
3zuxA	1	0.8503	8.8	0.95	Contact Map
3w4tA	1	0.466	7.1	0.952	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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