Q97UF3 - SULSO - GREMLIN Contacts

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Q97UF3 - Arabinose ABC transporter, permease

UniProt:	Q97UF3	Sequences: MERSVSKGSYITSSIKYALLEIIAAILVIMWLVPLYAMILGGLKSNLEAASTPILLPPSKPSLDAYAFAWFGYATIPGLEPTLLRYLLVAIPSVLLSVVIGTMTAYFFFVLSEKHGIISNGLFSIMALATFLPIETVTFPLIELETSLNVYNTYIGLIFAMLIFYVPTSALLMSIFLPVVPKYLIESARMDGAGDWTILWRVVFPLIFPGFLSTLIFVFLQIWNEFFIPLILTNTPNMLMLPVAARFYTAAYALIYNRSFAAGVISSLIPLIIFIFLGRYFIRGLAALGGGAKGV	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	295 (254)
Sequences:	68082 (44822)
Seq/√Len:	2812.4

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
197_T	201_R	4.054	1.00
84_L	88_L	3.253	1.00
189_R	198_I	3.125	1.00
174_S	178_P	3.054	1.00
81_P	84_L	2.688	1.00
82_T	244_A	2.671	1.00
42_G	66_Y	2.642	1.00
110_V	185_I	2.580	1.00
194_G	197_T	2.540	1.00
92_P	158_I	2.523	1.00
188_A	198_I	2.508	1.00
239_L	247_F	2.507	1.00
185_I	203_V	2.479	1.00
96_L	162_L	2.477	1.00
176_F	210_G	2.465	1.00
67_A	71_F	2.457	1.00
80_E	84_L	2.394	1.00
64_D	67_A	2.393	1.00
195_D	198_I	2.329	1.00
94_V	215_L	2.293	1.00
64_D	68_F	2.258	1.00
173_M	211_F	2.243	1.00
196_W	200_W	2.227	1.00
255_I	258_R	2.131	1.00
197_T	200_W	2.034	1.00
193_A	197_T	2.030	1.00
102_T	199_L	2.018	1.00
169_S	214_T	1.968	1.00
109_F	178_P	1.949	1.00
184_L	206_L	1.932	1.00
177_L	207_I	1.910	1.00
188_A	193_A	1.910	1.00
40_L	44_K	1.896	1.00
36_Y	40_L	1.869	1.00
102_T	207_I	1.847	1.00
123_F	174_S	1.835	1.00
98_V	215_L	1.823	1.00
81_P	85_R	1.763	1.00
189_R	195_D	1.750	1.00
185_I	198_I	1.710	1.00
236_P	239_L	1.699	1.00
90_A	219_F	1.695	1.00
88_L	92_P	1.684	1.00
101_G	169_S	1.663	1.00
102_T	173_M	1.651	1.00
104_T	170_A	1.633	1.00
68_F	258_R	1.632	1.00
93_S	222_I	1.621	1.00
185_I	189_R	1.582	1.00
108_F	170_A	1.557	1.00
182_K	185_I	1.526	1.00
68_F	71_F	1.513	1.00
244_A	248_Y	1.503	1.00
21_E	25_A	1.496	1.00
33_V	37_A	1.483	1.00
118_I	121_G	1.452	1.00
226_F	230_L	1.446	1.00
39_I	264_V	1.444	1.00
78_G	81_P	1.437	1.00
63_L	67_A	1.428	1.00
169_S	218_V	1.420	1.00
62_S	65_A	1.407	1.00
89_V	240_M	1.396	1.00
109_F	174_S	1.395	1.00
213_S	217_F	1.385	1.00
204_F	211_F	1.373	1.00
177_L	203_V	1.350	1.00
99_V	103_M	1.337	1.00
37_A	41_G	1.336	1.00
97_S	218_V	1.334	1.00
279_R	282_I	1.329	1.00
173_M	214_T	1.326	1.00
105_A	173_M	1.320	1.00
233_T	238_M	1.307	1.00
182_K	186_E	1.299	1.00
112_S	119_S	1.280	1.00
226_F	246_R	1.275	1.00
154_Y	238_M	1.260	1.00
110_V	182_K	1.255	1.00
102_T	211_F	1.245	1.00
228_I	232_L	1.241	1.00
188_A	202_V	1.232	1.00
68_F	72_G	1.225	1.00
183_Y	186_E	1.224	1.00
121_G	124_S	1.223	1.00
248_Y	255_I	1.222	1.00
95_L	99_V	1.217	1.00
145_E	156_G	1.216	1.00
239_L	244_A	1.210	1.00
48_E	60_K	1.204	1.00
160_A	232_L	1.204	1.00
106_Y	177_L	1.193	1.00
92_P	95_L	1.184	1.00
86_Y	241_L	1.184	1.00
98_V	211_F	1.182	1.00
15_I	19_L	1.180	1.00
247_F	251_A	1.169	1.00
25_A	29_I	1.166	1.00
14_S	18_A	1.162	1.00
180_V	206_L	1.161	1.00
85_R	88_L	1.160	1.00
248_Y	253_A	1.159	1.00
194_G	198_I	1.153	1.00
45_S	48_E	1.151	1.00
157_L	229_P	1.137	1.00
16_K	20_L	1.117	1.00
208_F	212_L	1.114	1.00
38_M	264_V	1.109	1.00
158_I	162_L	1.101	1.00
96_L	158_I	1.087	1.00
121_G	125_I	1.086	1.00
173_M	210_G	1.081	1.00
150_V	155_I	1.073	1.00
240_M	243_V	1.065	1.00
37_A	40_L	1.056	1.00
185_I	195_D	1.047	1.00
109_F	177_L	1.038	1.00
206_L	209_P	1.038	1.00
18_A	22_I	1.036	1.00
239_L	243_V	1.034	1.00
93_S	97_S	1.032	1.00
166_V	170_A	1.031	1.00
275_I	279_R	1.031	1.00
92_P	96_L	1.029	1.00
225_E	228_I	1.027	1.00
106_Y	195_D	1.022	1.00
87_L	91_I	1.014	1.00
106_Y	199_L	1.010	1.00
78_G	236_P	1.010	1.00
235_T	238_M	1.006	1.00
93_S	161_M	1.003	1.00
172_L	214_T	0.998	1.00
70_W	80_E	0.988	1.00
229_P	240_M	0.985	1.00
198_I	201_R	0.982	1.00
66_Y	264_V	0.982	1.00
119_S	178_P	0.980	1.00
103_M	107_F	0.979	1.00
17_Y	21_E	0.963	1.00
244_A	262_A	0.961	1.00
193_A	198_I	0.957	1.00
15_I	18_A	0.952	1.00
95_L	215_L	0.941	1.00
42_G	46_N	0.938	1.00
141_L	232_L	0.930	1.00
93_S	158_I	0.929	1.00
18_A	21_E	0.927	1.00
72_G	78_G	0.927	1.00
20_L	24_A	0.926	1.00
83_L	241_L	0.923	1.00
28_V	32_L	0.922	1.00
225_E	229_P	0.921	1.00
244_A	247_F	0.915	1.00
230_L	243_V	0.909	1.00
279_R	283_R	0.893	1.00
270_P	274_F	0.891	1.00
105_A	109_F	0.890	1.00
176_F	207_I	0.887	1.00
91_I	95_L	0.886	1.00
161_M	222_I	0.885	1.00
44_K	48_E	0.882	1.00
47_L	50_A	0.882	1.00
97_S	101_G	0.875	1.00
46_N	50_A	0.869	1.00
88_L	91_I	0.869	1.00
143_E	147_S	0.864	1.00
249_T	259_S	0.863	1.00
108_F	123_F	0.861	1.00
69_A	265_I	0.859	1.00
117_I	120_N	0.855	1.00
141_L	160_A	0.853	1.00
120_N	123_F	0.853	1.00
101_G	170_A	0.853	1.00
276_F	280_Y	0.852	1.00
200_W	204_F	0.852	1.00
208_F	211_F	0.849	1.00
41_G	44_K	0.848	1.00
246_R	250_A	0.848	1.00
83_L	87_L	0.841	1.00
41_G	260_F	0.839	1.00
207_I	210_G	0.839	1.00
43_L	61_P	0.835	1.00
199_L	204_F	0.835	1.00
198_I	203_V	0.833	1.00
127_A	171_L	0.833	1.00
96_L	99_V	0.833	1.00
134_I	164_F	0.832	1.00
79_L	262_A	0.831	1.00
142_I	146_T	0.827	1.00
152_N	235_T	0.824	1.00
169_S	173_M	0.822	1.00
173_M	207_I	0.822	1.00
160_A	228_I	0.820	1.00
105_A	170_A	0.817	1.00
84_L	87_L	0.814	1.00
89_V	161_M	0.810	1.00
92_P	162_L	0.808	1.00
65_A	257_N	0.803	1.00
272_I	276_F	0.800	1.00
248_Y	262_A	0.792	1.00
146_T	151_Y	0.792	1.00
88_L	154_Y	0.785	1.00
208_F	280_Y	0.780	1.00
218_V	222_I	0.778	1.00
195_D	199_L	0.776	1.00
38_M	260_F	0.775	1.00
41_G	45_S	0.774	1.00
138_T	227_F	0.772	1.00
184_L	202_V	0.767	1.00
248_Y	258_R	0.766	1.00
260_F	264_V	0.759	1.00
43_L	62_S	0.758	1.00
280_Y	283_R	0.755	1.00
156_G	160_A	0.754	1.00
138_T	231_I	0.747	1.00
61_P	64_D	0.743	1.00
77_P	81_P	0.740	1.00
97_S	165_Y	0.736	1.00
98_V	173_M	0.731	1.00
97_S	169_S	0.731	1.00
105_A	177_L	0.730	1.00
108_F	174_S	0.729	1.00
45_S	60_K	0.728	1.00
180_V	207_I	0.727	1.00
104_T	166_V	0.726	1.00
97_S	222_I	0.726	1.00
82_T	85_R	0.721	1.00
67_A	70_W	0.719	1.00
68_F	255_I	0.716	1.00
33_V	36_Y	0.713	1.00
38_M	263_G	0.712	1.00
241_L	266_S	0.709	1.00
199_L	203_V	0.709	1.00
173_M	177_L	0.706	1.00
211_F	214_T	0.702	1.00
89_V	157_L	0.701	1.00
193_A	201_R	0.699	1.00
94_V	219_F	0.698	1.00
90_A	94_V	0.698	1.00
108_F	122_L	0.696	1.00
82_T	241_L	0.696	1.00
150_V	153_T	0.695	1.00
266_S	270_P	0.695	1.00
100_I	166_V	0.692	1.00
243_V	247_F	0.690	1.00
65_A	68_F	0.689	1.00
127_A	130_T	0.688	1.00
72_G	77_P	0.684	1.00
182_K	189_R	0.683	1.00
271_L	275_I	0.683	1.00
187_S	191_D	0.682	1.00
165_Y	221_Q	0.681	1.00
137_V	163_I	0.680	1.00
134_I	227_F	0.680	1.00
258_R	262_A	0.678	1.00
80_E	83_L	0.678	1.00
19_L	22_I	0.673	1.00
22_I	25_A	0.670	1.00
62_S	66_Y	0.669	1.00
157_L	233_T	0.668	1.00
48_E	59_S	0.668	1.00
225_E	240_M	0.667	1.00
28_V	31_W	0.665	1.00
27_L	31_W	0.665	1.00
101_G	173_M	0.664	1.00
203_V	206_L	0.662	1.00
89_V	158_I	0.658	1.00
118_I	122_L	0.657	1.00
233_T	239_L	0.657	1.00
94_V	98_V	0.653	1.00
44_K	58_P	0.652	1.00
245_A	262_A	0.652	1.00
104_T	126_M	0.652	1.00
165_Y	218_V	0.651	1.00
34_P	38_M	0.650	1.00
77_P	80_E	0.648	1.00
45_S	59_S	0.642	1.00
157_L	161_M	0.639	1.00
210_G	214_T	0.638	1.00
86_Y	242_P	0.637	1.00
63_L	66_Y	0.636	1.00
211_F	215_L	0.636	1.00
19_L	23_I	0.636	1.00
17_Y	20_L	0.632	1.00
143_E	146_T	0.630	1.00
187_S	190_M	0.615	1.00
69_A	258_R	0.612	1.00
229_P	243_V	0.611	1.00
24_A	28_V	0.609	1.00
172_L	210_G	0.607	1.00
126_M	167_P	0.606	1.00
14_S	17_Y	0.606	1.00
277_L	280_Y	0.602	1.00
141_L	144_L	0.601	1.00
100_I	162_L	0.601	1.00
107_F	111_L	0.598	1.00
123_F	171_L	0.598	1.00
242_P	266_S	0.597	1.00
60_K	64_D	0.596	1.00
69_A	262_A	0.592	1.00
117_I	121_G	0.591	1.00
29_I	33_V	0.590	1.00
90_A	222_I	0.589	1.00
256_Y	260_F	0.586	1.00
260_F	263_G	0.584	1.00
145_E	151_Y	0.584	1.00
151_Y	154_Y	0.583	1.00
227_F	230_L	0.581	1.00
89_V	93_S	0.581	1.00
212_L	215_L	0.581	1.00
200_W	203_V	0.580	1.00
30_M	34_P	0.579	1.00
41_G	46_N	0.578	1.00
23_I	27_L	0.577	1.00
124_S	128_L	0.576	1.00
135_E	231_I	0.575	1.00
97_S	162_L	0.574	1.00
105_A	174_S	0.573	1.00
272_I	275_I	0.573	1.00
130_T	168_T	0.571	1.00
78_G	244_A	0.570	1.00
32_L	36_Y	0.570	1.00
98_V	102_T	0.569	1.00
120_N	124_S	0.569	1.00
42_G	261_A	0.565	1.00
198_I	202_V	0.564	1.00
104_T	107_F	0.564	1.00
180_V	185_I	0.563	1.00
161_M	225_E	0.561	1.00
161_M	164_F	0.561	1.00
257_N	260_F	0.560	1.00
220_L	224_N	0.560	1.00
258_R	261_A	0.559	1.00
215_L	218_V	0.558	1.00
122_L	126_M	0.556	1.00
112_S	117_I	0.555	1.00
86_Y	223_W	0.552	1.00
130_T	167_P	0.552	1.00
90_A	223_W	0.552	1.00
44_K	60_K	0.549	1.00
85_R	238_M	0.546	1.00
150_V	154_Y	0.546	1.00
106_Y	203_V	0.545	1.00
44_K	59_S	0.545	1.00
66_Y	261_A	0.544	1.00
243_V	246_R	0.543	1.00
256_Y	259_S	0.543	1.00
227_F	231_I	0.543	1.00
125_I	129_A	0.542	1.00
222_I	225_E	0.541	1.00
156_G	232_L	0.540	1.00
67_A	72_G	0.539	1.00
129_A	167_P	0.539	1.00
269_I	272_I	0.537	1.00
164_F	167_P	0.537	1.00
34_P	39_I	0.536	1.00
144_L	151_Y	0.536	1.00
221_Q	224_N	0.535	1.00
138_T	142_I	0.535	1.00
71_F	77_P	0.533	1.00
93_S	162_L	0.533	1.00
85_R	240_M	0.532	1.00
34_P	41_G	0.531	1.00
45_S	49_A	0.531	1.00
34_P	37_A	0.526	1.00
123_F	178_P	0.524	1.00
194_G	200_W	0.522	1.00
275_I	278_G	0.520	1.00
45_S	62_S	0.519	1.00
134_I	138_T	0.517	1.00
21_E	24_A	0.514	1.00
254_L	257_N	0.509	1.00
94_V	99_V	0.509	1.00
34_P	42_G	0.506	1.00
89_V	154_Y	0.506	1.00
111_L	195_D	0.505	1.00
16_K	19_L	0.505	1.00
34_P	46_N	0.502	1.00
106_Y	110_V	0.502	1.00
42_G	264_V	0.501	1.00
187_S	193_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
4tquN	1	0.9119	100	0.297	Contact Map
3rlfG	1	0.9186	100	0.306	Contact Map
2onkC	2	0.8203	100	0.329	Contact Map
3d31C	2	0.8034	100	0.355	Contact Map
4tquM	1	0.8814	100	0.367	Contact Map
3rlfF	1	0.9051	100	0.419	Contact Map
4ymuD	2	0.7254	99.9	0.51	Contact Map
3tuiA	2	0.7153	99.9	0.546	Contact Map
2kogA	1	0.1356	8.5	0.952	Contact Map
2m8rA	1	0.1322	8.2	0.953	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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