GLNP - BACSU - GREMLIN Contacts

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GLNP - Probable glutamine ABC transporter permease protein GlnP

UniProt:	O34606	Sequences: MDFIGAYSQEHLAFLWDGFLVTLYVAFISIILSFFFGLIAGTLRYAKVPVLSQLIAVLVETIRNLPLLLIIFFTFFALPEIGIKLEITAAAITALTIFESAMLSEIIRSGLKSIDKGQIEAARSSGLSYTQTLFFIVMPQALRRMVPPIVSQFISLLKDTSLAVVIALPELIHNAQIINGQSADGSYFFPIFLLAALMYFAVNYSLSLAARRLEVRQT	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	218 (203)
Sequences:	19565 (11780)
Seq/√Len:	826.8

ECOLI - HISM GLTJ GLTK ARTQ HISQ YHDY ARTM GLNP YECS YHDX YEHY METI PROW PHNE YEHW TAUC CYSW CYST SSUC
BACSU - GLNP TCYM GLNM YCKA ARTQ YXEN TCYL TCYB METP OPUBB OPUCB OPUBD OPUAB OPUCD MDXF YTLD SSUC GANP YQGH AMYC
HALSA - Q9HNI9 Q9HML6 Q9HS11

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
32_L	96_T	3.309	1.00
122_A	132_T	3.011	1.00
150_V	210_A	2.959	1.00
91_A	163_A	2.956	1.00
128_S	131_Q	2.797	1.00
20_L	24_Y	2.739	1.00
187_Y	190_P	2.724	1.00
43_L	55_I	2.688	1.00
175_A	195_A	2.624	1.00
208_L	212_R	2.306	1.00
65_L	70_I	2.258	1.00
40_A	104_S	2.250	1.00
123_R	132_T	2.246	1.00
118_Q	140_Q	2.244	1.00
130_T	134_F	2.240	1.00
119_I	132_T	2.214	1.00
50_V	54_L	2.189	1.00
40_A	100_S	2.072	1.00
50_V	53_Q	2.002	1.00
119_I	123_R	1.949	1.00
173_H	177_I	1.899	1.00
36_F	100_S	1.880	1.00
44_R	56_A	1.859	1.00
28_I	92_I	1.848	1.00
208_L	211_R	1.799	1.00
49_P	53_Q	1.783	1.00
204_Y	208_L	1.779	1.00
21_V	24_Y	1.778	1.00
86_E	89_A	1.741	1.00
179_N	188_F	1.711	1.00
16_W	20_L	1.708	1.00
41_G	107_I	1.691	1.00
24_Y	88_T	1.677	1.00
26_A	157_L	1.669	1.00
74_T	94_A	1.656	1.00
113_S	144_R	1.648	1.00
45_Y	112_K	1.646	1.00
25_V	163_A	1.640	1.00
110_G	145_M	1.633	1.00
59_V	104_S	1.611	1.00
175_A	191_I	1.603	1.00
30_I	153_F	1.595	1.00
17_D	20_L	1.559	1.00
128_S	132_T	1.550	1.00
21_V	168_L	1.550	1.00
33_S	99_E	1.523	1.00
129_Y	133_L	1.492	1.00
209_A	212_R	1.475	1.00
105_E	108_R	1.475	1.00
19_F	202_V	1.453	1.00
14_F	17_D	1.449	1.00
200_F	204_Y	1.439	1.00
40_A	55_I	1.414	1.00
103_L	149_I	1.409	1.00
212_R	215_V	1.408	1.00
123_R	129_Y	1.403	1.00
38_L	107_I	1.372	1.00
174_N	177_I	1.366	1.00
131_Q	135_F	1.354	1.00
127_L	131_Q	1.341	1.00
48_V	53_Q	1.333	1.00
49_P	52_S	1.319	1.00
131_Q	134_F	1.299	1.00
26_A	160_T	1.267	1.00
28_I	96_T	1.265	1.00
35_F	39_I	1.252	1.00
12_L	16_W	1.240	1.00
70_I	98_F	1.231	1.00
32_L	92_I	1.220	1.00
39_I	43_L	1.207	1.00
107_I	145_M	1.194	1.00
24_Y	28_I	1.192	1.00
103_L	152_Q	1.186	1.00
88_T	92_I	1.184	1.00
71_I	94_A	1.172	1.00
173_H	176_Q	1.169	1.00
119_I	137_V	1.163	1.00
179_N	192_F	1.159	1.00
52_S	56_A	1.159	1.00
53_Q	57_V	1.158	1.00
122_A	136_I	1.150	1.00
62_I	97_I	1.141	1.00
48_V	51_L	1.138	1.00
37_G	103_L	1.126	1.00
87_I	167_A	1.122	1.00
14_F	174_N	1.122	1.00
169_P	173_H	1.116	1.00
108_R	112_K	1.115	1.00
71_I	163_A	1.109	1.00
65_L	98_F	1.107	1.00
55_I	104_S	1.097	1.00
129_Y	132_T	1.096	1.00
44_R	105_E	1.083	1.00
54_L	57_V	1.083	1.00
26_A	153_F	1.082	1.00
177_I	181_Q	1.076	1.00
114_I	141_A	1.073	1.00
106_I	152_Q	1.069	1.00
17_D	21_V	1.069	1.00
43_L	46_A	1.064	1.00
54_L	58_L	1.063	1.00
89_A	92_I	1.059	1.00
45_Y	111_L	1.048	1.00
111_L	137_V	1.046	1.00
30_I	156_L	1.043	1.00
176_Q	179_N	1.006	1.00
92_I	96_T	1.001	1.00
60_E	204_Y	0.989	1.00
74_T	90_A	0.986	1.00
88_T	168_L	0.983	1.00
211_R	215_V	0.970	1.00
157_L	202_V	0.969	1.00
13_A	17_D	0.965	1.00
58_L	100_S	0.963	1.00
106_I	148_P	0.956	1.00
122_A	127_L	0.954	1.00
70_I	74_T	0.950	1.00
133_L	138_M	0.946	1.00
29_S	96_T	0.944	1.00
41_G	111_L	0.944	1.00
22_T	157_L	0.937	1.00
178_I	191_I	0.935	1.00
163_A	170_E	0.935	1.00
57_V	60_E	0.930	1.00
67_L	159_D	0.925	1.00
205_S	209_A	0.920	1.00
71_I	162_L	0.914	1.00
43_L	51_L	0.905	1.00
48_V	54_L	0.904	1.00
67_L	98_F	0.902	1.00
116_K	120_E	0.899	1.00
155_S	159_D	0.899	1.00
127_L	135_F	0.895	1.00
62_I	101_A	0.892	1.00
161_S	199_Y	0.882	1.00
89_A	93_T	0.878	1.00
209_A	213_L	0.876	1.00
206_L	210_A	0.876	1.00
72_F	76_F	0.876	1.00
77_A	81_I	0.873	1.00
28_I	32_L	0.872	1.00
42_T	133_L	0.865	1.00
19_F	171_L	0.859	1.00
133_L	137_V	0.855	1.00
38_L	138_M	0.841	1.00
60_E	200_F	0.835	1.00
144_R	148_P	0.830	1.00
117_G	121_A	0.825	1.00
36_F	96_T	0.824	1.00
47_K	52_S	0.819	1.00
212_R	216_R	0.816	1.00
87_I	168_L	0.814	1.00
31_I	35_F	0.814	1.00
34_F	149_I	0.804	1.00
165_V	169_P	0.802	1.00
29_S	156_L	0.796	1.00
99_E	152_Q	0.793	1.00
73_F	77_A	0.791	1.00
157_L	206_L	0.788	1.00
19_F	198_M	0.787	1.00
114_I	144_R	0.783	1.00
29_S	95_L	0.779	1.00
71_I	166_I	0.779	1.00
211_R	214_E	0.777	1.00
163_A	168_L	0.774	1.00
194_L	198_M	0.768	1.00
41_G	45_Y	0.765	1.00
190_P	193_L	0.764	1.00
53_Q	56_A	0.763	1.00
46_A	55_I	0.759	1.00
58_L	101_A	0.757	1.00
201_A	205_S	0.755	1.00
18_G	174_N	0.748	1.00
48_V	52_S	0.736	1.00
91_A	166_I	0.734	1.00
70_I	94_A	0.731	1.00
56_A	60_E	0.730	1.00
33_S	103_L	0.729	1.00
175_A	179_N	0.726	1.00
75_F	166_I	0.724	1.00
27_F	31_I	0.722	1.00
58_L	62_I	0.721	1.00
13_A	16_W	0.721	1.00
44_R	47_K	0.721	1.00
110_G	144_R	0.719	1.00
95_L	160_T	0.715	1.00
75_F	90_A	0.714	1.00
28_I	31_I	0.707	1.00
119_I	129_Y	0.704	1.00
25_V	91_A	0.699	1.00
169_P	174_N	0.699	1.00
99_E	159_D	0.696	1.00
191_I	195_A	0.694	1.00
99_E	156_L	0.694	1.00
46_A	129_Y	0.692	1.00
68_L	165_V	0.691	1.00
23_L	27_F	0.688	1.00
95_L	156_L	0.685	1.00
157_L	203_N	0.682	1.00
116_K	119_I	0.676	1.00
207_S	211_R	0.675	1.00
51_L	54_L	0.673	1.00
21_V	170_E	0.667	1.00
107_I	111_L	0.662	1.00
103_L	107_I	0.660	1.00
111_L	141_A	0.659	1.00
22_T	199_Y	0.654	1.00
21_V	88_T	0.654	1.00
25_V	168_L	0.649	1.00
205_S	208_L	0.649	1.00
28_I	88_T	0.647	1.00
172_I	199_Y	0.643	1.00
43_L	54_L	0.642	1.00
32_L	35_F	0.641	1.00
61_T	65_L	0.639	1.00
146_V	213_L	0.638	1.00
148_P	151_S	0.636	1.00
164_V	173_H	0.635	1.00
172_I	195_A	0.634	1.00
99_E	103_L	0.632	1.00
179_N	191_I	0.630	1.00
85_L	89_A	0.628	1.00
116_K	123_R	0.627	1.00
171_L	198_M	0.627	1.00
22_T	26_A	0.625	1.00
73_F	193_L	0.624	1.00
25_V	29_S	0.623	1.00
96_T	100_S	0.620	1.00
182_S	188_F	0.619	1.00
87_I	166_I	0.619	1.00
24_Y	89_A	0.619	1.00
98_F	159_D	0.617	1.00
82_G	85_L	0.617	1.00
35_F	96_T	0.616	1.00
40_A	43_L	0.615	1.00
36_F	40_A	0.612	1.00
161_S	164_V	0.612	1.00
36_F	39_I	0.611	1.00
205_S	212_R	0.608	1.00
44_R	59_V	0.608	1.00
137_V	140_Q	0.606	1.00
32_L	36_F	0.602	1.00
193_L	196_A	0.601	1.00
210_A	213_L	0.601	1.00
172_I	192_F	0.597	1.00
11_H	178_I	0.595	1.00
44_R	52_S	0.591	1.00
75_F	85_L	0.587	1.00
204_Y	207_S	0.586	1.00
193_L	197_L	0.585	1.00
26_A	30_I	0.584	1.00
75_F	87_I	0.583	1.00
62_I	70_I	0.582	1.00
152_Q	155_S	0.581	1.00
16_W	19_F	0.580	1.00
38_L	142_L	0.577	1.00
57_V	61_T	0.575	1.00
95_L	163_A	0.575	1.00
161_S	172_I	0.571	1.00
15_L	198_M	0.569	1.00
77_A	80_E	0.568	1.00
78_L	83_I	0.568	1.00
128_S	135_F	0.566	1.00
192_F	195_A	0.563	1.00
35_F	38_L	0.562	1.00
127_L	132_T	0.558	1.00
197_L	201_A	0.553	1.00
91_A	168_L	0.552	1.00
189_F	193_L	0.552	1.00
34_F	107_I	0.552	1.00
67_L	95_L	0.551	1.00
189_F	192_F	0.549	1.00
176_Q	180_G	0.548	1.00
37_G	104_S	0.548	1.00
200_F	207_S	0.545	1.00
154_I	206_L	0.545	1.00
63_R	105_E	0.542	1.00
120_E	135_F	0.541	1.00
25_V	88_T	0.538	1.00
178_I	182_S	0.537	1.00
182_S	187_Y	0.535	1.00
192_F	196_A	0.535	1.00
195_A	198_M	0.533	1.00
47_K	129_Y	0.532	1.00
188_F	191_I	0.531	1.00
11_H	14_F	0.528	1.00
44_R	104_S	0.527	1.00
20_L	23_L	0.527	1.00
115_D	144_R	0.526	1.00
25_V	160_T	0.524	1.00
30_I	34_F	0.522	1.00
87_I	90_A	0.522	1.00
200_F	203_N	0.517	1.00
111_L	133_L	0.513	1.00
203_N	206_L	0.509	1.00
45_Y	48_V	0.509	1.00
110_G	114_I	0.509	1.00
109_S	148_P	0.509	1.00
110_G	148_P	0.507	1.00
34_F	103_L	0.503	1.00
175_A	178_I	0.502	1.00
190_P	194_L	0.501	1.00
98_F	102_M	0.500	1.00
203_N	207_S	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
4ymuD	2	0.9862	100	0.403	Contact Map
3tuiA	2	0.9541	99.9	0.485	Contact Map
2onkC	2	0.9633	99.9	0.497	Contact Map
3rlfF	1	0.9541	99.9	0.504	Contact Map
3d31C	2	0.945	99.9	0.507	Contact Map
4tquM	1	0.9908	99.9	0.532	Contact Map
3rlfG	1	0.9817	99.9	0.54	Contact Map
4tquN	1	0.9771	99.8	0.576	Contact Map
3j8eG	3	0.7064	3.7	0.957	Contact Map
5a63B	1	0.2844	3.1	0.958	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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