YVGM - BACSU - GREMLIN Contacts

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YVGM - Putative molybdenum transport system permease protein YvgM

UniProt:	O32209	Sequences: MALLPSSISASEFFTPVVLSFQVAAVAGIVVIILGTLAGAWMSRASFFGKTALETCFMLPLVLPPTVVGFILIVIFGKHSFIGQAIEWIFQQPVIFTWWAAVIASAVVAFPLMYQSAKTGFADIDPDIQGAAMVDGASRWKVFIHISVPLAYPSLLTGSILSLARALGEFGATLMFAGNIPGVTQTLPTAIYVALDSGNNTLAWAWVVCIVVISFLMLFFIQQKKTH	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	227 (204)
Sequences:	68498 (41047)
Seq/√Len:	2873.8

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
141_K	145_H	3.867	1.00
18_V	22_Q	3.029	1.00
118_K	122_A	2.786	1.00
133_M	142_V	2.738	1.00
129_Q	147_S	2.594	1.00
44_R	129_Q	2.480	1.00
16_P	190_A	2.436	1.00
120_G	154_S	2.404	1.00
132_A	142_V	2.390	1.00
15_T	18_V	2.384	1.00
138_S	141_K	2.313	1.00
26_V	102_V	2.306	1.00
185_Q	193_V	2.286	1.00
28_G	159_S	2.276	1.00
5_P	9_S	2.259	1.00
30_V	106_A	2.256	1.00
117_A	155_L	2.177	1.00
139_R	142_V	2.157	1.00
140_W	144_I	2.150	1.00
14_F	18_V	2.136	1.00
199_N	202_L	2.104	1.00
47_F	50_K	2.057	1.00
137_A	141_K	1.985	1.00
36_T	143_F	1.925	1.00
43_S	122_A	1.911	1.00
141_K	144_I	1.910	1.00
113_M	158_G	1.901	1.00
121_F	151_A	1.901	1.00
128_I	150_L	1.758	1.00
54_E	118_K	1.730	1.00
22_Q	98_W	1.709	1.00
32_I	159_S	1.688	1.00
24_A	163_L	1.687	1.00
132_A	137_A	1.683	1.00
129_Q	142_V	1.680	1.00
133_M	139_R	1.678	1.00
36_T	151_A	1.667	1.00
15_T	19_L	1.622	1.00
42_M	114_Y	1.600	1.00
6_S	202_L	1.565	1.00
35_G	113_M	1.547	1.00
182_G	185_Q	1.541	1.00
129_Q	133_M	1.536	1.00
190_A	194_A	1.515	1.00
36_T	117_A	1.505	1.00
22_Q	26_V	1.496	1.00
27_A	166_A	1.485	1.00
38_A	114_Y	1.454	1.00
33_I	37_L	1.453	1.00
113_M	162_S	1.444	1.00
39_G	117_A	1.423	1.00
98_W	184_T	1.413	1.00
46_S	50_K	1.405	1.00
148_V	155_L	1.377	1.00
49_G	52_A	1.369	1.00
126_P	129_Q	1.350	1.00
170_F	174_L	1.334	1.00
157_T	161_L	1.328	1.00
43_S	118_K	1.304	1.00
117_A	158_G	1.301	1.00
104_A	176_F	1.289	1.00
4_L	208_V	1.262	1.00
121_F	147_S	1.257	1.00
44_R	126_P	1.246	1.00
6_S	9_S	1.241	1.00
179_N	183_V	1.226	1.00
12_E	15_T	1.220	1.00
170_F	192_Y	1.218	1.00
172_A	176_F	1.211	1.00
31_V	162_S	1.205	1.00
23_V	186_T	1.202	1.00
132_A	146_I	1.191	1.00
36_T	155_L	1.176	1.00
20_S	187_L	1.171	1.00
94_V	97_T	1.170	1.00
40_A	121_F	1.168	1.00
185_Q	190_A	1.156	1.00
177_A	184_T	1.153	1.00
194_A	199_N	1.152	1.00
126_P	130_G	1.147	1.00
76_F	100_A	1.146	1.00
194_A	197_S	1.126	1.00
138_S	142_V	1.126	1.00
124_I	150_L	1.125	1.00
186_T	189_T	1.124	1.00
110_F	114_Y	1.111	1.00
19_L	22_Q	1.109	1.00
179_N	184_T	1.107	1.00
26_V	29_I	1.104	1.00
152_Y	156_L	1.097	1.00
127_D	130_G	1.094	1.00
29_I	33_I	1.087	1.00
52_A	55_T	1.085	1.00
17_V	187_L	1.066	1.00
173_T	186_T	1.065	1.00
43_S	121_F	1.059	1.00
8_I	14_F	1.056	1.00
30_V	102_V	1.024	1.00
52_A	56_C	1.018	1.00
37_L	41_W	1.009	1.00
150_L	153_P	1.003	1.00
169_E	173_T	1.002	1.00
40_A	143_F	0.993	1.00
50_K	122_A	0.993	1.00
32_I	155_L	0.987	1.00
27_A	105_S	0.986	1.00
101_A	173_T	0.982	1.00
190_A	206_W	0.976	1.00
4_L	205_A	0.971	1.00
214_S	218_L	0.969	1.00
117_A	154_S	0.967	1.00
137_A	142_V	0.964	1.00
26_V	30_V	0.964	1.00
99_W	103_I	0.964	1.00
27_A	31_V	0.963	1.00
105_S	166_A	0.958	1.00
116_S	158_G	0.956	1.00
129_Q	139_R	0.955	1.00
169_E	172_A	0.953	1.00
185_Q	189_T	0.952	1.00
142_V	145_H	0.948	1.00
6_S	10_A	0.939	1.00
40_A	139_R	0.924	1.00
21_F	25_A	0.922	1.00
7_S	209_C	0.921	1.00
74_V	78_K	0.912	1.00
39_G	43_S	0.908	1.00
98_W	102_V	0.902	1.00
17_V	21_F	0.896	1.00
6_S	199_N	0.895	1.00
48_F	51_T	0.895	1.00
102_V	106_A	0.888	1.00
25_A	29_I	0.887	1.00
117_A	151_A	0.886	1.00
19_L	98_W	0.884	1.00
69_G	171_G	0.875	1.00
104_A	172_A	0.874	1.00
94_V	99_W	0.868	1.00
152_Y	155_L	0.864	1.00
96_F	179_N	0.862	1.00
137_A	145_H	0.862	1.00
65_P	108_V	0.860	1.00
193_V	196_D	0.860	1.00
120_G	151_A	0.855	1.00
13_F	206_W	0.851	1.00
22_Q	25_A	0.849	1.00
35_G	114_Y	0.848	1.00
72_L	176_F	0.846	1.00
151_A	154_S	0.842	1.00
29_I	159_S	0.841	1.00
144_I	148_V	0.841	1.00
22_Q	99_W	0.840	1.00
58_M	115_Q	0.839	1.00
72_L	104_A	0.836	1.00
39_G	121_F	0.833	1.00
27_A	102_V	0.829	1.00
23_V	98_W	0.827	1.00
143_F	148_V	0.826	1.00
200_N	203_A	0.825	1.00
51_T	54_E	0.819	1.00
73_I	77_G	0.818	1.00
142_V	147_S	0.816	1.00
41_W	47_F	0.815	1.00
194_A	206_W	0.812	1.00
100_A	104_A	0.811	1.00
30_V	33_I	0.808	1.00
113_M	117_A	0.805	1.00
194_A	202_L	0.796	1.00
39_G	114_Y	0.795	1.00
174_L	189_T	0.794	1.00
24_A	28_G	0.787	1.00
58_M	61_L	0.781	1.00
31_V	35_G	0.771	1.00
162_S	166_A	0.769	1.00
12_E	182_G	0.769	1.00
7_S	202_L	0.762	1.00
69_G	175_M	0.760	1.00
32_I	117_A	0.759	1.00
177_A	185_Q	0.749	1.00
169_E	186_T	0.748	1.00
31_V	109_A	0.746	1.00
202_L	206_W	0.744	1.00
26_V	106_A	0.743	1.00
117_A	121_F	0.739	1.00
128_I	146_I	0.738	1.00
200_N	204_W	0.736	1.00
38_A	110_F	0.733	1.00
126_P	133_M	0.732	1.00
18_V	21_F	0.730	1.00
139_R	143_F	0.729	1.00
190_A	193_V	0.724	1.00
35_G	117_A	0.724	1.00
191_I	206_W	0.723	1.00
68_V	107_V	0.722	1.00
10_A	14_F	0.721	1.00
216_L	220_F	0.717	1.00
204_W	208_V	0.709	1.00
42_M	53_L	0.708	1.00
143_F	147_S	0.706	1.00
23_V	105_S	0.702	1.00
42_M	54_E	0.696	1.00
42_M	118_K	0.695	1.00
124_I	151_A	0.691	1.00
41_W	45_A	0.690	1.00
131_A	135_D	0.690	1.00
16_P	19_L	0.689	1.00
65_P	171_G	0.682	1.00
99_W	102_V	0.678	1.00
101_A	177_A	0.674	1.00
77_G	95_I	0.672	1.00
173_T	189_T	0.672	1.00
28_G	163_L	0.672	1.00
155_L	158_G	0.666	1.00
54_E	115_Q	0.666	1.00
5_P	8_I	0.662	1.00
7_S	206_W	0.659	1.00
20_S	188_P	0.653	1.00
28_G	32_I	0.653	1.00
16_P	187_L	0.651	1.00
193_V	197_S	0.651	1.00
131_A	134_V	0.650	1.00
47_F	53_L	0.646	1.00
61_L	111_P	0.646	1.00
109_A	162_S	0.642	1.00
201_T	204_W	0.641	1.00
31_V	113_M	0.638	1.00
100_A	176_F	0.634	1.00
46_S	51_T	0.629	1.00
138_S	144_I	0.628	1.00
14_F	17_V	0.628	1.00
188_P	210_I	0.628	1.00
34_L	106_A	0.625	1.00
20_S	167_L	0.623	1.00
8_I	209_C	0.617	1.00
207_V	210_I	0.616	1.00
154_S	158_G	0.611	1.00
147_S	150_L	0.610	1.00
74_V	77_G	0.608	1.00
23_V	101_A	0.606	1.00
210_I	214_S	0.599	1.00
31_V	106_A	0.598	1.00
213_I	216_L	0.597	1.00
105_S	173_T	0.596	1.00
12_E	185_Q	0.595	1.00
28_G	166_A	0.594	1.00
187_L	210_I	0.591	1.00
189_T	193_V	0.587	1.00
155_L	159_S	0.586	1.00
66_T	175_M	0.584	1.00
179_N	185_Q	0.582	1.00
34_L	110_F	0.582	1.00
10_A	202_L	0.580	1.00
38_A	57_F	0.577	1.00
11_S	14_F	0.574	1.00
116_S	154_S	0.572	1.00
73_I	95_I	0.572	1.00
11_S	15_T	0.569	1.00
109_A	165_R	0.568	1.00
165_R	168_G	0.567	1.00
142_V	146_I	0.567	1.00
101_A	105_S	0.563	1.00
204_W	207_V	0.562	1.00
164_A	168_G	0.557	1.00
31_V	166_A	0.555	1.00
65_P	69_G	0.552	1.00
95_I	99_W	0.551	1.00
39_G	118_K	0.551	1.00
63_L	67_V	0.550	1.00
215_F	219_F	0.550	1.00
24_A	167_L	0.544	1.00
23_V	102_V	0.543	1.00
49_G	53_L	0.543	1.00
36_T	121_F	0.543	1.00
40_A	147_S	0.542	1.00
147_S	151_A	0.541	1.00
34_L	37_L	0.539	1.00
124_I	129_Q	0.538	1.00
171_G	174_L	0.537	1.00
56_C	60_P	0.535	1.00
48_F	52_A	0.534	1.00
156_L	159_S	0.534	1.00
61_L	112_L	0.533	1.00
144_I	147_S	0.533	1.00
15_T	22_Q	0.530	1.00
55_T	59_L	0.529	1.00
53_L	57_F	0.528	1.00
72_L	75_I	0.524	1.00
201_T	205_A	0.522	1.00
159_S	162_S	0.519	1.00
42_M	47_F	0.519	1.00
173_T	177_A	0.517	1.00
45_A	139_R	0.516	1.00
46_S	126_P	0.516	1.00
202_L	205_A	0.512	1.00
125_D	128_I	0.511	1.00
33_I	36_T	0.510	1.00
27_A	106_A	0.510	1.00
51_T	55_T	0.508	1.00
189_T	192_Y	0.506	1.00
32_I	36_T	0.505	1.00
19_L	186_T	0.504	1.00
97_T	100_A	0.504	1.00
211_V	214_S	0.503	1.00
23_V	27_A	0.502	1.00
22_Q	102_V	0.502	1.00
8_I	11_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
2onkC	2	0.9604	100	0.224	Contact Map
3d31C	2	0.9515	100	0.228	Contact Map
4tquM	1	1	100	0.259	Contact Map
3rlfF	1	0.9648	100	0.267	Contact Map
3rlfG	1	0.9559	100	0.308	Contact Map
4tquN	1	0.9163	100	0.315	Contact Map
4ymuD	2	0.9295	99.9	0.4	Contact Map
3tuiA	2	0.9031	99.9	0.449	Contact Map
4mrsA	2	0.3744	7.8	0.943	Contact Map
2cfqA	1	0.8326	3.9	0.95	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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