MODB - ECOLI - GREMLIN Contacts

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MODB - Molybdenum transport system permease protein ModB

UniProt:	P0AF01	Sequences: MILTDPEWQAVLLSLKVSSLAVLFSLPFGIFFAWLLVRCTFPGKALLDSVLHLPLVLPPVVVGYLLLVSMGRRGFIGERLYDWFGITFAFSWRGAVLAAAVMSFPLMVRAIRLALEGVDVKLEQAARTLGAGRWRVFFTITLPLTLPGIIVGTVLAFARSLGEFGATITFVSNIPGETRTIPSAMYTLIQTPGGESGAARLCIISIALAMISLLISEWLARISRERAGR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG10002
Length:	229 (201)
Sequences:	67620 (39410)
Seq/√Len:	2779.8

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

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
135_R	139_T	3.871	1.00
12_L	16_K	3.144	1.00
112_R	116_E	2.909	1.00
127_R	136_V	2.905	1.00
123_E	141_T	2.534	1.00
114_A	148_G	2.523	1.00
38_R	123_E	2.499	1.00
126_A	136_V	2.470	1.00
9_Q	12_L	2.424	1.00
20_L	96_V	2.380	1.00
132_G	135_R	2.362	1.00
10_A	184_A	2.292	1.00
24_F	100_A	2.291	1.00
22_V	153_T	2.284	1.00
179_R	187_T	2.282	1.00
133_R	136_V	2.247	1.00
8_W	12_L	2.206	1.00
111_I	149_I	2.161	1.00
194_G	197_G	2.145	1.00
134_W	138_F	2.124	1.00
41_F	44_K	2.110	1.00
131_A	135_R	2.024	1.00
107_M	152_G	1.939	1.00
135_R	138_F	1.934	1.00
115_L	145_T	1.923	1.00
30_I	137_F	1.913	1.00
37_V	116_E	1.882	1.00
16_K	92_W	1.835	1.00
48_D	112_R	1.823	1.00
122_L	144_L	1.778	1.00
214_L	218_W	1.768	1.00
126_A	131_A	1.737	1.00
18_S	157_F	1.723	1.00
123_E	136_V	1.698	1.00
26_L	153_T	1.694	1.00
127_R	133_R	1.685	1.00
30_I	145_T	1.682	1.00
184_A	188_L	1.676	1.00
9_Q	13_L	1.651	1.00
123_E	127_R	1.605	1.00
21_A	160_S	1.592	1.00
36_L	108_V	1.582	1.00
29_G	107_M	1.558	1.00
16_K	20_L	1.551	1.00
30_I	111_I	1.533	1.00
107_M	156_A	1.511	1.00
32_F	108_V	1.500	1.00
27_P	31_F	1.468	1.00
120_V	123_E	1.459	1.00
43_G	46_L	1.409	1.00
33_A	111_I	1.388	1.00
40_T	44_K	1.383	1.00
179_R	184_A	1.376	1.00
142_L	149_I	1.342	1.00
151_V	155_L	1.341	1.00
164_F	168_I	1.340	1.00
111_I	152_G	1.336	1.00
37_V	112_R	1.288	1.00
98_A	170_F	1.271	1.00
38_R	120_V	1.265	1.00
25_S	156_A	1.264	1.00
166_A	170_F	1.258	1.00
6_P	9_Q	1.251	1.00
115_L	141_T	1.250	1.00
30_I	149_I	1.220	1.00
92_W	178_T	1.218	1.00
34_W	115_L	1.204	1.00
120_V	124_Q	1.192	1.00
121_K	124_Q	1.192	1.00
216_S	219_L	1.183	1.00
188_L	194_G	1.181	1.00
126_A	140_I	1.175	1.00
13_L	16_K	1.171	1.00
70_M	94_G	1.171	1.00
188_L	192_P	1.170	1.00
180_T	183_S	1.151	1.00
146_L	150_I	1.136	1.00
91_S	178_T	1.133	1.00
46_L	49_S	1.131	1.00
14_S	181_I	1.129	1.00
23_L	27_P	1.121	1.00
118_V	144_L	1.113	1.00
132_G	136_V	1.110	1.00
20_L	23_L	1.107	1.00
104_F	108_V	1.090	1.00
90_F	93_R	1.084	1.00
37_V	115_L	1.083	1.00
215_I	218_W	1.075	1.00
187_T	191_T	1.063	1.00
173_N	177_E	1.058	1.00
26_L	149_I	1.035	1.00
24_F	96_V	1.029	1.00
46_L	50_V	1.018	1.00
171_V	178_T	1.016	1.00
184_A	187_T	1.006	1.00
179_R	183_S	1.001	1.00
144_L	147_P	0.996	1.00
164_F	186_Y	0.989	1.00
20_L	24_F	0.986	1.00
131_A	136_V	0.985	1.00
17_V	180_T	0.976	1.00
31_F	35_L	0.976	1.00
95_A	167_T	0.972	1.00
68_V	72_R	0.972	1.00
163_E	167_T	0.970	1.00
21_A	25_S	0.970	1.00
123_E	133_R	0.968	1.00
111_I	148_G	0.967	1.00
89_A	93_R	0.965	1.00
186_Y	190_Q	0.961	1.00
184_A	201_L	0.959	1.00
34_W	137_F	0.958	1.00
96_V	100_A	0.956	1.00
136_V	139_T	0.953	1.00
11_V	181_I	0.951	1.00
44_K	116_E	0.949	1.00
163_E	166_A	0.949	1.00
21_A	99_A	0.931	1.00
110_A	152_G	0.925	1.00
15_L	19_S	0.924	1.00
93_R	97_L	0.923	1.00
167_T	180_T	0.922	1.00
131_A	139_T	0.919	1.00
23_L	153_T	0.916	1.00
92_W	96_V	0.901	1.00
34_W	133_R	0.895	1.00
13_L	92_W	0.894	1.00
99_A	160_S	0.889	1.00
33_A	37_V	0.888	1.00
98_A	166_A	0.888	1.00
88_F	93_R	0.881	1.00
19_S	23_L	0.877	1.00
189_I	198_A	0.873	1.00
66_L	170_F	0.871	1.00
16_K	93_R	0.868	1.00
66_L	98_A	0.867	1.00
111_I	145_T	0.858	1.00
59_P	102_M	0.856	1.00
11_V	15_L	0.853	1.00
145_T	148_G	0.849	1.00
136_V	141_T	0.846	1.00
16_K	19_S	0.846	1.00
42_P	45_A	0.844	1.00
29_G	108_V	0.837	1.00
195_E	198_A	0.837	1.00
146_L	149_I	0.833	1.00
45_A	48_D	0.832	1.00
188_L	197_G	0.831	1.00
209_A	213_L	0.831	1.00
138_F	142_L	0.829	1.00
33_A	115_L	0.826	1.00
7_E	201_L	0.826	1.00
17_V	92_W	0.825	1.00
89_A	92_W	0.818	1.00
67_L	71_G	0.814	1.00
21_A	96_V	0.813	1.00
35_L	41_F	0.808	1.00
197_G	201_L	0.808	1.00
137_F	142_L	0.803	1.00
173_N	178_T	0.796	1.00
114_A	145_T	0.795	1.00
52_H	109_R	0.795	1.00
156_A	160_S	0.795	1.00
176_G	179_R	0.791	1.00
24_F	27_P	0.782	1.00
217_E	220_A	0.781	1.00
107_M	111_I	0.780	1.00
215_I	219_L	0.778	1.00
25_S	29_G	0.772	1.00
168_I	183_S	0.768	1.00
90_F	173_N	0.767	1.00
63_G	165_G	0.767	1.00
195_E	199_A	0.761	1.00
33_A	108_V	0.760	1.00
18_S	22_V	0.758	1.00
12_L	15_L	0.756	1.00
25_S	103_S	0.755	1.00
17_V	99_A	0.755	1.00
133_R	137_F	0.744	1.00
52_H	55_L	0.743	1.00
173_N	176_G	0.740	1.00
71_G	89_A	0.738	1.00
125_A	129_L	0.735	1.00
177_E	182_P	0.733	1.00
32_F	104_F	0.726	1.00
36_L	48_D	0.725	1.00
26_L	111_I	0.725	1.00
62_V	101_V	0.722	1.00
20_L	100_A	0.721	1.00
36_L	47_L	0.713	1.00
10_A	13_L	0.713	1.00
36_L	112_R	0.712	1.00
35_L	39_C	0.710	1.00
163_E	180_T	0.709	1.00
91_S	94_G	0.702	1.00
183_S	187_T	0.700	1.00
188_L	201_L	0.700	1.00
94_G	98_A	0.698	1.00
199_A	203_I	0.698	1.00
137_F	141_T	0.697	1.00
29_G	111_I	0.696	1.00
122_L	140_I	0.688	1.00
103_S	156_A	0.688	1.00
63_G	169_T	0.687	1.00
93_R	96_V	0.686	1.00
120_V	127_R	0.685	1.00
125_A	128_T	0.674	1.00
22_V	157_F	0.671	1.00
111_I	115_L	0.670	1.00
59_P	165_G	0.668	1.00
178_T	182_P	0.665	1.00
196_S	199_A	0.663	1.00
149_I	152_G	0.656	1.00
41_F	47_L	0.653	1.00
118_V	145_T	0.652	1.00
25_S	107_M	0.651	1.00
5_D	8_W	0.650	1.00
28_F	100_A	0.649	1.00
205_S	209_A	0.649	1.00
67_L	89_A	0.646	1.00
103_S	159_R	0.644	1.00
95_A	171_V	0.642	1.00
8_W	11_V	0.638	1.00
48_D	109_R	0.636	1.00
90_F	94_G	0.633	1.00
199_A	202_C	0.630	1.00
22_V	26_L	0.625	1.00
68_V	71_G	0.622	1.00
10_A	181_I	0.621	1.00
25_S	160_S	0.618	1.00
148_G	152_G	0.614	1.00
32_F	51_L	0.611	1.00
25_S	100_A	0.611	1.00
216_S	220_A	0.610	1.00
14_S	161_L	0.609	1.00
183_S	186_Y	0.608	1.00
40_T	45_A	0.606	1.00
5_D	9_Q	0.599	1.00
17_V	95_A	0.598	1.00
6_P	179_R	0.597	1.00
141_T	144_L	0.597	1.00
213_L	217_E	0.593	1.00
95_A	99_A	0.592	1.00
194_G	198_A	0.592	1.00
211_I	215_I	0.591	1.00
55_L	105_P	0.588	1.00
149_I	153_T	0.588	1.00
14_S	182_P	0.586	1.00
167_T	183_S	0.580	1.00
138_F	141_T	0.579	1.00
94_G	170_F	0.576	1.00
60_V	169_T	0.574	1.00
39_C	133_R	0.574	1.00
171_V	179_R	0.574	1.00
197_G	200_R	0.573	1.00
28_F	104_F	0.571	1.00
165_G	168_I	0.569	1.00
22_V	160_S	0.569	1.00
188_L	191_T	0.569	1.00
50_V	54_P	0.568	1.00
66_L	69_S	0.566	1.00
9_Q	16_K	0.563	1.00
214_L	217_E	0.563	1.00
182_P	188_L	0.556	1.00
34_W	141_T	0.552	1.00
43_G	47_L	0.552	1.00
150_I	153_T	0.548	1.00
132_G	138_F	0.548	1.00
33_A	112_R	0.546	1.00
17_V	21_A	0.544	1.00
182_P	205_S	0.544	1.00
26_L	30_I	0.543	1.00
159_R	162_G	0.542	1.00
141_T	145_T	0.542	1.00
49_S	53_L	0.538	1.00
185_M	201_L	0.536	1.00
136_V	140_I	0.536	1.00
45_A	49_S	0.534	1.00
153_T	156_A	0.532	1.00
42_P	46_L	0.532	1.00
30_I	115_L	0.531	1.00
179_R	188_L	0.530	1.00
158_A	162_G	0.524	1.00
208_L	211_I	0.523	1.00
17_V	96_V	0.522	1.00
55_L	106_L	0.522	1.00
119_D	122_L	0.521	1.00
63_G	67_L	0.521	1.00
110_A	148_G	0.520	1.00
99_A	167_T	0.517	1.00
182_P	186_Y	0.516	1.00
59_P	63_G	0.514	1.00
160_S	163_E	0.513	1.00
47_L	51_L	0.512	1.00
182_P	185_M	0.510	1.00
28_F	31_F	0.509	1.00
179_R	182_P	0.507	1.00
18_S	161_L	0.505	1.00
48_D	116_E	0.503	1.00
57_L	61_V	0.502	1.00
202_C	205_S	0.500	1.00
13_L	178_T	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	0.9258	100	0.233	Contact Map
3d31C	2	0.917	100	0.233	Contact Map
3rlfF	1	0.9345	100	0.269	Contact Map
4tquM	1	0.9782	100	0.273	Contact Map
3rlfG	1	0.9607	100	0.338	Contact Map
4tquN	1	0.8821	100	0.368	Contact Map
4ymuD	2	0.9039	100	0.375	Contact Map
3tuiA	2	0.8996	99.9	0.411	Contact Map
4mt1A	3	0.7948	17.6	0.933	Contact Map
2m20A	2	0.1703	13.1	0.936	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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