YAHN - ECOLI - GREMLIN Contacts

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YAHN - Uncharacterized membrane protein YahN

UniProt:	P75693	Sequences: MMQLVHLFMDEITMDPLHAVYLTVGLFVITFFNPGANLFVVVQTSLASGRRAGVLTGLGVALGDAFYSGLGLFGLATLITQCEEIFSLIRIVGGAYLLWFAWCSMRRQSTPQMSTLQQPISAPWYVFFRRGLITDLSNPQTVLFFISIFSVTLNAETPTWARLMAWAGIVLASIIWRVFLSQAFSLPAVRRAYGRMQRVASRVIGAIIGVFALRLIYEGVTQR	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
EcoGene:	EG13598
Length:	223 (198)
Sequences:	12900 (9234)
Seq/√Len:	656.3

ECOLI - YAHN RHTC LEUE RHTB ARGO EAMB
BACSU - YISU YRHP YCGF
SULSO - Q97ZW7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
62_L	128_F	5.100	1.00
101_A	209_G	3.550	1.00
102_W	106_R	3.454	1.00
20_V	168_G	3.170	1.00
199_V	202_R	2.947	1.00
87_S	90_R	2.762	1.00
98_L	212_A	2.673	1.00
125_Y	129_R	2.530	1.00
55_L	124_W	2.356	1.00
198_R	202_R	2.333	1.00
66_F	132_L	2.265	1.00
162_R	166_W	2.255	1.00
91_I	95_A	2.210	1.00
99_W	103_C	2.135	1.00
94_G	216_I	2.133	1.00
45_S	53_G	2.070	1.00
105_M	202_R	2.054	1.00
105_M	205_G	2.036	1.00
206_A	210_V	1.997	1.00
40_V	56_T	1.976	1.00
26_L	148_I	1.894	1.00
103_C	106_R	1.880	1.00
98_L	209_G	1.863	1.00
101_A	205_G	1.832	1.00
24_V	172_A	1.814	1.00
84_E	87_S	1.806	1.00
63_G	136_L	1.769	1.00
44_T	48_S	1.727	1.00
108_Q	202_R	1.724	1.00
94_G	212_A	1.712	1.00
53_G	181_S	1.689	1.00
52_A	127_F	1.674	1.00
38_L	180_L	1.652	1.00
86_F	90_R	1.602	1.00
37_N	60_V	1.596	1.00
129_R	133_I	1.555	1.00
31_F	172_A	1.518	1.00
24_V	168_G	1.486	1.00
77_T	81_Q	1.485	1.00
32_F	176_W	1.464	1.00
98_L	102_W	1.463	1.00
87_S	91_I	1.451	1.00
45_S	181_S	1.429	1.00
65_A	170_V	1.416	1.00
42_V	184_F	1.405	1.00
58_L	128_F	1.396	1.00
109_S	202_R	1.394	1.00
57_G	181_S	1.390	1.00
44_T	56_T	1.386	1.00
188_A	192_A	1.381	1.00
132_L	136_L	1.364	1.00
128_F	132_L	1.348	1.00
199_V	203_V	1.348	1.00
84_E	88_L	1.333	1.00
88_L	92_V	1.324	1.00
54_V	182_Q	1.320	1.00
56_T	131_G	1.306	1.00
53_G	57_G	1.303	1.00
173_S	177_R	1.275	1.00
91_I	94_G	1.272	1.00
186_L	189_V	1.265	1.00
196_M	199_V	1.255	1.00
126_V	129_R	1.239	1.00
145_F	169_I	1.222	1.00
96_Y	100_F	1.217	1.00
123_P	126_V	1.215	1.00
50_R	185_S	1.203	1.00
193_Y	196_M	1.195	1.00
21_Y	25_G	1.194	1.00
50_R	182_Q	1.194	1.00
19_A	22_L	1.187	1.00
101_A	212_A	1.180	1.00
195_R	199_V	1.173	1.00
91_I	216_I	1.172	1.00
158_P	161_A	1.170	1.00
66_F	136_L	1.157	1.00
209_G	213_L	1.138	1.00
205_G	209_G	1.134	1.00
69_G	73_F	1.133	1.00
51_R	55_L	1.123	1.00
22_L	25_G	1.118	1.00
154_N	157_T	1.113	1.00
61_A	170_V	1.112	1.00
40_V	134_T	1.107	1.00
48_S	52_A	1.105	1.00
179_F	183_A	1.092	1.00
106_R	109_S	1.081	1.00
44_T	130_R	1.074	1.00
61_A	174_I	1.073	1.00
23_T	27_F	1.073	1.00
107_R	201_S	1.071	1.00
40_V	44_T	1.062	1.00
54_V	178_V	1.058	1.00
22_L	26_L	1.050	1.00
31_F	173_S	1.046	1.00
59_G	128_F	1.042	1.00
202_R	206_A	1.037	1.00
41_V	45_S	1.035	1.00
27_F	169_I	1.022	1.00
43_Q	47_A	1.012	1.00
47_A	51_R	1.011	1.00
37_N	134_T	1.003	1.00
41_V	177_R	1.003	1.00
63_G	132_L	1.000	1.00
176_W	180_L	0.999	1.00
37_N	135_D	0.997	1.00
126_V	130_R	0.992	1.00
96_Y	99_W	0.983	1.00
74_G	79_I	0.982	1.00
28_V	172_A	0.966	1.00
210_V	214_R	0.964	1.00
64_D	135_D	0.959	1.00
195_R	198_R	0.958	1.00
38_L	177_R	0.950	1.00
46_L	184_F	0.947	1.00
64_D	141_T	0.941	1.00
122_A	126_V	0.922	1.00
37_N	173_S	0.920	1.00
203_V	206_A	0.917	1.00
133_I	137_S	0.906	1.00
163_L	166_W	0.899	1.00
159_T	162_R	0.896	1.00
41_V	181_S	0.883	1.00
79_I	82_C	0.882	1.00
24_V	28_V	0.881	1.00
62_L	132_L	0.881	1.00
154_N	162_R	0.875	1.00
54_V	181_S	0.873	1.00
197_Q	201_S	0.869	1.00
186_L	190_R	0.865	1.00
160_W	163_L	0.862	1.00
26_L	29_I	0.845	1.00
67_Y	142_V	0.842	1.00
74_G	81_Q	0.842	1.00
50_R	181_S	0.838	1.00
213_L	217_Y	0.836	1.00
192_A	196_M	0.834	1.00
51_R	124_W	0.833	1.00
39_F	204_I	0.828	1.00
20_V	171_L	0.818	1.00
39_F	43_Q	0.817	1.00
109_S	112_Q	0.817	1.00
209_G	212_A	0.816	1.00
37_N	64_D	0.815	1.00
178_V	182_Q	0.813	1.00
50_R	178_V	0.813	1.00
103_C	107_R	0.811	1.00
92_V	95_A	0.804	1.00
25_G	29_I	0.802	1.00
162_R	165_A	0.800	1.00
174_I	178_V	0.797	1.00
67_Y	136_L	0.794	1.00
183_A	186_L	0.790	1.00
52_A	55_L	0.786	1.00
158_P	162_R	0.783	1.00
121_S	125_Y	0.783	1.00
21_Y	24_V	0.782	1.00
105_M	209_G	0.781	1.00
190_R	196_M	0.779	1.00
38_L	42_V	0.777	1.00
64_D	67_Y	0.773	1.00
104_S	205_G	0.771	1.00
59_G	132_L	0.770	1.00
99_W	102_W	0.766	1.00
147_S	151_V	0.763	1.00
68_S	145_F	0.761	1.00
94_G	98_L	0.761	1.00
73_F	77_T	0.760	1.00
184_F	187_P	0.760	1.00
111_P	114_S	0.757	1.00
82_C	85_I	0.756	1.00
61_A	173_S	0.756	1.00
76_A	80_T	0.752	1.00
95_A	98_L	0.749	1.00
157_T	162_R	0.748	1.00
127_F	130_R	0.744	1.00
157_T	161_A	0.742	1.00
203_V	207_I	0.741	1.00
57_G	178_V	0.739	1.00
27_F	31_F	0.733	1.00
38_L	176_W	0.732	1.00
85_I	88_L	0.730	1.00
18_H	21_Y	0.727	1.00
29_I	33_N	0.726	1.00
102_W	209_G	0.725	1.00
41_V	56_T	0.723	1.00
106_R	110_T	0.720	1.00
55_L	127_F	0.718	1.00
67_Y	141_T	0.717	1.00
64_D	170_V	0.716	1.00
83_E	87_S	0.713	1.00
20_V	24_V	0.708	1.00
188_A	191_R	0.707	1.00
182_Q	186_L	0.705	1.00
189_V	192_A	0.703	1.00
57_G	61_A	0.701	1.00
112_Q	115_T	0.700	1.00
68_S	177_R	0.698	1.00
190_R	193_Y	0.697	1.00
200_A	204_I	0.694	1.00
37_N	177_R	0.693	1.00
109_S	198_R	0.691	1.00
41_V	60_V	0.690	1.00
31_F	176_W	0.685	1.00
45_S	184_F	0.678	1.00
137_S	146_I	0.678	1.00
82_C	86_F	0.676	1.00
62_L	66_F	0.674	1.00
38_L	134_T	0.674	1.00
60_V	64_D	0.667	1.00
26_L	30_T	0.667	1.00
95_A	99_W	0.666	1.00
18_H	22_L	0.666	1.00
42_V	180_L	0.662	1.00
48_S	127_F	0.662	1.00
31_F	38_L	0.660	1.00
67_Y	71_G	0.657	1.00
67_Y	135_D	0.653	1.00
54_V	57_G	0.651	1.00
44_T	47_A	0.647	1.00
52_A	124_W	0.647	1.00
214_R	217_Y	0.645	1.00
92_V	137_S	0.642	1.00
56_T	127_F	0.639	1.00
177_R	180_L	0.637	1.00
124_W	128_F	0.636	1.00
101_A	105_M	0.630	1.00
77_T	80_T	0.628	1.00
160_W	164_M	0.628	1.00
66_F	69_G	0.627	1.00
175_I	179_F	0.622	1.00
88_L	91_I	0.616	1.00
196_M	200_A	0.613	1.00
68_S	170_V	0.611	1.00
31_F	177_R	0.607	1.00
190_R	194_G	0.606	1.00
67_Y	146_I	0.605	1.00
161_A	165_A	0.605	1.00
33_N	38_L	0.603	1.00
64_D	173_S	0.602	1.00
118_Q	121_S	0.601	1.00
142_V	146_I	0.601	1.00
71_G	76_A	0.600	1.00
58_L	61_A	0.600	1.00
71_G	145_F	0.597	1.00
60_V	135_D	0.589	1.00
170_V	174_I	0.587	1.00
171_L	175_I	0.584	1.00
43_Q	201_S	0.584	1.00
108_Q	111_P	0.579	1.00
71_G	142_V	0.577	1.00
121_S	124_W	0.575	1.00
64_D	145_F	0.573	1.00
41_V	57_G	0.572	1.00
63_G	135_D	0.571	1.00
28_V	32_F	0.568	1.00
130_R	134_T	0.567	1.00
49_G	52_A	0.561	1.00
93_G	143_L	0.560	1.00
135_D	141_T	0.560	1.00
31_F	64_D	0.559	1.00
67_Y	76_A	0.558	1.00
98_L	216_I	0.558	1.00
176_W	179_F	0.558	1.00
48_S	122_A	0.552	1.00
125_Y	128_F	0.548	1.00
64_D	169_I	0.547	1.00
54_V	58_L	0.547	1.00
135_D	177_R	0.545	1.00
36_A	104_S	0.541	1.00
81_Q	84_E	0.540	1.00
56_T	134_T	0.537	1.00
141_T	146_I	0.536	1.00
89_I	93_G	0.536	1.00
103_C	130_R	0.535	1.00
34_P	140_Q	0.531	0.99
33_N	201_S	0.529	0.99
105_M	206_A	0.527	0.99
27_F	168_G	0.527	0.99
167_A	171_L	0.524	0.99
165_A	168_G	0.523	0.99
210_V	213_L	0.522	0.99
31_F	141_T	0.520	0.99
61_A	177_R	0.518	0.99
206_A	209_G	0.518	0.99
105_M	109_S	0.513	0.99
108_Q	198_R	0.513	0.99
30_T	148_I	0.513	0.99
153_L	163_L	0.512	0.99
82_C	87_S	0.509	0.99
158_P	163_L	0.509	0.99
53_G	56_T	0.508	0.99
183_A	187_P	0.504	0.99
177_R	181_S	0.503	0.99
169_I	173_S	0.502	0.99
145_F	173_S	0.501	0.99
37_N	141_T	0.500	0.99

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
3j1zP	8	0.4709	16.4	0.94	Contact Map
2cfqA	1	0.9193	9.9	0.946	Contact Map
3h90A	3	0.4305	7.8	0.948	Contact Map
2h3oA	1	0.1973	6.4	0.95	Contact Map
4p6vD	1	0.4395	4.6	0.954	Contact Map
4xnjA	1	0.426	4.1	0.955	Contact Map
3wdoA	1	0.4305	3.9	0.955	Contact Map
3udcA	3	0.3094	3.9	0.955	Contact Map
4ikvA	1	0.4798	3.6	0.956	Contact Map
2wdqD	2	0.139	3.4	0.956	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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