YWMC - BACSU - GREMLIN Contacts

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YWMC - Uncharacterized protein YwmC

UniProt:	P70960	Sequences: MKKRFSLIMMTGLLFGLTSPAFAAEKTETEAKAPANVAVLLDASGSMAKRIDGVSKFNSAKKEISKFASSLPEGTQVKMSVFGSEGNNKNSGKVQSCEAIRNVYGFQSFNEQSFLNSLNTIGPTGWTPIAKALNEAKSSFDQLDAKGEKVVYLLTDGEETCGGNPIKTAKELQKDNITVNVIGFDYKEGYKGQLNAIAKVGGGEYFPAYTQKDVEKIFTQQSLMLSK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	227 (178)
Sequences:	9685 (6473)
Seq/√Len:	485.2

ECOLI - YFBK YEGL
BACSU - YWMC YWMD YCBR
SULSO - Q97Z45 Q97Z48

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
65_S	119_N	4.559	1.00
69_S	115_L	3.784	1.00
36_N	76_Q	3.063	1.00
65_S	115_L	2.890	1.00
38_A	78_K	2.887	1.00
36_N	149_K	2.521	1.00
43_A	81_V	2.454	1.00
40_L	136_A	2.398	1.00
210_T	213_D	2.289	1.00
136_A	151_V	2.241	1.00
166_I	196_A	2.010	1.00
39_V	64_I	2.007	1.00
110_N	113_S	1.976	1.00
57_F	61_K	1.931	1.00
55_S	58_N	1.899	1.00
150_V	180_N	1.850	1.00
191_K	207_P	1.845	1.00
170_K	174_K	1.815	1.00
129_I	153_L	1.795	1.00
86_G	135_E	1.795	1.00
128_P	131_K	1.762	1.00
137_K	172_L	1.748	1.00
46_S	156_D	1.674	1.00
41_L	60_A	1.640	1.00
41_L	64_I	1.630	1.00
144_D	147_G	1.595	1.00
64_I	118_L	1.553	1.00
58_N	61_K	1.542	1.00
78_K	106_F	1.533	1.00
40_L	151_V	1.531	1.00
127_T	156_D	1.516	1.00
81_V	121_I	1.506	1.00
181_V	198_A	1.468	1.00
61_K	118_L	1.466	1.00
135_E	138_S	1.464	1.00
158_E	190_Y	1.462	1.00
192_G	196_A	1.446	1.00
191_K	195_N	1.419	1.00
137_K	175_D	1.417	1.00
38_A	80_S	1.415	1.00
141_D	175_D	1.392	1.00
46_S	127_T	1.392	1.00
43_A	121_I	1.376	1.00
171_E	174_K	1.375	1.00
165_P	169_A	1.364	1.00
68_A	118_L	1.358	1.00
80_S	132_A	1.347	1.00
102_N	105_G	1.347	1.00
81_V	103_V	1.332	1.00
68_A	114_F	1.319	1.00
38_A	136_A	1.293	1.00
181_V	194_L	1.261	1.00
68_A	77_V	1.260	1.00
183_G	194_L	1.248	1.00
112_Q	116_N	1.239	1.00
127_T	157_G	1.233	1.00
166_I	170_K	1.230	1.00
137_K	171_E	1.222	1.00
133_L	151_V	1.211	1.00
66_K	215_E	1.201	1.00
135_E	139_S	1.193	1.00
43_A	57_F	1.189	1.00
57_F	123_P	1.172	1.00
167_K	170_K	1.166	1.00
133_L	153_L	1.165	1.00
169_A	173_Q	1.159	1.00
129_I	159_E	1.149	1.00
148_E	178_T	1.145	1.00
36_N	147_G	1.140	1.00
195_N	199_K	1.138	1.00
151_V	179_V	1.113	1.00
49_K	56_K	1.099	1.00
62_K	66_K	1.088	1.00
38_A	140_F	1.085	1.00
134_N	138_S	1.083	1.00
134_N	168_T	1.082	1.00
69_S	111_E	1.071	1.00
116_N	120_T	1.068	1.00
104_Y	114_F	1.056	1.00
39_V	67_F	1.055	1.00
66_K	69_S	1.046	1.00
154_L	184_F	1.030	1.00
137_K	168_T	1.030	1.00
186_Y	189_G	1.027	1.00
133_L	172_L	1.020	1.00
80_S	135_E	1.018	1.00
190_Y	193_Q	1.015	1.00
192_G	195_N	1.014	1.00
134_N	171_E	1.014	1.00
133_L	197_I	1.008	1.00
196_A	199_K	1.006	1.00
70_S	219_T	1.006	1.00
48_A	123_P	1.001	1.00
59_S	62_K	0.999	1.00
39_V	152_Y	0.999	1.00
66_K	70_S	0.997	1.00
43_A	83_G	0.996	1.00
151_V	172_L	0.994	1.00
80_S	139_S	0.978	1.00
165_P	168_T	0.976	1.00
191_K	205_Y	0.970	1.00
80_S	136_A	0.959	1.00
37_V	150_V	0.955	1.00
126_W	160_T	0.953	1.00
71_L	75_T	0.953	1.00
78_K	139_S	0.950	1.00
183_G	205_Y	0.947	1.00
133_L	179_V	0.946	1.00
159_E	193_Q	0.939	1.00
47_M	56_K	0.938	1.00
181_V	205_Y	0.937	1.00
67_F	71_L	0.936	1.00
131_K	134_N	0.929	1.00
60_A	154_L	0.921	1.00
72_P	75_T	0.920	1.00
56_K	123_P	0.919	1.00
82_F	129_I	0.915	1.00
183_G	189_G	0.915	1.00
154_L	218_F	0.912	1.00
78_K	140_F	0.904	1.00
168_T	172_L	0.901	1.00
34_P	147_G	0.898	1.00
199_K	204_E	0.895	1.00
166_I	169_A	0.892	1.00
104_Y	117_S	0.887	1.00
152_Y	182_I	0.887	1.00
115_L	119_N	0.887	1.00
38_A	139_S	0.887	1.00
168_T	171_E	0.886	1.00
138_S	141_D	0.881	1.00
111_E	115_L	0.878	1.00
213_D	216_K	0.875	1.00
117_S	120_T	0.864	1.00
167_K	171_E	0.863	1.00
170_K	200_V	0.859	1.00
40_L	80_S	0.855	1.00
68_A	115_L	0.853	1.00
183_G	207_P	0.853	1.00
41_L	121_I	0.852	1.00
80_S	86_G	0.851	1.00
112_Q	115_L	0.850	1.00
56_K	59_S	0.842	1.00
179_V	197_I	0.841	1.00
204_E	220_Q	0.836	1.00
164_N	167_K	0.830	1.00
113_S	117_S	0.817	1.00
159_E	165_P	0.815	1.00
128_P	160_T	0.815	1.00
105_G	108_S	0.804	1.00
36_N	144_D	0.801	1.00
196_A	200_V	0.801	1.00
35_A	150_V	0.800	1.00
116_N	119_N	0.798	1.00
128_P	161_C	0.786	1.00
84_S	126_W	0.786	1.00
47_M	60_A	0.782	1.00
195_N	205_Y	0.781	1.00
189_G	207_P	0.772	1.00
103_V	117_S	0.771	1.00
35_A	75_T	0.770	1.00
118_L	121_I	0.769	1.00
40_L	132_A	0.768	1.00
102_N	135_E	0.762	1.00
169_A	172_L	0.760	1.00
171_E	175_D	0.755	1.00
61_K	65_S	0.755	1.00
104_Y	109_F	0.754	1.00
106_F	109_F	0.753	1.00
65_S	69_S	0.753	1.00
178_T	204_E	0.751	1.00
49_K	55_S	0.746	1.00
151_V	177_I	0.744	1.00
35_A	148_E	0.743	1.00
45_G	125_G	0.742	1.00
132_A	136_A	0.742	1.00
43_A	124_T	0.729	1.00
102_N	139_S	0.728	1.00
39_V	77_V	0.727	1.00
140_F	149_K	0.724	1.00
33_A	148_E	0.723	1.00
180_N	204_E	0.719	1.00
107_Q	110_N	0.715	1.00
130_A	134_N	0.711	1.00
113_S	116_N	0.707	1.00
70_S	222_S	0.702	1.00
38_A	106_F	0.699	1.00
79_M	114_F	0.698	1.00
79_M	104_Y	0.697	1.00
169_A	200_V	0.694	1.00
68_A	111_E	0.690	1.00
170_K	173_Q	0.690	1.00
57_F	60_A	0.689	1.00
169_A	197_I	0.688	1.00
45_G	123_P	0.683	1.00
140_F	151_V	0.682	1.00
39_V	60_A	0.681	1.00
36_N	106_F	0.680	1.00
137_K	177_I	0.679	1.00
58_N	62_K	0.668	1.00
155_T	181_V	0.665	1.00
206_F	217_I	0.663	1.00
84_S	128_P	0.657	1.00
60_A	184_F	0.656	1.00
62_K	65_S	0.656	1.00
59_S	212_K	0.653	1.00
86_G	132_A	0.648	1.00
114_F	117_S	0.647	1.00
83_G	128_P	0.646	1.00
59_S	211_Q	0.643	1.00
173_Q	199_K	0.640	1.00
130_A	163_G	0.638	1.00
48_A	56_K	0.627	1.00
45_G	48_A	0.626	1.00
131_K	135_E	0.625	1.00
159_E	162_G	0.625	1.00
73_E	111_E	0.623	1.00
80_S	102_N	0.620	0.99
182_I	217_I	0.618	0.99
150_V	178_T	0.615	0.99
200_V	204_E	0.615	0.99
37_V	77_V	0.607	0.99
138_S	142_Q	0.603	0.99
109_F	114_F	0.601	0.99
60_A	64_I	0.596	0.99
67_F	222_S	0.594	0.99
217_I	220_Q	0.593	0.99
214_V	218_F	0.588	0.99
184_F	211_Q	0.587	0.99
182_I	208_A	0.585	0.99
81_V	101_R	0.583	0.99
153_L	181_V	0.579	0.99
109_F	113_S	0.576	0.99
77_V	114_F	0.575	0.99
46_S	157_G	0.568	0.99
198_A	205_Y	0.568	0.99
157_G	194_L	0.568	0.99
208_A	217_I	0.565	0.99
56_K	185_D	0.562	0.99
47_M	57_F	0.561	0.99
83_G	124_T	0.559	0.99
165_P	172_L	0.557	0.99
209_Y	213_D	0.550	0.99
42_D	157_G	0.549	0.99
216_K	219_T	0.547	0.99
111_E	114_F	0.546	0.99
47_M	127_T	0.542	0.99
199_K	203_G	0.542	0.99
42_D	46_S	0.536	0.99
76_Q	106_F	0.534	0.99
128_P	159_E	0.534	0.99
180_N	206_F	0.533	0.98
184_F	214_V	0.529	0.98
217_I	221_Q	0.529	0.98
136_A	139_S	0.520	0.98
79_M	121_I	0.518	0.98
40_L	153_L	0.516	0.98
85_E	131_K	0.515	0.98
139_S	142_Q	0.512	0.98
45_G	156_D	0.512	0.98
39_V	154_L	0.511	0.98
126_W	161_C	0.510	0.98
57_F	121_I	0.509	0.98
61_K	121_I	0.508	0.98
102_N	140_F	0.507	0.98
216_K	220_Q	0.505	0.98
178_T	201_G	0.500	0.98
64_I	79_M	0.500	0.98

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
4nehA	1	0.9163	100	0.35	Contact Map
4okrA	1	0.7357	100	0.362	Contact Map
4okuA	2	0.7533	100	0.366	Contact Map
1ijbA	1	0.8194	100	0.374	Contact Map
1mf7A	1	0.7841	100	0.38	Contact Map
4cn9A	1	0.793	100	0.386	Contact Map
4bj3A	1	0.7225	100	0.387	Contact Map
1pt6A	1	0.7621	100	0.387	Contact Map
4f1jA	1	0.7885	100	0.388	Contact Map
1n3yA	1	0.7753	100	0.389	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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