YWNB - BACSU - GREMLIN Contacts

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YWNB - Uncharacterized protein YwnB

UniProt:	P71037	Sequences: MKIGIIGASGKAGNEILKEAKKRGHEVTAIVRNASKVQEQDVAILEKDVFELTAEDIKPFDAVVNAFGAAPGQEHLHVEAGRALISILKDAKHTRLLVVGGAGSLFVDEAKTTRLMDTPEFPKEYLPTASNQGENLKDLQQTDSISWTFLSPAAFFDPAGKRTGSYQKGKDNVIVNAKGDSYISYADYAIAVLDELEHPEHKNERFTVVSEAE	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	213 (202)
Sequences:	51006 (34985)
Seq/√Len:	2461.5

ECOLI - GALE RMLB1 YBJS GM4D RMLB2 YFCH YEEZ YRAR FCL HLDD RMLD QOR2 YBJT ARNA
BACSU - YWNB YHEG YTCB GALE YFHF YHFK RMLB YFNG YTBQ SPSK YESF
HALSA - Q9HSV1 Q9HSU9 Q9HSE7 Q9HR86 Q9HML4 Q9HNV3 Q9HRD1 Q9HSQ3 Q9HS50 Q9HPF1
SULSO - Q7LXE8 Q97VN5 Q97XJ9 Q97XG1 Q97UM3 Q980W1 Q7LXG5 Q7LX44 Q7LXE6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
8_A	29_A	3.154	1.00
75_H	79_E	2.568	1.00
19_E	190_I	2.559	1.00
28_T	60_F	2.361	1.00
62_A	196_L	2.318	1.00
191_A	208_V	2.306	1.00
152_P	192_V	2.260	1.00
99_V	192_V	2.253	1.00
19_E	193_L	2.236	1.00
54_A	90_D	2.192	1.00
95_R	146_S	2.168	1.00
30_I	47_K	2.146	1.00
19_E	23_R	2.062	1.00
65_N	98_V	1.935	1.00
28_T	43_A	1.922	1.00
117_D	120_E	1.917	1.00
64_V	196_L	1.888	1.00
4_G	60_F	1.868	1.00
139_L	147_W	1.847	1.00
28_T	45_L	1.843	1.00
150_L	195_E	1.831	1.00
82_R	138_D	1.794	1.00
23_R	193_L	1.782	1.00
190_I	194_D	1.755	1.00
16_I	189_A	1.736	1.00
81_G	135_N	1.717	1.00
6_I	65_N	1.706	1.00
165_S	169_G	1.685	1.00
54_A	87_I	1.646	1.00
133_G	137_K	1.641	1.00
100_G	104_S	1.638	1.00
193_L	197_E	1.637	1.00
79_E	82_R	1.616	1.00
52_L	86_S	1.604	1.00
16_I	66_A	1.597	1.00
23_R	197_E	1.569	1.00
66_A	99_V	1.557	1.00
82_R	86_S	1.552	1.00
172_N	177_A	1.549	1.00
194_D	198_H	1.524	1.00
52_L	83_A	1.497	1.00
5_I	17_L	1.494	1.00
50_F	75_H	1.483	1.00
74_E	134_E	1.472	1.00
16_I	64_V	1.472	1.00
54_A	91_A	1.451	1.00
19_E	189_A	1.418	1.00
19_E	22_K	1.414	1.00
61_D	94_T	1.412	1.00
95_R	148_T	1.401	1.00
26_E	43_A	1.396	1.00
164_G	167_Q	1.391	1.00
3_I	25_H	1.357	1.00
152_P	188_Y	1.352	1.00
89_K	143_D	1.348	1.00
12_A	155_F	1.319	1.00
8_A	17_L	1.314	1.00
17_L	29_A	1.308	1.00
33_N	44_I	1.292	1.00
122_P	133_G	1.290	1.00
99_V	152_P	1.287	1.00
98_V	135_N	1.277	1.00
58_K	91_A	1.269	1.00
25_H	197_E	1.249	1.00
137_K	140_Q	1.246	1.00
183_I	188_Y	1.245	1.00
4_G	30_I	1.241	1.00
128_T	132_Q	1.230	1.00
156_F	184_S	1.229	1.00
171_D	175_V	1.222	1.00
88_L	96_L	1.220	1.00
55_E	59_P	1.216	1.00
113_T	117_D	1.214	1.00
64_V	192_V	1.211	1.00
15_E	186_A	1.208	1.00
63_V	88_L	1.184	1.00
49_V	67_F	1.177	1.00
98_V	149_F	1.169	1.00
57_I	60_F	1.168	1.00
140_Q	149_F	1.165	1.00
29_A	42_V	1.164	1.00
164_G	168_K	1.164	1.00
9_S	31_V	1.163	1.00
150_L	192_V	1.160	1.00
163_T	167_Q	1.160	1.00
130_S	134_E	1.159	1.00
19_E	186_A	1.158	1.00
49_V	80_A	1.156	1.00
116_M	120_E	1.148	1.00
3_I	20_A	1.144	1.00
69_A	76_L	1.143	1.00
151_S	205_R	1.138	1.00
77_H	131_N	1.127	1.00
21_K	42_V	1.126	1.00
97_L	150_L	1.112	1.00
3_I	62_A	1.109	1.00
86_S	90_D	1.105	1.00
6_I	84_L	1.103	1.00
86_S	89_K	1.100	1.00
167_Q	170_K	1.099	1.00
105_L	207_T	1.094	1.00
98_V	139_L	1.084	1.00
113_T	120_E	1.083	1.00
20_A	193_L	1.074	1.00
85_I	96_L	1.072	1.00
18_K	22_K	1.069	1.00
88_L	93_H	1.066	1.00
53_T	87_I	1.060	1.00
33_N	36_K	1.059	1.00
18_K	159_A	1.046	1.00
170_K	175_V	1.038	1.00
11_K	157_D	1.037	1.00
84_L	96_L	1.036	1.00
185_Y	189_A	1.033	1.00
54_A	58_K	1.032	1.00
65_N	81_G	1.023	1.00
21_K	41_D	1.017	1.00
66_A	192_V	1.015	1.00
55_E	58_K	1.009	1.00
63_V	84_L	0.994	1.00
102_A	153_A	0.985	1.00
34_A	46_E	0.985	1.00
45_L	59_P	0.982	1.00
76_L	80_A	0.976	1.00
15_E	185_Y	0.972	1.00
83_A	86_S	0.968	1.00
174_I	177_A	0.960	1.00
136_L	151_S	0.959	1.00
96_L	139_L	0.959	1.00
52_L	90_D	0.950	1.00
190_I	193_L	0.949	1.00
79_E	83_A	0.948	1.00
155_F	188_Y	0.944	1.00
87_I	90_D	0.944	1.00
11_K	185_Y	0.937	1.00
74_E	78_V	0.933	1.00
69_A	72_G	0.931	1.00
31_V	44_I	0.929	1.00
69_A	73_Q	0.917	1.00
148_T	195_E	0.912	1.00
74_E	79_E	0.910	1.00
78_V	134_E	0.908	1.00
57_I	91_A	0.900	1.00
89_K	145_I	0.898	1.00
138_D	141_Q	0.898	1.00
87_I	91_A	0.897	1.00
16_I	20_A	0.896	1.00
194_D	197_E	0.890	1.00
184_S	187_D	0.887	1.00
171_D	176_N	0.887	1.00
140_Q	205_R	0.883	1.00
168_K	172_N	0.882	1.00
45_L	56_D	0.881	1.00
85_I	139_L	0.879	1.00
173_V	177_A	0.874	1.00
163_T	168_K	0.869	1.00
15_E	18_K	0.858	1.00
163_T	169_G	0.850	1.00
30_I	56_D	0.849	1.00
33_N	46_E	0.849	1.00
172_N	175_V	0.845	1.00
140_Q	147_W	0.839	1.00
57_I	63_V	0.836	1.00
151_S	207_T	0.834	1.00
3_I	64_V	0.829	1.00
165_S	168_K	0.828	1.00
114_R	120_E	0.828	1.00
168_K	171_D	0.826	1.00
57_I	87_I	0.826	1.00
89_K	144_S	0.824	1.00
30_I	53_T	0.820	1.00
130_S	141_Q	0.820	1.00
81_G	139_L	0.810	1.00
17_L	27_V	0.798	1.00
170_K	173_V	0.798	1.00
170_K	176_N	0.796	1.00
169_G	175_V	0.795	1.00
73_Q	131_N	0.792	1.00
134_E	137_K	0.791	1.00
33_N	38_Q	0.785	1.00
167_Q	171_D	0.783	1.00
134_E	138_D	0.783	1.00
28_T	59_P	0.782	1.00
15_E	19_E	0.781	1.00
94_T	146_S	0.781	1.00
65_N	84_L	0.777	1.00
32_R	48_D	0.775	1.00
169_G	172_N	0.769	1.00
16_I	192_V	0.769	1.00
171_D	177_A	0.762	1.00
126_L	129_A	0.756	1.00
62_A	95_R	0.752	1.00
100_G	136_L	0.752	1.00
172_N	176_N	0.748	1.00
83_A	87_I	0.738	1.00
169_G	177_A	0.738	1.00
50_F	76_L	0.737	1.00
153_A	181_S	0.736	1.00
72_G	76_L	0.735	1.00
164_G	169_G	0.732	1.00
169_G	173_V	0.727	1.00
85_I	138_D	0.720	1.00
3_I	196_L	0.717	1.00
20_A	196_L	0.716	1.00
6_I	67_F	0.716	1.00
158_P	184_S	0.712	1.00
163_T	170_K	0.711	1.00
189_A	193_L	0.710	1.00
21_K	27_V	0.710	1.00
130_S	137_K	0.699	1.00
163_T	166_Y	0.690	1.00
166_Y	169_G	0.686	1.00
12_A	188_Y	0.680	1.00
25_H	61_D	0.676	1.00
72_G	75_H	0.676	1.00
35_S	38_Q	0.666	1.00
63_V	96_L	0.666	1.00
165_S	171_D	0.663	1.00
81_G	85_I	0.662	1.00
149_F	203_N	0.657	1.00
23_R	194_D	0.656	1.00
124_E	129_A	0.656	1.00
4_G	57_I	0.655	1.00
155_F	183_I	0.655	1.00
74_E	130_S	0.652	1.00
135_N	139_L	0.649	1.00
201_H	204_E	0.648	1.00
14_N	159_A	0.648	1.00
29_A	44_I	0.648	1.00
113_T	116_M	0.647	1.00
23_R	190_I	0.646	1.00
152_P	155_F	0.646	1.00
150_L	191_A	0.646	1.00
147_W	203_N	0.638	1.00
165_S	172_N	0.635	1.00
127_P	130_S	0.626	1.00
53_T	83_A	0.626	1.00
171_D	174_I	0.620	1.00
95_R	199_P	0.620	1.00
112_T	120_E	0.618	1.00
57_I	88_L	0.617	1.00
15_E	189_A	0.614	1.00
52_L	87_I	0.614	1.00
170_K	177_A	0.612	1.00
48_D	51_E	0.608	1.00
137_K	141_Q	0.607	1.00
103_G	129_A	0.607	1.00
187_D	190_I	0.607	1.00
173_V	176_N	0.603	1.00
62_A	94_T	0.602	1.00
25_H	62_A	0.601	1.00
104_S	136_L	0.598	1.00
53_T	57_I	0.594	1.00
27_V	31_V	0.594	1.00
139_L	149_F	0.593	1.00
26_E	41_D	0.585	1.00
146_S	201_H	0.584	1.00
164_G	172_N	0.580	1.00
97_L	195_E	0.577	1.00
33_N	37_V	0.577	1.00
132_Q	136_L	0.575	1.00
149_F	205_R	0.574	1.00
164_G	170_K	0.574	1.00
169_G	176_N	0.572	1.00
169_G	174_I	0.570	1.00
166_Y	171_D	0.570	1.00
97_L	192_V	0.569	1.00
107_V	125_Y	0.567	1.00
104_S	151_S	0.566	1.00
80_A	83_A	0.564	1.00
89_K	142_T	0.561	1.00
124_E	133_G	0.559	1.00
4_G	56_D	0.556	1.00
66_A	152_P	0.555	1.00
34_A	38_Q	0.554	1.00
159_A	162_R	0.553	1.00
130_S	133_G	0.551	1.00
36_K	39_E	0.551	1.00
165_S	170_K	0.548	1.00
14_N	18_K	0.546	1.00
47_K	56_D	0.545	1.00
183_I	187_D	0.545	1.00
167_Q	173_V	0.542	1.00
97_L	196_L	0.541	1.00
104_S	122_P	0.538	1.00
16_I	193_L	0.532	1.00
165_S	173_V	0.531	1.00
43_A	59_P	0.526	1.00
199_P	203_N	0.526	1.00
170_K	174_I	0.524	1.00
166_Y	170_K	0.518	1.00
65_N	96_L	0.517	1.00
18_K	186_A	0.517	1.00
154_A	182_Y	0.514	1.00
74_E	131_N	0.513	1.00
4_G	47_K	0.513	1.00
101_G	104_S	0.511	1.00
56_D	60_F	0.510	1.00
198_H	206_F	0.508	1.00
31_V	35_S	0.508	1.00
168_K	177_A	0.502	1.00
128_T	131_N	0.501	1.00
165_S	174_I	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
1sb8A	2	0.9859	100	0.229	Contact Map
3rufA	2	0.9859	100	0.235	Contact Map
2pzmA	2	0.9765	100	0.235	Contact Map
3m2pA	2	0.9624	100	0.239	Contact Map
2x4gA	2	0.9531	100	0.239	Contact Map
1rkxA	3	0.9906	100	0.241	Contact Map
2bllA	2	0.9812	100	0.246	Contact Map
2c20A	2	0.9859	100	0.247	Contact Map
4wkgA	5	0.9812	100	0.248	Contact Map
1gy8A	2	1	100	0.249	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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