HtrL_YibB - PFAM28P - GREMLIN Contacts

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HtrL_YibB - Bacterial protein of unknown function (HtrL_YibB)

PFAM:	PF09612	Sequences: SNITIVTALFDIGRGELSEGKRSFDHYLEWFKNLLKLDNNMVIFTDEELEEFVKEIRKKENTKIIVIDLEDFFYYEYYDKIQKIRNSPEWKNQIGWWLKESPEAKLPEYNPLVMSKMFFLNDAIILNPFNSDYFFWIDAGITRVHDGYFTHDKKWPNKLDKDKIHFFCINPEIHGFDYKKINEIIGSNVVVIRGGFFGGHKESISKFNDLYYELLEETLNNGLMGTDQSIFTIMYYKNPDLFNLHYIIKGDWFDLFKLFNK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	261 (242)
Sequences:	1857 (1613)
Seq/√Len:	103.7
META:	0.942

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
50_E	54_K	4.019	1.00
57_R	62_T	3.440	1.00
5_I	137_I	3.381	1.00
25_D	29_E	3.220	1.00
32_K	56_I	2.939	1.00
180_K	183_E	2.925	1.00
9_L	139_A	2.915	1.00
47_E	66_V	2.859	1.00
51_E	55_E	2.822	1.00
44_F	122_D	2.692	1.00
127_N	134_F	2.566	1.00
7_T	43_I	2.540	1.00
121_N	125_I	2.533	1.00
44_F	123_A	2.525	1.00
47_E	50_E	2.486	1.00
113_V	227_D	2.445	1.00
28_L	52_F	2.343	1.00
30_W	33_N	2.294	1.00
42_V	123_A	2.268	1.00
88_P	91_K	2.191	1.00
46_D	49_L	2.134	1.00
80_K	83_K	2.127	1.00
4_T	131_S	2.127	1.00
124_I	205_S	2.101	1.00
217_E	221_N	2.009	1.00
50_E	66_V	1.978	1.00
194_G	227_D	1.951	1.00
216_E	220_N	1.949	1.00
67_I	72_F	1.918	1.00
40_N	131_S	1.890	1.00
135_F	198_G	1.836	1.00
121_N	124_I	1.817	1.00
141_I	195_G	1.798	1.00
210_L	242_F	1.773	1.00
90_W	93_Q	1.773	1.00
68_D	71_D	1.747	1.00
128_P	134_F	1.715	1.00
78_Y	108_E	1.697	1.00
200_H	203_S	1.687	1.00
122_D	126_L	1.672	1.00
31_F	139_A	1.650	1.00
94_I	97_W	1.648	1.00
199_G	203_S	1.603	1.00
135_F	196_F	1.572	1.00
11_D	15_G	1.559	1.00
52_F	56_I	1.551	1.00
121_N	205_S	1.514	1.00
105_K	109_Y	1.510	1.00
214_L	237_K	1.504	1.00
117_M	207_F	1.493	1.00
225_G	228_Q	1.479	1.00
145_H	148_Y	1.474	1.00
113_V	194_G	1.470	1.00
11_D	48_E	1.463	1.00
177_D	180_K	1.458	1.00
69_L	72_F	1.437	1.00
109_Y	113_V	1.434	1.00
207_F	242_F	1.419	1.00
144_V	147_G	1.409	1.00
63_K	128_P	1.405	1.00
121_N	208_N	1.403	1.00
78_Y	82_Q	1.384	1.00
148_Y	151_H	1.382	1.00
30_W	143_R	1.373	1.00
137_I	196_F	1.346	0.99
41_M	62_T	1.333	0.99
148_Y	152_D	1.329	0.99
51_E	54_K	1.329	0.99
79_D	83_K	1.326	0.99
93_Q	96_W	1.323	0.99
145_H	149_F	1.322	0.99
87_S	91_K	1.314	0.99
17_L	102_P	1.303	0.99
197_F	204_I	1.302	0.99
238_N	241_L	1.296	0.99
120_L	204_I	1.287	0.99
29_E	32_K	1.278	0.99
114_M	211_Y	1.271	0.99
217_E	237_K	1.263	0.99
173_I	176_F	1.262	0.99
156_P	159_L	1.261	0.99
12_I	112_L	1.252	0.99
58_K	61_N	1.250	0.99
172_E	175_G	1.249	0.99
67_I	122_D	1.220	0.99
45_T	64_I	1.218	0.99
154_K	157_N	1.215	0.99
47_E	68_D	1.205	0.99
210_L	213_E	1.188	0.99
90_W	94_I	1.185	0.99
82_Q	86_N	1.185	0.99
146_D	151_H	1.183	0.99
199_G	204_I	1.153	0.98
144_V	149_F	1.153	0.98
235_Y	242_F	1.130	0.98
155_W	158_K	1.128	0.98
63_K	129_F	1.124	0.98
98_L	101_S	1.121	0.98
213_E	217_E	1.116	0.98
144_V	148_Y	1.114	0.98
164_I	167_F	1.100	0.98
226_T	229_S	1.097	0.98
69_L	73_F	1.096	0.98
33_N	36_K	1.091	0.98
13_G	16_E	1.072	0.97
132_D	200_H	1.072	0.97
147_G	152_D	1.066	0.97
31_F	53_V	1.061	0.97
44_F	126_L	1.055	0.97
67_I	71_D	1.053	0.97
42_V	65_I	1.053	0.97
179_K	183_E	1.053	0.97
129_F	134_F	1.052	0.97
130_N	201_K	1.051	0.97
206_K	241_L	1.044	0.97
132_D	201_K	1.040	0.97
70_E	73_F	1.030	0.97
85_R	90_W	1.020	0.96
210_L	238_N	1.015	0.96
124_I	204_I	1.015	0.96
4_T	127_N	1.003	0.96
68_D	72_F	1.002	0.96
149_F	153_K	1.000	0.96
87_S	90_W	0.990	0.96
74_Y	77_Y	0.977	0.95
145_H	150_T	0.976	0.95
145_H	151_H	0.971	0.95
134_F	201_K	0.969	0.95
32_K	36_K	0.966	0.95
53_V	62_T	0.965	0.95
36_K	56_I	0.964	0.95
165_H	169_I	0.961	0.95
45_T	53_V	0.959	0.95
178_Y	182_N	0.954	0.95
154_K	159_L	0.951	0.95
27_Y	140_G	0.947	0.94
63_K	66_V	0.945	0.94
80_K	220_N	0.944	0.94
65_I	72_F	0.933	0.94
40_N	61_N	0.927	0.94
116_K	138_D	0.920	0.94
45_T	49_L	0.918	0.94
150_T	153_K	0.918	0.94
207_F	231_F	0.916	0.93
166_F	169_I	0.914	0.93
63_K	126_L	0.913	0.93
54_K	64_I	0.911	0.93
154_K	158_K	0.908	0.93
178_Y	181_I	0.906	0.93
208_N	212_Y	0.906	0.93
155_W	159_L	0.906	0.93
77_Y	216_E	0.893	0.93
79_D	82_Q	0.890	0.92
26_H	29_E	0.890	0.92
163_K	243_N	0.889	0.92
148_Y	153_K	0.880	0.92
162_D	168_C	0.862	0.91
168_C	192_I	0.861	0.91
165_H	243_N	0.856	0.91
177_D	184_I	0.855	0.91
185_I	189_V	0.853	0.91
140_G	228_Q	0.850	0.91
210_L	241_L	0.849	0.91
226_T	232_T	0.832	0.90
115_S	119_F	0.832	0.90
86_N	91_K	0.831	0.90
42_V	128_P	0.831	0.90
164_I	207_F	0.824	0.89
116_K	140_G	0.823	0.89
157_N	160_D	0.820	0.89
182_N	185_I	0.820	0.89
203_S	206_K	0.817	0.89
29_E	48_E	0.814	0.89
32_K	55_E	0.811	0.88
110_N	226_T	0.811	0.88
54_K	59_K	0.803	0.88
211_Y	230_I	0.803	0.88
16_E	21_K	0.802	0.88
144_V	151_H	0.801	0.88
41_M	57_R	0.800	0.88
49_L	64_I	0.796	0.88
124_I	134_F	0.795	0.87
67_I	70_E	0.791	0.87
163_K	166_F	0.789	0.87
184_I	221_N	0.789	0.87
162_D	200_H	0.784	0.87
9_L	24_F	0.780	0.86
170_N	173_I	0.777	0.86
210_L	234_M	0.769	0.86
164_I	169_I	0.766	0.85
91_K	94_I	0.765	0.85
22_R	27_Y	0.765	0.85
192_I	235_Y	0.763	0.85
215_L	230_I	0.760	0.85
172_E	176_F	0.758	0.85
127_N	131_S	0.748	0.84
96_W	99_K	0.747	0.84
173_I	178_Y	0.746	0.84
10_F	68_D	0.745	0.84
4_T	40_N	0.744	0.84
137_I	141_I	0.743	0.84
165_H	168_C	0.742	0.84
34_L	137_I	0.741	0.84
163_K	168_C	0.740	0.83
144_V	150_T	0.740	0.83
28_L	32_K	0.738	0.83
146_D	150_T	0.734	0.83
234_M	242_F	0.732	0.83
168_C	171_P	0.731	0.83
25_D	52_F	0.727	0.82
214_L	234_M	0.727	0.82
53_V	57_R	0.725	0.82
172_E	178_Y	0.723	0.82
11_D	14_R	0.720	0.82
17_L	21_K	0.714	0.81
223_L	228_Q	0.713	0.81
206_K	210_L	0.712	0.81
88_P	99_K	0.712	0.81
122_D	125_I	0.711	0.81
113_V	226_T	0.710	0.81
78_Y	107_P	0.709	0.81
76_E	80_K	0.707	0.81
56_I	60_E	0.706	0.80
230_I	234_M	0.706	0.80
111_P	227_D	0.704	0.80
53_V	64_I	0.704	0.80
44_F	65_I	0.701	0.80
133_Y	200_H	0.700	0.80
38_D	61_N	0.698	0.80
149_F	152_D	0.697	0.80
4_T	7_T	0.696	0.80
75_Y	78_Y	0.693	0.79
232_T	236_Y	0.691	0.79
40_N	129_F	0.689	0.79
110_N	113_V	0.686	0.79
183_E	186_G	0.682	0.78
67_I	73_F	0.681	0.78
85_R	88_P	0.678	0.78
193_R	196_F	0.675	0.77
235_Y	244_L	0.675	0.77
167_F	171_P	0.674	0.77
18_S	21_K	0.673	0.77
89_E	93_Q	0.672	0.77
228_Q	232_T	0.671	0.77
43_I	139_A	0.670	0.77
121_N	209_D	0.668	0.77
147_G	151_H	0.668	0.77
215_L	224_M	0.667	0.77
125_I	205_S	0.667	0.77
70_E	79_D	0.664	0.76
91_K	104_A	0.661	0.76
218_T	233_I	0.660	0.76
97_W	100_E	0.660	0.76
179_K	182_N	0.659	0.76
206_K	209_D	0.658	0.76
218_T	221_N	0.658	0.76
225_G	229_S	0.655	0.75
22_R	31_F	0.652	0.75
207_F	234_M	0.651	0.75
83_K	86_N	0.650	0.75
127_N	130_N	0.644	0.74
100_E	105_K	0.636	0.73
124_I	199_G	0.635	0.73
92_N	95_G	0.630	0.72
164_I	168_C	0.629	0.72
174_H	178_Y	0.627	0.72
218_T	230_I	0.626	0.72
171_P	174_H	0.625	0.72
106_L	109_Y	0.624	0.72
162_D	165_H	0.624	0.72
9_L	35_L	0.623	0.72
167_F	170_N	0.621	0.71
5_I	135_F	0.619	0.71
6_V	120_L	0.617	0.71
29_E	33_N	0.616	0.71
80_K	222_G	0.616	0.71
92_N	99_K	0.615	0.71
138_D	194_G	0.615	0.71
34_L	142_T	0.614	0.71
238_N	242_F	0.613	0.70
218_T	228_Q	0.612	0.70
189_V	192_I	0.610	0.70
146_D	152_D	0.610	0.70
102_P	112_L	0.604	0.69
110_N	225_G	0.602	0.69
5_I	39_N	0.602	0.69
104_A	110_N	0.600	0.69
26_H	30_W	0.594	0.68
118_F	122_D	0.593	0.68
54_K	58_K	0.592	0.68
185_I	223_L	0.591	0.68
30_W	142_T	0.589	0.67
118_F	208_N	0.587	0.67
30_W	139_A	0.586	0.67
120_L	197_F	0.585	0.67
177_D	188_N	0.584	0.67
123_A	126_L	0.581	0.66
43_I	62_T	0.580	0.66
90_W	96_W	0.578	0.66
54_K	61_N	0.578	0.66
91_K	99_K	0.576	0.66
141_I	226_T	0.571	0.65
189_V	232_T	0.570	0.65
14_R	103_E	0.567	0.64
66_V	69_L	0.563	0.64
156_P	160_D	0.560	0.63
120_L	198_G	0.560	0.63
101_S	104_A	0.558	0.63
4_T	129_F	0.557	0.63
69_L	108_E	0.554	0.63
16_E	19_E	0.553	0.63
70_E	74_Y	0.553	0.63
32_K	59_K	0.551	0.62
83_K	87_S	0.549	0.62
109_Y	115_S	0.548	0.62
165_H	200_H	0.546	0.62
209_D	213_E	0.546	0.62
198_G	204_I	0.546	0.62
7_T	34_L	0.546	0.62
117_M	227_D	0.545	0.61
233_I	237_K	0.542	0.61
102_P	113_V	0.541	0.61
181_I	187_S	0.541	0.61
139_A	143_R	0.541	0.61
120_L	124_I	0.540	0.61
154_K	161_K	0.539	0.61
232_T	235_Y	0.536	0.60
68_D	73_F	0.536	0.60
14_R	21_K	0.535	0.60
23_S	26_H	0.535	0.60
34_L	37_L	0.534	0.60
89_E	92_N	0.534	0.60
147_G	150_T	0.534	0.60
160_D	165_H	0.533	0.60
22_R	26_H	0.533	0.60
31_F	35_L	0.532	0.60
167_F	193_R	0.531	0.59
76_E	79_D	0.528	0.59
120_L	134_F	0.527	0.59
21_K	227_D	0.526	0.59
145_H	152_D	0.526	0.59
118_F	121_N	0.525	0.59
46_D	68_D	0.524	0.58
85_R	103_E	0.524	0.58
89_E	94_I	0.523	0.58
67_I	119_F	0.523	0.58
32_K	52_F	0.522	0.58
113_V	139_A	0.521	0.58
214_L	218_T	0.517	0.57
82_Q	85_R	0.514	0.57
122_D	222_G	0.512	0.57
203_S	241_L	0.510	0.56
180_K	221_N	0.509	0.56
57_R	61_N	0.509	0.56
114_M	118_F	0.507	0.56
43_I	197_F	0.506	0.56
14_R	20_G	0.506	0.56
10_F	45_T	0.505	0.56
162_D	169_I	0.505	0.56
212_Y	216_E	0.502	0.55
47_E	55_E	0.502	0.55
65_I	126_L	0.501	0.55
144_V	152_D	0.500	0.55

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
3iohA	2	0.8199	55.8	0.939	Contact Map
1o7qA	1	0.8314	35.5	0.946	Contact Map
4m9dA	2	0.2261	6	0.962	Contact Map
1hulA	2	0.1648	5.7	0.963	Contact Map
1p9bA	2	0.2107	4	0.965	Contact Map
2p6wA	1	0.659	3.9	0.966	Contact Map
3ue9A	2	0.2299	3.4	0.966	Contact Map
3wnwA	6	0.1954	2.8	0.968	Contact Map
3hidA	2	0.2299	2.7	0.968	Contact Map
4aylA	1	0.7165	2.7	0.968	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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