PYREL - HALSA - GREMLIN Contacts

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PYREL - PyrE-like protein

UniProt:	Q9HS16	Sequences: MKNVDDLIDDAAALADRGLSRGEIADELNVSRETASWLVERADTNASVAATDTDDSPRDVHVDWSTIGEAGARLSAIGIALADALRDHSHDVDLVVGIEKAGVPLATATANELGTDLATYTPRKHQWDEGDMADLGGSFSRNFASVEDRDCFVVDDTVTSGTTITETIQAVREAGGTPVACGVLADKQGLGDVDGTPIEALLQVIRVGSGDD	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	212 (197)
Sequences:	114 (78)
Seq/√Len:	5.5

HALSA - PYREL

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
171_V	176_G	5.530	0.99
96_V	118_A	2.834	0.70
168_I	181_C	2.803	0.69
150_D	177_T	2.778	0.69
76_A	168_I	2.686	0.66
159_T	189_G	2.524	0.61
71_G	84_A	2.395	0.56
124_K	166_E	2.340	0.55
76_A	202_L	2.272	0.52
81_L	192_D	2.181	0.49
67_I	77_I	2.115	0.47
23_E	176_G	2.099	0.46
120_Y	160_S	2.098	0.46
36_S	39_V	2.022	0.44
16_D	154_V	2.022	0.44
81_L	198_I	1.983	0.43
73_R	83_D	1.938	0.41
33_E	63_D	1.926	0.41
124_K	189_G	1.886	0.39
11_A	200_A	1.875	0.39
110_A	118_A	1.872	0.39
172_R	178_P	1.854	0.38
98_I	192_D	1.823	0.37
74_L	105_L	1.810	0.37
23_E	107_T	1.792	0.36
66_T	203_Q	1.792	0.36
186_D	198_I	1.772	0.36
158_V	198_I	1.759	0.35
81_L	146_V	1.747	0.35
108_A	200_A	1.747	0.35
152_F	157_T	1.720	0.34
168_I	203_Q	1.709	0.34
23_E	35_A	1.629	0.31
85_L	154_V	1.625	0.31
11_A	176_G	1.587	0.30
114_G	179_V	1.578	0.30
9_D	82_A	1.564	0.29
60_V	207_V	1.552	0.29
81_L	167_T	1.550	0.29
185_A	195_G	1.549	0.29
16_D	146_V	1.516	0.28
44_T	171_V	1.504	0.28
10_D	152_F	1.502	0.28
63_D	166_E	1.493	0.27
164_I	181_C	1.483	0.27
74_L	179_V	1.461	0.27
124_K	159_T	1.451	0.26
5_D	108_A	1.450	0.26
95_V	169_Q	1.444	0.26
13_A	192_D	1.439	0.26
10_D	118_A	1.437	0.26
95_V	115_T	1.429	0.26
135_L	191_G	1.400	0.25
139_F	176_G	1.394	0.25
88_H	199_E	1.392	0.25
13_A	177_T	1.383	0.25
91_D	95_V	1.376	0.24
77_I	194_D	1.357	0.24
103_V	130_G	1.347	0.24
8_I	186_D	1.330	0.23
108_A	178_P	1.288	0.22
94_L	99_E	1.263	0.22
3_N	20_S	1.260	0.22
12_A	98_I	1.259	0.22
126_Q	141_R	1.235	0.21
4_V	136_G	1.231	0.21
117_L	130_G	1.224	0.21
78_G	108_A	1.219	0.21
56_S	206_R	1.215	0.21
149_R	204_V	1.215	0.21
125_H	159_T	1.214	0.21
168_I	198_I	1.214	0.21
8_I	118_A	1.204	0.20
150_D	205_I	1.203	0.20
32_R	151_C	1.202	0.20
22_G	186_D	1.198	0.20
122_P	166_E	1.196	0.20
91_D	193_V	1.192	0.20
92_V	116_D	1.191	0.20
19_L	136_G	1.190	0.20
179_V	192_D	1.188	0.20
22_G	142_N	1.173	0.20
139_F	142_N	1.172	0.20
109_T	152_F	1.170	0.20
100_K	181_C	1.170	0.20
4_V	131_D	1.162	0.19
33_E	109_T	1.160	0.19
87_D	146_V	1.157	0.19
22_G	124_K	1.140	0.19
167_T	176_G	1.140	0.19
19_L	83_D	1.131	0.19
148_D	173_E	1.129	0.19
37_W	57_P	1.122	0.19
177_T	193_V	1.106	0.18
17_R	23_E	1.098	0.18
106_A	184_L	1.090	0.18
108_A	117_L	1.082	0.18
85_L	116_D	1.081	0.18
77_I	87_D	1.060	0.17
158_V	164_I	1.043	0.17
125_H	129_E	1.039	0.17
19_L	73_R	1.036	0.17
92_V	201_L	1.022	0.17
42_A	77_I	1.014	0.16
23_E	171_V	1.003	0.16
24_I	98_I	1.003	0.16
159_T	186_D	0.998	0.16
148_D	177_T	0.995	0.16
88_H	91_D	0.992	0.16
83_D	113_L	0.991	0.16
115_T	136_G	0.989	0.16
79_I	153_V	0.982	0.16
20_S	122_P	0.982	0.16
180_A	198_I	0.982	0.16
144_A	169_Q	0.973	0.16
137_G	195_G	0.973	0.16
129_E	194_D	0.968	0.16
53_T	174_A	0.962	0.16
67_I	153_V	0.961	0.15
72_A	182_G	0.946	0.15
88_H	174_A	0.945	0.15
29_N	35_A	0.935	0.15
64_W	156_D	0.928	0.15
26_D	159_T	0.928	0.15
94_L	115_T	0.909	0.15
170_A	176_G	0.902	0.14
101_A	162_T	0.899	0.14
87_D	199_E	0.893	0.14
62_V	141_R	0.885	0.14
54_D	98_I	0.881	0.14
55_D	168_I	0.877	0.14
8_I	159_T	0.875	0.14
8_I	180_A	0.871	0.14
8_I	62_V	0.868	0.14
73_R	113_L	0.868	0.14
82_A	202_L	0.867	0.14
3_N	29_N	0.861	0.14
166_E	189_G	0.860	0.14
99_E	139_F	0.859	0.14
122_P	125_H	0.858	0.14
105_L	189_G	0.858	0.14
108_A	195_G	0.856	0.14
135_L	154_V	0.853	0.14
150_D	193_V	0.848	0.14
29_N	142_N	0.844	0.14
42_A	114_G	0.835	0.13
66_T	151_C	0.831	0.13
107_T	178_P	0.827	0.13
67_I	202_L	0.825	0.13
202_L	207_V	0.822	0.13
101_A	121_T	0.819	0.13
63_D	180_A	0.814	0.13
111_N	203_Q	0.812	0.13
29_N	73_R	0.805	0.13
71_G	177_T	0.801	0.13
4_V	62_V	0.796	0.13
16_D	72_A	0.794	0.13
168_I	171_V	0.786	0.13
70_A	81_L	0.780	0.13
67_I	158_V	0.772	0.12
52_D	91_D	0.768	0.12
6_D	52_D	0.768	0.12
30_V	80_A	0.764	0.12
99_E	126_Q	0.763	0.12
159_T	190_L	0.757	0.12
159_T	166_E	0.755	0.12
67_I	165_T	0.753	0.12
109_T	158_V	0.750	0.12
20_S	61_H	0.750	0.12
41_R	171_V	0.748	0.12
55_D	145_S	0.748	0.12
42_A	173_E	0.748	0.12
35_A	39_V	0.743	0.12
26_D	189_G	0.741	0.12
23_E	122_P	0.737	0.12
67_I	206_R	0.737	0.12
35_A	111_N	0.735	0.12
71_G	143_F	0.733	0.12
36_S	58_R	0.731	0.12
85_L	109_T	0.730	0.12
16_D	206_R	0.718	0.12
101_A	181_C	0.706	0.11
113_L	191_G	0.705	0.11
108_A	165_T	0.704	0.11
70_A	152_F	0.703	0.11
78_G	100_K	0.701	0.11
88_H	146_V	0.698	0.11
185_A	204_V	0.697	0.11
72_A	177_T	0.694	0.11
9_D	114_G	0.693	0.11
103_V	144_A	0.693	0.11
23_E	128_D	0.689	0.11
23_E	36_S	0.689	0.11
93_D	149_R	0.688	0.11
44_T	89_S	0.687	0.11
160_S	180_A	0.682	0.11
23_E	100_K	0.682	0.11
16_D	167_T	0.679	0.11
9_D	113_L	0.678	0.11
22_G	29_N	0.676	0.11
70_A	95_V	0.661	0.11
58_R	206_R	0.660	0.11
166_E	186_D	0.657	0.11
4_V	123_R	0.656	0.11
129_E	192_D	0.655	0.11
33_E	105_L	0.653	0.11
152_F	173_E	0.651	0.11
85_L	121_T	0.650	0.11
33_E	166_E	0.646	0.11
37_W	41_R	0.645	0.11
162_T	170_A	0.645	0.11
164_I	177_T	0.644	0.11
12_A	203_Q	0.643	0.11
53_T	177_T	0.642	0.11
39_V	58_R	0.641	0.11
37_W	92_V	0.640	0.11
105_L	179_V	0.639	0.11
55_D	193_V	0.637	0.11
168_I	180_A	0.632	0.10
83_D	116_D	0.631	0.10
9_D	184_L	0.625	0.10
66_T	95_V	0.622	0.10
9_D	148_D	0.621	0.10
99_E	200_A	0.614	0.10
61_H	120_Y	0.613	0.10
2_K	80_A	0.612	0.10
43_D	121_T	0.611	0.10
57_P	206_R	0.611	0.10
62_V	74_L	0.611	0.10
77_I	80_A	0.610	0.10
33_E	151_C	0.609	0.10
2_K	207_V	0.600	0.10
19_L	67_I	0.599	0.10
30_V	35_A	0.595	0.10
39_V	43_D	0.594	0.10
11_A	37_W	0.594	0.10
21_R	121_T	0.591	0.10
63_D	159_T	0.591	0.10
114_G	167_T	0.589	0.10
89_S	153_V	0.588	0.10
26_D	124_K	0.586	0.10
1_M	11_A	0.585	0.10
23_E	142_N	0.581	0.10
3_N	41_R	0.580	0.10
77_I	88_H	0.579	0.10
10_D	78_G	0.576	0.10
121_T	180_A	0.575	0.10
185_A	191_G	0.574	0.10
110_A	184_L	0.574	0.10
52_D	129_E	0.573	0.10
5_D	205_I	0.568	0.10
66_T	128_D	0.563	0.10
148_D	158_V	0.561	0.10
55_D	136_G	0.560	0.10
54_D	145_S	0.558	0.10
13_A	56_S	0.556	0.10
73_R	80_A	0.556	0.10
17_R	174_A	0.554	0.10
70_A	149_R	0.553	0.10
77_I	118_A	0.553	0.10
4_V	202_L	0.551	0.09
108_A	193_V	0.550	0.09
1_M	40_E	0.549	0.09
11_A	191_G	0.545	0.09
22_G	166_E	0.543	0.09
22_G	140_S	0.543	0.09
107_T	122_P	0.541	0.09
41_R	65_S	0.538	0.09
103_V	199_E	0.537	0.09
7_L	122_P	0.536	0.09
9_D	167_T	0.534	0.09
36_S	63_D	0.533	0.09
172_R	194_D	0.533	0.09
101_A	157_T	0.533	0.09
14_L	120_Y	0.530	0.09
62_V	105_L	0.530	0.09
13_A	76_A	0.529	0.09
11_A	184_L	0.526	0.09
9_D	190_L	0.526	0.09
78_G	173_E	0.523	0.09
13_A	92_V	0.522	0.09
162_T	167_T	0.521	0.09
53_T	91_D	0.518	0.09
9_D	118_A	0.516	0.09
63_D	105_L	0.516	0.09
147_E	152_F	0.516	0.09
184_L	203_Q	0.515	0.09
128_D	191_G	0.515	0.09
117_L	158_V	0.514	0.09
37_W	200_A	0.511	0.09
9_D	128_D	0.510	0.09
15_A	170_A	0.508	0.09
73_R	142_N	0.505	0.09
179_V	195_G	0.503	0.09
62_V	126_Q	0.500	0.09
89_S	146_V	0.500	0.09

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
4fymA	4	0.9245	99.9	0.741	Contact Map
2wnsA	2	0.8113	99.9	0.759	Contact Map
2p1zA	2	0.7783	99.9	0.761	Contact Map
3qw4B	4	0.8679	99.9	0.761	Contact Map
4pawA	2	0.7877	99.9	0.763	Contact Map
3n2lA	4	0.783	99.9	0.769	Contact Map
3mjdA	2	0.7877	99.9	0.77	Contact Map
2ps1A	2	0.8208	99.9	0.77	Contact Map
3dezA	2	0.8113	99.8	0.775	Contact Map
4ohcA	5	0.8443	99.8	0.776	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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