Q97WF1 - SULSO - GREMLIN Contacts

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Q97WF1 - DNA polymerase phage SPO1 N-terminal domain homolog

UniProt:	Q97WF1	Sequences: MDNLDLIADEVRKCQKCKLWKFRKNAVPGEGNSKAEIMFIGEAPGENEDIEGKPFVGVAGKLLTRLINEILGLSREDVFITNLVKCRPPNNRDPEEDEILACSPYLTRQIESIRPHIIITLGRHSTSYLFKKMNMKMESIGKVRGKFYTWNIYGYKILVFPTYHPAAALYNPPIRKVLEEDFRKVKEALSSKPITLDNFLYGSGDKGEKGNSNSGK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	216 (179)
Sequences:	3145 (2224)
Seq/√Len:	166.2

HALSA - Q9HNJ0 Q9HQC4
SULSO - Q97WF1 Q97VA2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
30_E	53_K	4.384	1.00
36_E	116_H	3.793	1.00
38_M	110_I	2.911	1.00
39_F	119_I	2.641	1.00
103_S	107_T	2.416	1.00
11_V	26_A	2.251	1.00
108_R	111_E	2.205	1.00
38_M	113_I	2.205	1.00
43_A	84_V	2.135	1.00
66_L	182_F	2.104	1.00
93_D	124_H	2.083	1.00
20_W	23_R	2.080	1.00
147_F	160_F	2.052	1.00
46_E	50_I	1.950	1.00
66_L	178_L	1.937	1.00
23_R	86_C	1.885	1.00
88_P	98_E	1.860	1.00
147_F	188_A	1.857	1.00
17_C	102_C	1.849	1.00
69_E	179_E	1.829	1.00
30_E	75_R	1.771	1.00
15_Q	20_W	1.730	1.00
69_E	183_R	1.671	1.00
188_A	191_S	1.655	1.00
11_V	28_P	1.653	1.00
123_R	127_S	1.643	1.00
120_T	161_P	1.640	1.00
64_T	75_R	1.628	1.00
149_T	158_L	1.617	1.00
4_L	33_S	1.584	1.00
8_A	12_R	1.575	1.00
14_C	17_C	1.573	1.00
39_F	63_L	1.548	1.00
18_K	97_D	1.500	1.00
38_M	81_T	1.496	1.00
120_T	159_V	1.491	1.00
151_N	156_K	1.490	1.00
171_N	174_I	1.479	1.00
141_G	163_Y	1.466	1.00
114_R	157_I	1.465	1.00
79_F	109_Q	1.458	1.00
119_I	185_V	1.412	1.00
149_T	156_K	1.407	1.00
14_C	86_C	1.400	1.00
14_C	102_C	1.398	1.00
93_D	127_S	1.398	1.00
86_C	102_C	1.386	1.00
10_E	108_R	1.384	1.00
160_F	185_V	1.376	1.00
36_E	77_D	1.373	1.00
118_I	157_I	1.366	1.00
18_K	21_K	1.356	1.00
144_R	181_D	1.355	1.00
93_D	123_R	1.354	1.00
7_I	112_S	1.352	1.00
47_N	50_I	1.330	1.00
71_L	186_K	1.304	1.00
85_K	109_Q	1.297	1.00
24_K	50_I	1.293	1.00
39_F	67_I	1.290	1.00
158_L	188_A	1.265	1.00
110_I	118_I	1.262	1.00
175_R	179_E	1.255	1.00
117_I	160_F	1.251	1.00
37_I	185_V	1.234	1.00
186_K	190_S	1.222	1.00
47_N	51_E	1.205	1.00
67_I	78_V	1.201	1.00
139_S	142_K	1.194	1.00
160_F	188_A	1.191	1.00
168_A	178_L	1.186	1.00
99_I	128_Y	1.174	1.00
48_E	56_V	1.161	1.00
132_K	138_E	1.159	1.00
147_F	158_L	1.156	1.00
74_S	77_D	1.153	1.00
126_T	161_P	1.150	1.00
66_L	179_E	1.140	1.00
120_T	126_T	1.132	1.00
121_L	162_T	1.130	1.00
179_E	183_R	1.106	1.00
12_R	26_A	1.098	1.00
150_W	159_V	1.090	1.00
167_A	170_Y	1.088	1.00
184_K	187_E	1.087	1.00
92_R	98_E	1.084	1.00
174_I	177_V	1.077	1.00
27_V	54_P	1.070	0.99
37_I	119_I	1.067	0.99
83_L	128_Y	1.061	0.99
119_I	162_T	1.061	0.99
126_T	138_E	1.060	0.99
81_T	109_Q	1.059	0.99
167_A	171_N	1.053	0.99
167_A	174_I	1.039	0.99
16_K	104_P	1.037	0.99
32_N	35_A	1.029	0.99
138_E	143_V	1.024	0.99
120_T	129_L	1.017	0.99
32_N	77_D	1.013	0.99
9_D	13_K	1.011	0.99
39_F	121_L	1.006	0.99
43_A	88_P	0.998	0.99
96_E	100_L	0.995	0.99
17_C	86_C	0.986	0.99
40_I	120_T	0.982	0.99
99_I	124_H	0.961	0.99
119_I	189_L	0.958	0.99
184_K	188_A	0.958	0.99
6_L	9_D	0.956	0.99
65_R	69_E	0.926	0.99
41_G	55_F	0.924	0.99
126_T	143_V	0.923	0.99
132_K	143_V	0.917	0.98
66_L	71_L	0.911	0.98
45_G	48_E	0.910	0.98
67_I	71_L	0.902	0.98
8_A	28_P	0.902	0.98
4_L	112_S	0.891	0.98
37_I	73_L	0.889	0.98
9_D	12_R	0.886	0.98
19_L	23_R	0.881	0.98
58_V	170_Y	0.880	0.98
46_E	87_R	0.874	0.98
14_C	85_K	0.870	0.98
47_N	58_V	0.868	0.98
130_F	159_V	0.863	0.98
6_L	10_E	0.860	0.98
38_M	118_I	0.856	0.98
56_V	82_N	0.854	0.98
108_R	112_S	0.852	0.97
182_F	185_V	0.848	0.97
103_S	128_Y	0.839	0.97
61_K	64_T	0.838	0.97
65_R	175_R	0.835	0.97
37_I	189_L	0.835	0.97
61_K	65_R	0.831	0.97
140_I	161_P	0.828	0.97
40_I	106_L	0.826	0.97
62_L	179_E	0.819	0.97
15_Q	21_K	0.818	0.97
5_D	9_D	0.817	0.97
51_E	56_V	0.815	0.97
16_K	105_Y	0.813	0.97
107_T	111_E	0.813	0.97
117_I	158_L	0.806	0.96
32_N	79_F	0.806	0.96
187_E	190_S	0.804	0.96
25_N	49_D	0.803	0.96
117_I	185_V	0.802	0.96
81_T	106_L	0.801	0.96
176_K	180_E	0.789	0.96
39_F	78_V	0.781	0.96
18_K	95_E	0.778	0.96
124_H	127_S	0.776	0.96
104_P	108_R	0.776	0.96
40_I	129_L	0.774	0.96
120_T	125_S	0.769	0.95
100_L	131_K	0.760	0.95
163_Y	177_V	0.759	0.95
45_G	82_N	0.759	0.95
29_G	79_F	0.755	0.95
110_I	157_I	0.752	0.95
162_T	178_L	0.751	0.95
20_W	26_A	0.735	0.94
5_D	33_S	0.729	0.94
143_V	161_P	0.721	0.94
45_G	54_P	0.713	0.93
143_V	146_K	0.710	0.93
96_E	127_S	0.709	0.93
37_I	78_V	0.709	0.93
110_I	129_L	0.709	0.93
8_A	33_S	0.708	0.93
118_I	129_L	0.703	0.93
12_R	25_N	0.703	0.93
81_T	85_K	0.702	0.93
71_L	182_F	0.696	0.92
147_F	184_K	0.692	0.92
46_E	58_V	0.692	0.92
43_A	91_N	0.691	0.92
82_N	164_H	0.689	0.92
144_R	162_T	0.678	0.91
24_K	49_D	0.675	0.91
88_P	91_N	0.668	0.91
45_G	91_N	0.665	0.91
143_V	148_Y	0.658	0.90
14_C	23_R	0.650	0.90
7_I	11_V	0.645	0.89
168_A	175_R	0.644	0.89
64_T	80_I	0.643	0.89
5_D	8_A	0.643	0.89
82_N	91_N	0.638	0.89
64_T	67_I	0.637	0.89
163_Y	167_A	0.635	0.88
45_G	59_A	0.635	0.88
68_N	74_S	0.635	0.88
160_F	184_K	0.634	0.88
87_R	92_R	0.632	0.88
54_P	82_N	0.632	0.88
180_E	184_K	0.630	0.88
20_W	86_C	0.628	0.88
106_L	110_I	0.627	0.88
41_G	164_H	0.627	0.88
65_R	68_N	0.625	0.88
130_F	148_Y	0.623	0.87
55_F	89_P	0.622	0.87
4_L	7_I	0.617	0.87
28_P	79_F	0.616	0.87
138_E	161_P	0.615	0.87
29_G	109_Q	0.613	0.87
138_E	142_K	0.612	0.87
11_V	105_Y	0.609	0.86
83_L	99_I	0.607	0.86
104_P	107_T	0.604	0.86
123_R	139_S	0.599	0.85
23_R	49_D	0.595	0.85
41_G	82_N	0.588	0.84
115_P	118_I	0.588	0.84
19_L	49_D	0.587	0.84
62_L	169_L	0.587	0.84
54_P	59_A	0.586	0.84
180_E	183_R	0.586	0.84
186_K	189_L	0.584	0.84
42_E	87_R	0.581	0.84
163_Y	178_L	0.579	0.83
66_L	168_A	0.577	0.83
26_A	86_C	0.576	0.83
80_I	91_N	0.575	0.83
29_G	113_I	0.570	0.82
8_A	26_A	0.568	0.82
25_N	52_G	0.565	0.82
103_S	131_K	0.565	0.82
175_R	178_L	0.560	0.81
16_K	101_A	0.560	0.81
178_L	182_F	0.559	0.81
131_K	137_M	0.558	0.81
178_L	181_D	0.557	0.81
137_M	142_K	0.557	0.81
97_D	100_L	0.554	0.81
107_T	150_W	0.554	0.81
127_S	132_K	0.552	0.80
94_P	98_E	0.551	0.80
83_L	103_S	0.548	0.80
35_A	81_T	0.546	0.80
43_A	94_P	0.546	0.80
148_Y	159_V	0.546	0.80
185_V	189_L	0.546	0.80
97_D	101_A	0.544	0.79
117_I	188_A	0.544	0.79
35_A	113_I	0.542	0.79
42_E	48_E	0.542	0.79
65_R	179_E	0.540	0.79
91_N	98_E	0.537	0.79
59_A	170_Y	0.532	0.78
145_G	149_T	0.532	0.78
31_G	35_A	0.530	0.78
120_T	148_Y	0.529	0.78
181_D	184_K	0.526	0.77
23_R	26_A	0.526	0.77
107_T	110_I	0.525	0.77
163_Y	174_I	0.524	0.77
151_N	157_I	0.523	0.77
62_L	66_L	0.523	0.77
117_I	189_L	0.521	0.76
120_T	124_H	0.516	0.76
45_G	170_Y	0.506	0.74
38_M	115_P	0.504	0.74
42_E	166_A	0.500	0.74

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
1vk2A	1	0.8472	100	0.266	Contact Map
1ui0A	1	0.8611	100	0.271	Contact Map
2d3yA	1	0.8657	100	0.328	Contact Map
3ikbA	1	0.838	100	0.348	Contact Map
1wywA	1	0.8843	100	0.474	Contact Map
1mugA	1	0.6991	100	0.563	Contact Map
1oe4A	2	0.8009	100	0.567	Contact Map
2c2qA	1	0.7824	99.9	0.638	Contact Map
2l3fA	1	0.6713	98.7	0.835	Contact Map
1yc5A	1	0.3333	44.7	0.946	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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