XPF - SULSO - GREMLIN Contacts

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XPF - 3'-flap repair endonuclease Xpf

UniProt:	Q7LXL5	Sequences: MVIRIYADDREKASGIPELLKELGITVIFSQLTVADYVITDDVAVERKSVNDLVNSVFDKRFFDQISRLSEVYRFPILLVEGDINDIRKITEKWRAINNALISATIDYDVKVFYSRDKKDTAEVLKKIAEKFQFGENKSNRISLHNKAKLESVSDIQLYIVESFPNVGSILAERLLLKFGTIQNICNASISELEKALGSRKKAEDIYKILRTHYSKTNLDNDSKKTTSLFDFL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_01
Length:	233 (208)
Sequences:	672 (453)
Seq/√Len:	31.4

HALSA - Q9HMW5
SULSO - XPF

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
45_V	125_L	4.688	1.00
207_Y	211_R	4.282	1.00
5_I	125_L	4.126	1.00
179_F	188_A	3.713	1.00
113_F	124_V	3.523	1.00
43_V	77_I	3.367	1.00
66_I	104_A	3.048	1.00
42_D	74_R	2.987	1.00
40_T	132_F	2.796	1.00
39_I	45_V	2.674	1.00
189_S	192_E	2.514	1.00
44_A	73_Y	2.487	0.99
194_E	203_A	2.453	0.99
35_A	44_A	2.410	0.99
179_F	196_A	2.338	0.99
175_L	185_I	2.288	0.99
39_I	125_L	2.201	0.99
115_S	124_V	2.169	0.99
167_V	175_L	2.141	0.98
115_S	121_T	2.130	0.98
190_I	204_E	2.061	0.98
194_E	200_R	1.980	0.97
160_I	182_I	1.971	0.97
164_F	206_I	1.963	0.97
23_L	126_K	1.962	0.97
40_T	73_Y	1.902	0.97
9_D	31_Q	1.873	0.96
42_D	132_F	1.841	0.96
12_K	29_F	1.807	0.95
8_D	11_E	1.783	0.95
190_I	200_R	1.770	0.95
69_L	72_V	1.746	0.94
76_P	121_T	1.706	0.94
48_K	65_Q	1.701	0.94
182_I	185_I	1.689	0.93
44_A	69_L	1.638	0.92
164_F	167_V	1.617	0.92
121_T	125_L	1.584	0.91
178_K	192_E	1.540	0.90
183_Q	207_Y	1.521	0.89
66_I	110_V	1.516	0.89
197_L	206_I	1.515	0.89
48_K	52_D	1.504	0.88
79_L	121_T	1.487	0.88
38_V	44_A	1.473	0.87
7_A	16_I	1.469	0.87
175_L	179_F	1.424	0.86
69_L	134_F	1.420	0.85
104_A	112_V	1.417	0.85
46_E	52_D	1.401	0.85
18_E	21_K	1.398	0.84
4_R	28_I	1.387	0.84
60_K	161_V	1.386	0.84
145_H	163_S	1.364	0.83
53_L	80_V	1.342	0.82
11_E	48_K	1.330	0.81
7_A	154_S	1.325	0.81
81_E	121_T	1.324	0.81
204_E	208_K	1.283	0.79
14_S	122_A	1.279	0.79
36_D	48_K	1.274	0.78
16_I	79_L	1.274	0.78
48_K	56_S	1.269	0.78
46_E	56_S	1.266	0.78
186_C	210_L	1.264	0.78
22_E	113_F	1.249	0.77
36_D	65_Q	1.248	0.77
31_Q	70_S	1.238	0.76
188_A	192_E	1.234	0.76
64_D	68_R	1.229	0.76
181_T	208_K	1.224	0.75
193_L	203_A	1.213	0.75
182_I	186_C	1.207	0.74
67_S	210_L	1.198	0.74
10_R	48_K	1.195	0.74
191_S	195_K	1.187	0.73
52_D	65_Q	1.170	0.72
7_A	78_L	1.167	0.72
38_V	106_I	1.165	0.72
141_R	145_H	1.164	0.72
52_D	56_S	1.153	0.71
56_S	61_R	1.119	0.69
84_I	113_F	1.117	0.68
178_K	204_E	1.109	0.68
14_S	17_P	1.100	0.67
62_F	78_L	1.097	0.67
78_L	110_V	1.095	0.67
181_T	184_N	1.092	0.67
181_T	212_T	1.084	0.66
196_A	203_A	1.066	0.65
50_V	54_V	1.060	0.64
97_I	142_I	1.049	0.64
46_E	65_Q	1.047	0.63
61_R	164_F	1.046	0.63
158_L	162_E	1.012	0.61
87_I	91_T	1.004	0.60
25_I	126_K	1.004	0.60
70_S	144_L	1.003	0.60
78_L	104_A	1.003	0.60
4_R	26_T	0.987	0.59
73_Y	110_V	0.987	0.59
12_K	17_P	0.983	0.58
56_S	60_K	0.983	0.58
6_Y	28_I	0.968	0.57
80_V	114_Y	0.967	0.57
31_Q	111_K	0.966	0.57
111_K	114_Y	0.956	0.56
203_A	207_Y	0.948	0.56
178_K	195_K	0.948	0.56
14_S	63_F	0.941	0.55
96_A	168_G	0.933	0.54
111_K	162_E	0.931	0.54
14_S	37_Y	0.921	0.53
168_G	171_L	0.917	0.53
66_I	78_L	0.914	0.53
183_Q	211_R	0.907	0.52
208_K	214_Y	0.905	0.52
53_L	79_L	0.899	0.52
111_K	115_S	0.896	0.51
183_Q	188_A	0.892	0.51
47_R	52_D	0.880	0.50
190_I	194_E	0.867	0.49
69_L	80_V	0.863	0.49
51_N	124_V	0.860	0.49
167_V	171_L	0.860	0.49
176_L	184_N	0.858	0.48
193_L	206_I	0.852	0.48
23_L	122_A	0.851	0.48
35_A	52_D	0.838	0.47
163_S	191_S	0.838	0.47
13_A	118_K	0.834	0.46
53_L	101_L	0.833	0.46
163_S	206_I	0.830	0.46
32_L	43_V	0.829	0.46
151_E	190_I	0.827	0.46
187_N	190_I	0.824	0.46
75_F	176_L	0.818	0.45
157_Q	209_I	0.817	0.45
158_L	206_I	0.815	0.45
51_N	211_R	0.814	0.45
116_R	120_D	0.810	0.44
157_Q	164_F	0.807	0.44
42_D	178_K	0.806	0.44
168_G	202_K	0.804	0.44
88_R	121_T	0.799	0.44
163_S	193_L	0.799	0.44
82_G	100_A	0.792	0.43
191_S	210_L	0.787	0.43
5_I	8_D	0.787	0.43
162_E	169_S	0.780	0.42
102_I	105_T	0.779	0.42
39_I	208_K	0.778	0.42
6_Y	20_L	0.776	0.42
82_G	88_R	0.772	0.41
172_A	197_L	0.768	0.41
43_V	144_L	0.768	0.41
109_D	181_T	0.764	0.41
148_A	191_S	0.764	0.41
203_A	206_I	0.762	0.41
150_L	162_E	0.757	0.40
193_L	207_Y	0.756	0.40
40_T	44_A	0.752	0.40
107_D	131_K	0.746	0.39
5_I	25_I	0.743	0.39
139_S	143_S	0.742	0.39
120_D	124_V	0.739	0.39
35_A	65_Q	0.734	0.38
21_K	123_E	0.733	0.38
17_P	61_R	0.728	0.38
159_Y	209_I	0.724	0.38
161_V	182_I	0.722	0.38
33_T	201_K	0.721	0.37
98_N	182_I	0.720	0.37
17_P	118_K	0.714	0.37
174_R	196_A	0.713	0.37
46_E	185_I	0.709	0.37
55_N	59_D	0.708	0.37
74_R	124_V	0.708	0.37
5_I	192_E	0.707	0.36
69_L	135_G	0.706	0.36
36_D	46_E	0.704	0.36
183_Q	186_C	0.702	0.36
38_V	73_Y	0.702	0.36
66_I	130_E	0.699	0.36
13_A	60_K	0.695	0.36
45_V	74_R	0.695	0.36
183_Q	187_N	0.690	0.35
66_I	179_F	0.687	0.35
95_R	175_L	0.683	0.35
60_K	63_F	0.678	0.34
168_G	172_A	0.676	0.34
35_A	48_K	0.673	0.34
11_E	56_S	0.672	0.34
66_I	198_G	0.671	0.34
7_A	17_P	0.670	0.34
189_S	194_E	0.669	0.34
195_K	210_L	0.668	0.34
57_V	149_K	0.668	0.34
123_E	147_K	0.667	0.33
103_S	107_D	0.666	0.33
184_N	196_A	0.666	0.33
94_W	98_N	0.666	0.33
29_F	129_A	0.665	0.33
12_K	37_Y	0.664	0.33
103_S	175_L	0.661	0.33
73_Y	134_F	0.660	0.33
142_I	153_V	0.660	0.33
11_E	36_D	0.659	0.33
40_T	103_S	0.659	0.33
106_I	170_I	0.655	0.33
37_Y	112_V	0.655	0.33
20_L	25_I	0.654	0.33
50_V	97_I	0.652	0.32
77_I	126_K	0.650	0.32
8_D	65_Q	0.650	0.32
28_I	80_V	0.648	0.32
104_A	110_V	0.647	0.32
61_R	65_Q	0.640	0.32
19_L	23_L	0.640	0.32
115_S	181_T	0.639	0.31
106_I	175_L	0.636	0.31
35_A	46_E	0.633	0.31
167_V	197_L	0.632	0.31
114_Y	135_G	0.631	0.31
40_T	190_I	0.630	0.31
191_S	200_R	0.629	0.31
66_I	118_K	0.629	0.31
124_V	201_K	0.627	0.31
143_S	193_L	0.617	0.30
62_F	69_L	0.615	0.30
117_D	141_R	0.615	0.30
160_I	164_F	0.613	0.30
46_E	61_R	0.612	0.30
159_Y	163_S	0.612	0.30
24_G	176_L	0.608	0.29
145_H	159_Y	0.606	0.29
68_R	71_E	0.606	0.29
5_I	66_I	0.603	0.29
112_V	196_A	0.602	0.29
112_V	191_S	0.602	0.29
50_V	53_L	0.601	0.29
140_N	202_K	0.601	0.29
63_F	103_S	0.600	0.29
185_I	211_R	0.599	0.29
175_L	182_I	0.596	0.29
201_K	205_D	0.595	0.28
66_I	98_N	0.594	0.28
48_K	57_V	0.593	0.28
185_I	188_A	0.592	0.28
77_I	131_K	0.592	0.28
42_D	75_F	0.591	0.28
78_L	124_V	0.585	0.28
19_L	134_F	0.584	0.28
202_K	205_D	0.577	0.27
190_I	195_K	0.577	0.27
174_R	178_K	0.576	0.27
175_L	204_E	0.575	0.27
188_A	193_L	0.573	0.27
17_P	24_G	0.573	0.27
175_L	197_L	0.572	0.27
27_V	54_V	0.571	0.27
196_A	213_H	0.571	0.27
47_R	81_E	0.570	0.27
93_K	181_T	0.566	0.27
9_D	40_T	0.566	0.27
49_S	52_D	0.566	0.27
6_Y	15_G	0.560	0.26
158_L	205_D	0.558	0.26
83_D	138_K	0.557	0.26
208_K	212_T	0.556	0.26
100_A	112_V	0.556	0.26
20_L	37_Y	0.551	0.26
59_D	208_K	0.549	0.26
60_K	166_N	0.549	0.26
51_N	93_K	0.548	0.25
56_S	166_N	0.542	0.25
47_R	56_S	0.541	0.25
54_V	83_D	0.541	0.25
205_D	208_K	0.540	0.25
35_A	198_G	0.539	0.25
45_V	183_Q	0.538	0.25
66_I	116_R	0.538	0.25
7_A	12_K	0.538	0.25
188_A	206_I	0.538	0.25
129_A	134_F	0.535	0.25
58_F	127_K	0.534	0.25
138_K	163_S	0.531	0.24
30_S	107_D	0.530	0.24
80_V	97_I	0.529	0.24
163_S	212_T	0.528	0.24
174_R	210_L	0.526	0.24
64_D	202_K	0.524	0.24
71_E	78_L	0.520	0.24
6_Y	212_T	0.520	0.24
121_T	211_R	0.519	0.24
4_R	15_G	0.517	0.24
69_L	78_L	0.517	0.24
142_I	204_E	0.517	0.24
129_A	135_G	0.516	0.24
164_F	176_L	0.515	0.23
70_S	210_L	0.515	0.23
142_I	212_T	0.514	0.23
24_G	37_Y	0.513	0.23
27_V	170_I	0.511	0.23
80_V	183_Q	0.509	0.23
178_K	196_A	0.506	0.23
150_L	169_S	0.503	0.23
77_I	160_I	0.502	0.23
27_V	56_S	0.502	0.23
102_I	115_S	0.502	0.23
5_I	45_V	0.500	0.23
26_T	150_L	0.500	0.23

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
4bxoA	1	0.8498	100	0.368	Contact Map
2bgwA	2	0.9056	100	0.406	Contact Map
2ziuA	1	0.9227	100	0.439	Contact Map
4p0pA	1	0.9185	100	0.44	Contact Map
1j23A	2	0.5622	100	0.469	Contact Map
4bxoB	1	0.8155	100	0.472	Contact Map
4gfjA	1	0.7897	100	0.59	Contact Map
2csbA	1	0.7425	100	0.606	Contact Map
2ziuB	1	0.9056	99.9	0.668	Contact Map
4p0pB	1	0.9185	99.8	0.7	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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