DUF1786 - PFAM28P - GREMLIN Contacts

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DUF1786 - Putative pyruvate format-lyase activating enzyme (DUF1786)

PFAM:	PF08735	Sequences: MGGGPSTWAVRDHLRAGLPVYATPEAARTFNDDLERVRAMGIEIVSELPAGAVRIELRDFDLEALRRALAAFGVDLPFAVAVAVQDHGFAPGVSDRQFRFDYLRERLRAGGRLSAFAYLAPIPPYMTRLRAVADSAPRLPPLLVMDTGPAAVLGALLDPRVAAREGVLVVNVGNFHTLAFLLGGGRIEGVFEHHTGLLTPEKLEDLLRRLADGTLTHEEVFDDGGHGAAYLDEPPGFGGFEFVAVTGPRRSM	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	252 (251)
Sequences:	1688 (1193)
Seq/√Len:	75.3
META:	0.921

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
202_K	223_D	5.522	1.00
209_R	219_E	4.744	1.00
35_E	38_R	4.364	1.00
10_V	20_V	4.142	1.00
218_E	222_D	3.614	1.00
122_I	133_A	3.214	1.00
19_P	43_E	3.151	1.00
197_L	224_G	3.099	1.00
84_V	132_V	3.057	1.00
97_Q	217_H	3.037	1.00
22_A	42_I	2.731	1.00
82_V	132_V	2.677	1.00
102_Y	125_Y	2.525	1.00
191_F	206_L	2.487	1.00
155_A	169_V	2.476	1.00
179_A	207_L	2.472	1.00
216_T	219_E	2.436	1.00
104_R	108_R	2.408	1.00
93_V	101_D	2.405	1.00
30_F	40_M	2.312	1.00
33_D	92_G	2.297	1.00
84_V	129_L	2.235	1.00
11_R	15_R	2.203	1.00
67_R	71_A	2.195	1.00
205_D	209_R	2.189	1.00
31_N	36_R	2.117	1.00
13_H	18_L	2.107	1.00
98_F	125_Y	2.074	1.00
10_V	30_F	2.065	1.00
168_L	207_L	2.056	1.00
6_S	29_T	2.026	1.00
200_P	204_E	2.023	1.00
7_T	30_F	2.008	1.00
83_A	147_T	1.978	1.00
25_E	28_R	1.915	1.00
61_D	64_A	1.903	1.00
68_A	72_F	1.869	1.00
23_T	26_A	1.847	1.00
161_V	244_A	1.835	1.00
117_A	143_L	1.830	1.00
112_R	115_A	1.724	1.00
179_A	191_F	1.721	1.00
208_R	212_D	1.718	1.00
64_A	68_A	1.684	1.00
21_Y	52_A	1.670	1.00
90_A	93_V	1.669	1.00
229_A	232_D	1.631	1.00
228_A	231_L	1.623	1.00
6_S	55_I	1.514	0.99
168_L	211_A	1.514	0.99
202_K	205_D	1.492	0.99
166_G	183_G	1.478	0.99
209_R	214_T	1.460	0.99
60_F	136_A	1.432	0.99
164_R	242_F	1.427	0.99
64_A	72_F	1.415	0.99
12_D	15_R	1.403	0.99
58_R	135_S	1.393	0.99
32_D	127_T	1.391	0.99
82_V	142_L	1.384	0.98
102_Y	126_M	1.379	0.98
28_R	95_D	1.375	0.98
160_R	163_A	1.359	0.98
6_S	57_L	1.355	0.98
210_L	214_T	1.353	0.98
147_T	171_N	1.348	0.98
118_Y	126_M	1.344	0.98
28_R	89_F	1.333	0.98
24_P	46_S	1.330	0.98
14_L	42_I	1.322	0.98
25_E	134_D	1.307	0.98
137_P	142_L	1.306	0.98
38_R	43_E	1.296	0.98
169_V	182_L	1.293	0.98
228_A	234_P	1.275	0.97
148_G	178_L	1.273	0.97
10_V	22_A	1.271	0.97
129_L	144_V	1.264	0.97
21_Y	43_E	1.256	0.97
32_D	59_D	1.202	0.96
94_S	221_F	1.198	0.96
199_T	202_K	1.197	0.96
181_L	189_G	1.194	0.96
206_L	210_L	1.169	0.96
217_H	221_F	1.148	0.95
36_R	39_A	1.139	0.95
170_V	207_L	1.133	0.95
110_G	115_A	1.127	0.95
202_K	206_L	1.123	0.95
118_Y	123_P	1.111	0.94
206_L	223_D	1.104	0.94
231_L	234_P	1.090	0.94
1_M	59_D	1.088	0.94
191_F	215_L	1.059	0.93
84_V	147_T	1.059	0.93
33_D	36_R	1.056	0.93
59_D	148_G	1.053	0.93
152_V	180_F	1.047	0.92
124_P	130_R	1.045	0.92
148_G	151_A	1.035	0.92
206_L	220_V	1.034	0.92
177_T	198_L	1.034	0.92
1_M	4_G	1.033	0.92
68_A	71_A	1.030	0.92
66_R	70_A	1.028	0.92
103_L	106_R	1.023	0.91
31_N	95_D	1.014	0.91
73_G	80_V	1.005	0.91
38_R	44_I	1.005	0.91
33_D	91_P	1.004	0.91
129_L	132_V	0.998	0.90
125_Y	129_L	0.989	0.90
5_P	8_W	0.983	0.90
102_Y	175_F	0.980	0.90
37_V	40_M	0.980	0.90
105_E	125_Y	0.980	0.90
34_L	44_I	0.975	0.89
234_P	239_G	0.971	0.89
127_T	131_A	0.967	0.89
58_R	61_D	0.953	0.88
215_L	220_V	0.952	0.88
230_Y	234_P	0.948	0.88
65_L	76_L	0.942	0.88
85_Q	175_F	0.937	0.87
103_L	116_F	0.935	0.87
209_R	216_T	0.934	0.87
11_R	31_N	0.933	0.87
193_H	223_D	0.927	0.87
7_T	11_R	0.921	0.86
210_L	228_A	0.918	0.86
27_A	34_L	0.917	0.86
132_V	135_S	0.914	0.86
148_G	171_N	0.912	0.86
183_G	186_R	0.911	0.86
22_A	26_A	0.911	0.86
158_D	161_V	0.908	0.86
183_G	188_E	0.908	0.86
33_D	95_D	0.906	0.86
48_L	52_A	0.903	0.85
59_D	127_T	0.902	0.85
82_V	136_A	0.900	0.85
190_V	210_L	0.889	0.84
131_A	219_E	0.886	0.84
32_D	100_F	0.886	0.84
32_D	96_R	0.885	0.84
80_V	136_A	0.885	0.84
233_E	236_G	0.878	0.84
90_A	95_D	0.877	0.84
85_Q	180_F	0.874	0.83
101_D	104_R	0.865	0.83
24_P	38_R	0.862	0.83
205_D	208_R	0.858	0.82
81_A	117_A	0.857	0.82
191_F	210_L	0.856	0.82
158_D	244_A	0.855	0.82
23_T	81_A	0.855	0.82
96_R	100_F	0.853	0.82
133_A	142_L	0.849	0.82
14_L	207_L	0.841	0.81
130_R	134_D	0.840	0.81
98_F	102_Y	0.840	0.81
165_E	184_G	0.838	0.81
9_A	13_H	0.838	0.81
197_L	206_L	0.828	0.80
172_V	177_T	0.823	0.80
151_A	178_L	0.814	0.79
6_S	22_A	0.813	0.79
22_A	30_F	0.812	0.79
4_G	9_A	0.805	0.78
96_R	221_F	0.805	0.78
228_A	232_D	0.800	0.78
166_G	188_E	0.800	0.78
116_F	167_V	0.798	0.77
121_P	133_A	0.794	0.77
66_R	76_L	0.793	0.77
16_A	220_V	0.784	0.76
205_D	218_E	0.782	0.76
77_P	110_G	0.780	0.76
30_F	42_I	0.779	0.76
103_L	149_P	0.778	0.76
220_V	223_D	0.777	0.76
66_R	71_A	0.773	0.75
170_V	245_V	0.770	0.75
14_L	44_I	0.769	0.75
132_V	144_V	0.767	0.75
85_Q	224_G	0.767	0.75
234_P	237_F	0.759	0.74
133_A	141_P	0.759	0.74
96_R	173_G	0.758	0.74
34_L	37_V	0.757	0.74
36_R	224_G	0.753	0.73
11_R	14_L	0.752	0.73
231_L	235_P	0.752	0.73
247_G	250_R	0.750	0.73
94_S	97_Q	0.750	0.73
229_A	234_P	0.749	0.73
107_L	186_R	0.748	0.73
66_R	78_F	0.747	0.73
197_L	223_D	0.743	0.72
29_T	37_V	0.742	0.72
29_T	136_A	0.741	0.72
83_A	129_L	0.740	0.72
160_R	164_R	0.739	0.72
129_L	136_A	0.739	0.72
111_G	115_A	0.736	0.72
230_Y	233_E	0.732	0.71
96_R	193_H	0.729	0.71
63_E	67_R	0.726	0.71
195_T	198_L	0.725	0.70
101_D	105_E	0.723	0.70
80_V	144_V	0.722	0.70
12_D	67_R	0.720	0.70
180_F	224_G	0.716	0.69
175_F	224_G	0.715	0.69
94_S	116_F	0.714	0.69
5_P	9_A	0.714	0.69
123_P	129_L	0.712	0.69
107_L	229_A	0.711	0.69
171_N	174_N	0.705	0.68
208_R	211_A	0.705	0.68
59_D	74_V	0.703	0.68
7_T	31_N	0.701	0.68
180_F	187_I	0.695	0.67
102_Y	105_E	0.691	0.67
19_P	55_I	0.691	0.67
135_S	142_L	0.691	0.67
69_L	76_L	0.689	0.67
38_R	75_D	0.689	0.67
102_Y	152_V	0.687	0.66
38_R	251_S	0.686	0.66
104_R	217_H	0.685	0.66
181_L	188_E	0.685	0.66
61_D	66_R	0.684	0.66
36_R	40_M	0.682	0.66
190_V	206_L	0.682	0.66
89_F	95_D	0.678	0.65
129_L	147_T	0.678	0.65
60_F	129_L	0.677	0.65
237_F	240_F	0.674	0.65
217_H	224_G	0.673	0.65
8_W	11_R	0.672	0.65
149_P	171_N	0.671	0.64
60_F	80_V	0.671	0.64
181_L	240_F	0.667	0.64
14_L	20_V	0.665	0.64
60_F	82_V	0.663	0.64
20_V	42_I	0.663	0.64
106_R	148_G	0.661	0.63
68_A	73_G	0.658	0.63
152_V	215_L	0.658	0.63
166_G	184_G	0.658	0.63
7_T	29_T	0.656	0.63
167_V	242_F	0.650	0.62
145_M	158_D	0.648	0.62
181_L	211_A	0.648	0.62
21_Y	45_V	0.648	0.62
136_A	151_A	0.646	0.62
8_W	196_G	0.644	0.61
60_F	102_Y	0.643	0.61
57_L	89_F	0.641	0.61
79_A	141_P	0.641	0.61
106_R	116_F	0.639	0.61
206_L	224_G	0.638	0.61
8_W	12_D	0.635	0.60
173_G	193_H	0.634	0.60
7_T	10_V	0.632	0.60
106_R	109_A	0.629	0.59
24_P	159_P	0.625	0.59
245_V	250_R	0.625	0.59
96_R	174_N	0.625	0.59
120_A	133_A	0.624	0.59
50_A	122_I	0.622	0.59
220_V	226_H	0.615	0.58
63_E	163_A	0.615	0.58
206_L	215_L	0.614	0.58
83_A	174_N	0.612	0.57
155_A	246_T	0.611	0.57
20_V	30_F	0.606	0.57
60_F	142_L	0.606	0.57
105_E	130_R	0.602	0.56
107_L	152_V	0.601	0.56
32_D	95_D	0.600	0.56
119_L	133_A	0.595	0.55
100_F	193_H	0.595	0.55
160_R	208_R	0.594	0.55
24_P	47_E	0.594	0.55
115_A	118_Y	0.594	0.55
23_T	47_E	0.594	0.55
76_L	108_R	0.593	0.55
23_T	54_R	0.592	0.55
145_M	150_A	0.592	0.55
31_N	89_F	0.590	0.55
172_V	203_L	0.589	0.55
13_H	16_A	0.589	0.55
157_L	244_A	0.587	0.54
16_A	39_A	0.586	0.54
168_L	181_L	0.586	0.54
56_E	63_E	0.585	0.54
233_E	237_F	0.585	0.54
44_I	231_L	0.581	0.54
124_P	163_A	0.581	0.54
67_R	144_V	0.577	0.53
72_F	117_A	0.575	0.53
37_V	42_I	0.575	0.53
243_V	249_R	0.574	0.53
169_V	244_A	0.574	0.53
238_G	241_E	0.574	0.53
59_D	155_A	0.571	0.52
164_R	167_V	0.566	0.52
10_V	42_I	0.565	0.52
170_V	179_A	0.564	0.51
95_D	147_T	0.564	0.51
138_R	239_G	0.561	0.51
236_G	239_G	0.560	0.51
18_L	22_A	0.560	0.51
160_R	218_E	0.557	0.51
44_I	53_V	0.556	0.50
55_I	75_D	0.555	0.50
59_D	150_A	0.553	0.50
243_V	246_T	0.552	0.50
231_L	239_G	0.551	0.50
79_A	142_L	0.549	0.50
107_L	200_P	0.549	0.50
1_M	5_P	0.548	0.49
67_R	124_P	0.547	0.49
106_R	118_Y	0.547	0.49
113_L	149_P	0.545	0.49
95_D	100_F	0.544	0.49
166_G	181_L	0.543	0.49
100_F	173_G	0.542	0.49
8_W	178_L	0.539	0.48
85_Q	148_G	0.535	0.48
72_F	126_M	0.535	0.48
14_L	53_V	0.534	0.48
117_A	175_F	0.534	0.48
45_V	48_L	0.533	0.48
166_G	241_E	0.533	0.48
10_V	249_R	0.530	0.47
46_S	54_R	0.529	0.47
106_R	220_V	0.528	0.47
67_R	238_G	0.527	0.47
112_R	187_I	0.525	0.47
170_V	198_L	0.523	0.46
117_A	149_P	0.523	0.46
210_L	215_L	0.523	0.46
75_D	78_F	0.522	0.46
137_P	140_P	0.521	0.46
148_G	153_L	0.520	0.46
64_A	155_A	0.520	0.46
62_L	69_L	0.520	0.46
7_T	40_M	0.519	0.46
55_I	155_A	0.518	0.46
122_I	142_L	0.517	0.46
97_Q	187_I	0.517	0.46
229_A	233_E	0.516	0.45
133_A	144_V	0.516	0.45
32_D	174_N	0.515	0.45
124_P	208_R	0.515	0.45
32_D	173_G	0.514	0.45
72_F	153_L	0.514	0.45
18_L	34_L	0.512	0.45
48_L	54_R	0.510	0.45
127_T	155_A	0.510	0.45
13_H	17_G	0.509	0.45
165_E	168_L	0.508	0.44
118_Y	179_A	0.506	0.44
85_Q	181_L	0.505	0.44
60_F	137_P	0.505	0.44
28_R	210_L	0.505	0.44
73_G	97_Q	0.505	0.44
56_E	109_A	0.504	0.44
97_Q	101_D	0.504	0.44
10_V	28_R	0.503	0.44
9_A	16_A	0.501	0.44
147_T	174_N	0.500	0.43
107_L	110_G	0.500	0.43

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
4ehuA	2	0.2698	67.8	0.959	Contact Map
3djcA	5	0.3413	67.1	0.959	Contact Map
2h3gX	2	0.3135	64.6	0.96	Contact Map
3nxkA	4	0.2857	42.1	0.965	Contact Map
3bexA	2	0.3373	39.7	0.965	Contact Map
3wisA	4	0.254	38.1	0.966	Contact Map
2fiqA	4	0.8214	34.4	0.966	Contact Map
2ychA	1	0.873	33.3	0.967	Contact Map
3rxyA	4	0.2937	31.2	0.967	Contact Map
3enoA	1	0.2897	29.7	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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