PMD - PFAM28P - GREMLIN Contacts

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PMD - Plant mobile domain

PFAM:	PF10536	Sequences: GIYDAISLSLYPIEKDENLLKALVEFWSPETNTFHFPWGEMTITLEDVAMLLGLPISGSPVTAPLESSELREVCEKLLGVRPELKLSKKAGCTNWSAWLNQFFKTKKEHRAFLLLWLGHFLFPGPSGAPVKVNYLPLAYDLARGGRYALGPAVLAELYRDLHLASSSLLKKLRLGGPLWLLQLWAWERFPVLRPNFPSLAENSGGEPRAARWGQAKSSKLEWFRKFLDGLSPDDFIWRPYTDSELFEWALFRFYDENGDWVTYSIMLPPELLSFARCLRTSNLIGFDGVEFYQPHRVARQFGLDQDIPGPVFLHHLTDRRVDPDADWSQRHESAWSDYNKPIDLYVPRLSETSVTVDYMEWWK	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	363 (361)
Sequences:	717 (520)
Seq/√Len:	27.4
META:	0.071

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
256_E	262_T	3.982	1.00
207_P	210_A	3.886	1.00
23_L	185_A	3.872	1.00
338_Y	341_P	3.666	1.00
207_P	211_R	3.538	1.00
253_F	259_D	3.469	1.00
335_W	338_Y	3.347	1.00
253_F	256_E	3.301	1.00
256_E	259_D	3.266	1.00
40_E	296_R	3.261	1.00
259_D	262_T	3.148	1.00
274_F	277_C	3.130	1.00
220_L	224_R	2.778	1.00
253_F	258_G	2.666	0.99
224_R	227_L	2.648	0.99
256_E	260_W	2.641	0.99
32_N	162_H	2.565	0.99
226_F	229_G	2.553	0.99
249_A	252_R	2.394	0.99
334_A	338_Y	2.337	0.99
209_A	212_W	2.298	0.98
257_N	262_T	2.242	0.98
253_F	262_T	2.238	0.98
199_L	202_N	2.200	0.98
42_T	297_V	2.199	0.98
256_E	261_V	2.123	0.97
252_R	262_T	2.114	0.97
98_W	103_F	2.085	0.97
225_K	228_D	2.073	0.97
305_Q	308_P	2.026	0.96
222_W	227_L	2.012	0.96
249_A	257_N	2.006	0.96
358_Y	361_W	2.001	0.96
253_F	257_N	1.953	0.96
253_F	261_V	1.953	0.96
334_A	337_D	1.914	0.95
176_G	182_Q	1.908	0.95
184_W	189_F	1.898	0.95
315_H	320_R	1.886	0.95
337_D	340_K	1.873	0.94
41_M	235_F	1.866	0.94
327_W	335_W	1.824	0.94
307_I	310_P	1.804	0.93
318_D	321_V	1.804	0.93
332_E	335_W	1.799	0.93
210_A	215_A	1.776	0.93
258_G	261_V	1.764	0.92
42_T	182_Q	1.758	0.92
177_P	184_W	1.737	0.92
116_W	138_A	1.723	0.91
335_W	341_P	1.697	0.91
199_L	203_S	1.694	0.91
337_D	342_I	1.693	0.91
98_W	102_F	1.674	0.90
253_F	260_W	1.651	0.90
223_F	227_L	1.646	0.89
25_E	224_R	1.626	0.89
23_L	43_I	1.616	0.88
117_L	138_A	1.614	0.88
200_A	203_S	1.588	0.88
184_W	188_R	1.584	0.87
331_H	335_W	1.573	0.87
331_H	334_A	1.560	0.87
273_S	278_L	1.546	0.86
335_W	340_K	1.528	0.85
73_V	76_K	1.527	0.85
263_Y	268_P	1.525	0.85
224_R	228_D	1.521	0.85
2_I	9_S	1.517	0.85
34_F	44_T	1.514	0.85
316_L	322_D	1.513	0.85
207_P	212_W	1.513	0.85
97_A	101_Q	1.511	0.85
313_L	316_L	1.508	0.85
257_N	260_W	1.501	0.84
190_P	193_R	1.500	0.84
337_D	341_P	1.498	0.84
98_W	111_A	1.484	0.84
313_L	317_T	1.483	0.84
257_N	261_V	1.482	0.84
316_L	320_R	1.475	0.83
222_W	229_G	1.470	0.83
74_C	80_V	1.439	0.82
225_K	229_G	1.426	0.81
358_Y	362_W	1.412	0.80
250_L	256_E	1.407	0.80
196_F	202_N	1.403	0.80
220_L	226_F	1.391	0.79
185_A	189_F	1.386	0.79
270_E	273_S	1.385	0.79
148_A	151_P	1.378	0.79
33_T	40_E	1.374	0.79
315_H	321_V	1.370	0.78
273_S	276_R	1.352	0.77
273_S	277_C	1.352	0.77
222_W	226_F	1.348	0.77
197_P	202_N	1.331	0.76
306_D	309_G	1.330	0.76
265_I	268_P	1.329	0.76
52_L	177_P	1.328	0.76
209_A	213_G	1.326	0.76
314_H	317_T	1.325	0.76
39_G	42_T	1.322	0.76
308_P	361_W	1.308	0.75
314_H	320_R	1.300	0.75
325_A	328_S	1.295	0.74
254_Y	261_V	1.294	0.74
76_K	79_G	1.277	0.73
187_E	193_R	1.277	0.73
236_I	245_L	1.274	0.73
138_A	144_G	1.264	0.72
258_G	262_T	1.263	0.72
3_Y	7_S	1.262	0.72
116_W	120_F	1.262	0.72
61_V	152_A	1.255	0.72
211_R	214_Q	1.253	0.72
186_W	193_R	1.252	0.72
83_E	86_L	1.244	0.71
210_A	213_G	1.238	0.71
109_H	141_L	1.238	0.71
94_N	98_W	1.233	0.71
212_W	239_P	1.233	0.71
114_L	135_L	1.231	0.70
2_I	6_I	1.223	0.70
299_R	305_Q	1.219	0.70
47_D	188_R	1.216	0.69
255_D	262_T	1.212	0.69
250_L	253_F	1.212	0.69
326_D	331_H	1.205	0.69
252_R	256_E	1.204	0.69
213_G	216_K	1.203	0.69
196_F	199_L	1.198	0.68
31_T	40_E	1.185	0.67
329_Q	353_S	1.171	0.67
207_P	217_S	1.168	0.66
112_F	116_W	1.166	0.66
41_M	188_R	1.160	0.66
319_R	324_D	1.157	0.66
250_L	257_N	1.149	0.65
235_F	238_R	1.146	0.65
116_W	144_G	1.138	0.64
209_A	215_A	1.138	0.64
197_P	203_S	1.136	0.64
27_W	158_Y	1.136	0.64
123_P	153_V	1.134	0.64
187_E	212_W	1.134	0.64
264_S	267_L	1.127	0.63
214_Q	217_S	1.127	0.63
330_R	335_W	1.125	0.63
336_S	339_N	1.124	0.63
307_I	311_V	1.123	0.63
209_A	214_Q	1.122	0.63
263_Y	267_L	1.117	0.63
42_T	45_L	1.117	0.63
144_G	149_L	1.113	0.62
212_W	216_K	1.113	0.62
111_A	302_G	1.111	0.62
249_A	259_D	1.103	0.62
177_P	183_L	1.100	0.62
329_Q	337_D	1.096	0.61
251_F	256_E	1.094	0.61
207_P	213_G	1.092	0.61
26_F	228_D	1.085	0.60
8_L	13_I	1.083	0.60
349_L	353_S	1.068	0.59
46_E	188_R	1.064	0.59
112_F	120_F	1.063	0.59
336_S	340_K	1.053	0.58
183_L	186_W	1.052	0.58
193_R	196_F	1.051	0.58
95_W	98_W	1.051	0.58
27_W	305_Q	1.051	0.58
94_N	101_Q	1.049	0.58
282_N	286_F	1.047	0.58
25_E	40_E	1.047	0.58
208_R	211_R	1.043	0.57
25_E	31_T	1.041	0.57
113_L	141_L	1.026	0.56
6_I	9_S	1.019	0.56
327_W	334_A	1.017	0.55
49_A	157_L	1.014	0.55
250_L	259_D	1.011	0.55
225_K	237_W	0.998	0.54
250_L	260_W	0.998	0.54
274_F	278_L	0.995	0.54
44_T	297_V	0.993	0.54
276_R	279_R	0.993	0.54
264_S	268_P	0.989	0.53
80_V	83_E	0.988	0.53
195_N	199_L	0.981	0.53
207_P	214_Q	0.979	0.53
26_F	35_H	0.976	0.52
249_A	256_E	0.972	0.52
329_Q	332_E	0.972	0.52
320_R	323_P	0.970	0.52
123_P	173_R	0.968	0.52
186_W	212_W	0.967	0.52
47_D	51_L	0.964	0.51
182_Q	186_W	0.963	0.51
262_T	267_L	0.962	0.51
250_L	262_T	0.952	0.51
77_L	80_V	0.951	0.50
47_D	158_Y	0.943	0.50
179_W	183_L	0.942	0.50
334_A	355_T	0.938	0.49
7_S	12_P	0.937	0.49
223_F	226_F	0.933	0.49
263_Y	266_M	0.924	0.48
327_W	331_H	0.922	0.48
7_S	11_Y	0.921	0.48
334_A	341_P	0.917	0.48
255_D	261_V	0.916	0.48
271_L	274_F	0.915	0.48
313_L	320_R	0.910	0.47
90_A	97_A	0.907	0.47
96_S	104_K	0.907	0.47
208_R	213_G	0.902	0.47
184_W	194_P	0.901	0.47
236_I	301_F	0.899	0.47
324_D	329_Q	0.894	0.46
325_A	329_Q	0.893	0.46
317_T	322_D	0.891	0.46
261_V	265_I	0.890	0.46
178_L	181_L	0.890	0.46
232_P	235_F	0.889	0.46
16_D	157_L	0.887	0.46
251_F	255_D	0.887	0.46
96_S	103_F	0.886	0.46
99_L	103_F	0.885	0.45
345_Y	352_T	0.882	0.45
334_A	340_K	0.881	0.45
40_E	45_L	0.878	0.45
333_S	340_K	0.874	0.45
319_R	326_D	0.872	0.44
235_F	239_P	0.871	0.44
333_S	338_Y	0.870	0.44
261_V	264_S	0.867	0.44
282_N	291_F	0.866	0.44
248_W	251_F	0.864	0.44
249_A	261_V	0.859	0.44
252_R	259_D	0.855	0.43
230_L	235_F	0.854	0.43
211_R	215_A	0.852	0.43
25_E	43_I	0.851	0.43
136_P	143_R	0.850	0.43
228_D	237_W	0.848	0.43
94_N	99_L	0.846	0.43
26_F	40_E	0.845	0.42
116_W	362_W	0.844	0.42
251_F	254_Y	0.841	0.42
315_H	318_D	0.840	0.42
210_A	214_Q	0.838	0.42
277_C	283_L	0.837	0.42
117_L	144_G	0.836	0.42
109_H	113_L	0.835	0.42
313_L	318_D	0.834	0.42
249_A	260_W	0.830	0.41
329_Q	349_L	0.830	0.41
3_Y	12_P	0.828	0.41
280_T	285_G	0.826	0.41
54_L	299_R	0.826	0.41
350_S	353_S	0.826	0.41
282_N	285_G	0.825	0.41
28_S	36_F	0.823	0.41
80_V	84_L	0.822	0.41
78_L	81_R	0.821	0.41
258_G	267_L	0.820	0.41
330_R	338_Y	0.819	0.41
345_Y	349_L	0.818	0.40
243_S	246_F	0.817	0.40
94_N	103_F	0.814	0.40
335_W	342_I	0.814	0.40
350_S	356_V	0.814	0.40
331_H	337_D	0.814	0.40
51_L	273_S	0.810	0.40
73_V	80_V	0.806	0.40
59_S	157_L	0.805	0.40
313_L	322_D	0.804	0.39
251_F	259_D	0.801	0.39
186_W	194_P	0.792	0.39
57_S	137_L	0.791	0.39
138_A	149_L	0.789	0.38
116_W	149_L	0.786	0.38
334_A	342_I	0.784	0.38
10_L	13_I	0.783	0.38
336_S	357_D	0.780	0.38
208_R	212_W	0.779	0.38
27_W	34_F	0.779	0.38
324_D	347_P	0.777	0.38
34_F	39_G	0.776	0.37
3_Y	6_I	0.776	0.37
126_S	135_L	0.775	0.37
26_F	34_F	0.775	0.37
252_R	257_N	0.771	0.37
331_H	338_Y	0.770	0.37
113_L	116_W	0.763	0.37
3_Y	8_L	0.763	0.37
254_Y	260_W	0.763	0.37
250_L	258_G	0.761	0.36
188_R	193_R	0.761	0.36
84_L	87_S	0.754	0.36
32_N	163_L	0.748	0.35
347_P	351_E	0.748	0.35
138_A	142_A	0.748	0.35
151_P	162_H	0.747	0.35
313_L	319_R	0.741	0.35
339_N	350_S	0.740	0.35
134_Y	150_G	0.740	0.35
300_Q	305_Q	0.739	0.35
250_L	261_V	0.738	0.35
120_F	153_V	0.738	0.35
19_L	185_A	0.737	0.35
157_L	311_V	0.735	0.35
11_Y	20_L	0.735	0.35
95_W	103_F	0.735	0.35
330_R	334_A	0.733	0.34
212_W	240_Y	0.732	0.34
184_W	187_E	0.730	0.34
349_L	356_V	0.730	0.34
125_P	171_K	0.727	0.34
227_L	231_S	0.727	0.34
353_S	359_M	0.726	0.34
329_Q	334_A	0.725	0.34
2_I	5_A	0.725	0.34
193_R	197_P	0.724	0.34
97_A	165_S	0.724	0.34
94_N	97_A	0.724	0.34
208_R	219_K	0.723	0.34
314_H	318_D	0.723	0.34
335_W	345_Y	0.723	0.34
113_L	274_F	0.721	0.34
255_D	268_P	0.719	0.34
210_A	217_S	0.718	0.33
53_G	290_E	0.717	0.33
281_S	285_G	0.715	0.33
222_W	225_K	0.711	0.33
332_E	340_K	0.710	0.33
109_H	116_W	0.710	0.33
118_G	130_V	0.709	0.33
133_N	286_F	0.709	0.33
316_L	319_R	0.708	0.33
181_L	187_E	0.706	0.33
318_D	322_D	0.705	0.33
236_I	242_D	0.704	0.32
345_Y	348_R	0.704	0.32
60_P	121_L	0.703	0.32
7_S	13_I	0.701	0.32
270_E	274_F	0.700	0.32
213_G	217_S	0.699	0.32
112_F	294_P	0.699	0.32
8_L	12_P	0.696	0.32
207_P	216_K	0.694	0.32
332_E	336_S	0.691	0.32
193_R	199_L	0.690	0.32
96_S	99_L	0.690	0.32
183_L	188_R	0.690	0.32
277_C	282_N	0.689	0.32
147_Y	228_D	0.689	0.32
52_L	179_W	0.688	0.31
109_H	138_A	0.684	0.31
74_C	79_G	0.684	0.31
350_S	360_E	0.683	0.31
336_S	344_L	0.682	0.31
39_G	158_Y	0.681	0.31
108_E	177_P	0.681	0.31
87_S	91_G	0.680	0.31
306_D	310_P	0.679	0.31
55_P	304_D	0.679	0.31
208_R	302_G	0.679	0.31
197_P	200_A	0.678	0.31
27_W	44_T	0.675	0.31
168_L	227_L	0.675	0.31
5_A	9_S	0.673	0.30
8_L	11_Y	0.667	0.30
341_P	344_L	0.662	0.30
121_L	138_A	0.661	0.30
224_R	229_G	0.661	0.30
290_E	300_Q	0.658	0.30
150_G	277_C	0.657	0.29
185_A	191_V	0.656	0.29
322_D	333_S	0.654	0.29
259_D	263_Y	0.654	0.29
121_L	318_D	0.654	0.29
228_D	231_S	0.653	0.29
44_T	300_Q	0.652	0.29
338_Y	342_I	0.652	0.29
39_G	47_D	0.647	0.29
349_L	352_T	0.645	0.29
136_P	192_L	0.644	0.29
255_D	259_D	0.644	0.29
339_N	342_I	0.642	0.29
31_T	37_P	0.640	0.28
321_V	328_S	0.640	0.28
222_W	228_D	0.639	0.28
26_F	31_T	0.638	0.28
152_A	174_L	0.636	0.28
348_R	354_V	0.634	0.28
324_D	327_W	0.633	0.28
140_D	145_G	0.629	0.28
315_H	319_R	0.627	0.28
348_R	353_S	0.627	0.28
123_P	171_K	0.627	0.28
191_V	201_E	0.626	0.28
307_I	359_M	0.624	0.27
332_E	337_D	0.622	0.27
251_F	261_V	0.621	0.27
252_R	255_D	0.620	0.27
223_F	235_F	0.620	0.27
249_A	262_T	0.619	0.27
336_S	341_P	0.618	0.27
184_W	193_R	0.618	0.27
327_W	332_E	0.614	0.27
243_S	247_E	0.610	0.27
332_E	338_Y	0.609	0.27
19_L	27_W	0.606	0.26
265_I	270_E	0.602	0.26
255_D	263_Y	0.601	0.26
319_R	327_W	0.600	0.26
74_C	78_L	0.599	0.26
205_G	209_A	0.599	0.26
76_K	106_K	0.598	0.26
331_H	341_P	0.597	0.26
16_D	19_L	0.595	0.26
251_F	257_N	0.594	0.26
16_D	27_W	0.594	0.26
272_L	275_A	0.593	0.26
273_S	279_R	0.592	0.26
52_L	98_W	0.592	0.26
75_E	81_R	0.592	0.26
97_A	100_N	0.591	0.25
183_L	189_F	0.591	0.25
43_I	180_L	0.590	0.25
25_E	30_E	0.590	0.25
51_L	187_E	0.589	0.25
226_F	235_F	0.589	0.25
268_P	273_S	0.589	0.25
110_R	114_L	0.588	0.25
7_S	10_L	0.586	0.25
281_S	284_I	0.586	0.25
342_I	356_V	0.585	0.25
237_W	240_Y	0.585	0.25
250_L	254_Y	0.583	0.25
254_Y	259_D	0.583	0.25
157_L	249_A	0.582	0.25
117_L	121_L	0.581	0.25
325_A	333_S	0.581	0.25
76_K	84_L	0.580	0.25
158_Y	194_P	0.580	0.25
135_L	150_G	0.579	0.25
255_D	264_S	0.579	0.25
76_K	81_R	0.578	0.25
20_L	174_L	0.578	0.25
204_G	215_A	0.578	0.25
47_D	154_L	0.577	0.25
109_H	123_P	0.577	0.25
314_H	322_D	0.576	0.25
30_E	40_E	0.571	0.24
330_R	340_K	0.570	0.24
319_R	322_D	0.569	0.24
194_P	203_S	0.568	0.24
25_E	28_S	0.568	0.24
93_T	96_S	0.567	0.24
320_R	324_D	0.565	0.24
36_F	108_E	0.564	0.24
330_R	337_D	0.564	0.24
209_A	217_S	0.562	0.24
110_R	142_A	0.562	0.24
112_F	177_P	0.561	0.24
56_I	263_Y	0.561	0.24
194_P	283_L	0.560	0.24
196_F	203_S	0.559	0.24
27_W	308_P	0.558	0.24
254_Y	257_N	0.557	0.24
237_W	249_A	0.556	0.24
307_I	321_V	0.556	0.24
41_M	192_L	0.553	0.23
53_G	184_W	0.553	0.23
208_R	216_K	0.553	0.23
283_L	286_F	0.552	0.23
212_W	215_A	0.552	0.23
349_L	360_E	0.551	0.23
110_R	149_L	0.551	0.23
246_F	251_F	0.551	0.23
257_N	265_I	0.550	0.23
262_T	265_I	0.550	0.23
37_P	40_E	0.550	0.23
316_L	321_V	0.549	0.23
280_T	283_L	0.547	0.23
239_P	254_Y	0.545	0.23
277_C	280_T	0.545	0.23
179_W	298_A	0.543	0.23
182_Q	297_V	0.541	0.23
96_S	101_Q	0.541	0.23
83_E	88_K	0.540	0.23
131_K	177_P	0.540	0.23
327_W	343_D	0.540	0.23
179_W	188_R	0.540	0.23
335_W	339_N	0.539	0.23
330_R	333_S	0.539	0.23
267_L	278_L	0.537	0.22
347_P	353_S	0.537	0.22
278_L	282_N	0.536	0.22
245_L	248_W	0.534	0.22
252_R	261_V	0.533	0.22
341_P	349_L	0.533	0.22
319_R	355_T	0.532	0.22
127_G	189_F	0.529	0.22
189_F	192_L	0.529	0.22
220_L	231_S	0.528	0.22
34_F	42_T	0.528	0.22
248_W	253_F	0.528	0.22
53_G	177_P	0.527	0.22
79_G	82_P	0.527	0.22
221_E	242_D	0.527	0.22
4_D	9_S	0.526	0.22
332_E	339_N	0.526	0.22
23_L	139_Y	0.526	0.22
326_D	338_Y	0.525	0.22
326_D	335_W	0.524	0.22
4_D	7_S	0.520	0.22
120_F	149_L	0.518	0.21
94_N	104_K	0.516	0.21
204_G	208_R	0.515	0.21
197_P	201_E	0.515	0.21
68_S	80_V	0.514	0.21
58_G	148_A	0.514	0.21
113_L	193_R	0.512	0.21
251_F	262_T	0.512	0.21
249_A	253_F	0.511	0.21
267_L	273_S	0.510	0.21
23_L	46_E	0.509	0.21
190_P	196_F	0.508	0.21
220_L	225_K	0.506	0.21
255_D	258_G	0.506	0.21
272_L	279_R	0.505	0.21
137_L	215_A	0.504	0.21
148_A	162_H	0.503	0.21
33_T	58_G	0.502	0.21
186_W	283_L	0.501	0.21
21_K	24_V	0.501	0.21
254_Y	262_T	0.500	0.21
307_I	318_D	0.500	0.21

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
4gl3A	1	0.1708	8.3	0.974	Contact Map
4r8oA	2	0.124	6.3	0.975	Contact Map
4ix1A	2	0.1983	5.9	0.976	Contact Map
4akgA	2	0.2314	5	0.977	Contact Map
4u2vB	2	0.4435	4.5	0.977	Contact Map
4or5E	1	0.1047	4.3	0.977	Contact Map
1xdxA	2	0.1488	4.2	0.977	Contact Map
3d8lA	2	0.0854	4.2	0.977	Contact Map
2dgdA	4	0.2094	3.8	0.978	Contact Map
1ygtA	2	0.1515	3	0.979	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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