GCFC - PFAM28P - GREMLIN Contacts

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GCFC - GC-rich sequence DNA-binding factor-like protein

PFAM:	PF07842	Sequences: LDEILLKFEELQEKYPEEYKEYGLSELAVALLAPLLRRQLAGWDPLEDPSYGVELLKRWKSLLELDQDLSSSRRQKSMTPYESLLWEVWLPKVRSAINNEWDPRDPDPMLALLEAWKPLLPPFILDNILDQLILPKLTAAVESWDPLSDTVTKSLVPIHTWLFPWLPLLGNERLEPLYPDIRRKLRSALDAWHPSRSALAGLSPWKDVFDPGEWDKLLVKHILPKLAKFLREFEINPRQQDLDPLEWVLAWKGLLPPSVLAELLEKEFFPKWLQVL	Download Alignment We filter this alignment to remove sites that have many gaps before running GREMLIN. Date: 2015_10
Length:	276 (269)
Sequences:	636 (432)
Seq/√Len:	26.4
META:	0.159

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:

i	j	Sco	Prob
97_I	109_M	5.082	1.00
237_P	240_Q	4.768	1.00
245_L	249_L	4.681	1.00
231_R	267_E	3.574	1.00
214_W	218_L	3.387	1.00
83_S	87_E	3.381	1.00
105_D	108_P	2.842	1.00
193_H	247_W	2.783	1.00
48_D	51_Y	2.698	0.99
163_F	166_L	2.630	0.99
235_I	240_Q	2.493	0.99
236_N	240_Q	2.437	0.99
180_D	183_R	2.435	0.99
255_L	260_L	2.429	0.99
93_V	112_L	2.418	0.99
97_I	132_L	2.395	0.99
89_W	116_W	2.317	0.98
127_N	131_Q	2.255	0.98
222_I	225_K	2.252	0.98
93_V	206_K	2.212	0.98
194_P	225_K	2.196	0.98
264_L	268_F	2.104	0.97
128_I	132_L	2.102	0.97
233_F	236_N	1.964	0.95
107_D	110_L	1.950	0.95
116_W	121_P	1.938	0.95
189_L	226_L	1.910	0.94
101_W	121_P	1.903	0.94
33_A	84_L	1.901	0.94
164_P	222_I	1.876	0.94
89_W	93_V	1.871	0.94
59_W	225_K	1.831	0.93
162_L	176_P	1.828	0.93
79_T	82_E	1.808	0.93
144_W	184_K	1.749	0.91
10_E	14_K	1.727	0.91
189_L	225_K	1.724	0.91
104_R	149_D	1.721	0.90
253_G	257_P	1.675	0.89
127_N	132_L	1.672	0.89
63_L	146_P	1.664	0.89
34_P	46_L	1.646	0.88
40_L	52_G	1.628	0.88
202_L	217_L	1.620	0.88
72_S	76_K	1.620	0.88
243_D	247_W	1.613	0.87
186_R	221_H	1.603	0.87
194_P	204_P	1.542	0.85
111_A	115_A	1.522	0.84
42_G	235_I	1.502	0.83
86_W	127_N	1.492	0.83
9_E	58_R	1.490	0.83
69_L	72_S	1.477	0.82
106_P	222_I	1.469	0.82
4_I	32_L	1.466	0.82
212_G	216_K	1.462	0.81
124_I	203_S	1.455	0.81
206_K	271_K	1.435	0.80
134_L	209_F	1.423	0.80
43_W	141_V	1.402	0.79
120_L	133_I	1.400	0.79
176_P	180_D	1.393	0.78
129_L	133_I	1.385	0.78
12_Q	19_Y	1.383	0.78
195_S	247_W	1.370	0.77
94_R	99_N	1.360	0.76
214_W	217_L	1.352	0.76
260_L	271_K	1.348	0.76
7_K	14_K	1.346	0.76
165_W	272_W	1.329	0.75
141_V	198_A	1.322	0.74
181_I	185_L	1.317	0.74
177_L	244_P	1.299	0.73
81_Y	112_L	1.297	0.73
272_W	276_L	1.290	0.73
105_D	140_A	1.289	0.72
248_V	260_L	1.276	0.72
71_S	74_R	1.274	0.72
123_F	131_Q	1.268	0.71
194_P	247_W	1.265	0.71
12_Q	271_K	1.261	0.71
183_R	186_R	1.244	0.70
201_G	204_P	1.223	0.68
187_S	248_V	1.217	0.68
96_A	108_P	1.217	0.68
49_P	133_I	1.213	0.68
35_L	44_D	1.211	0.68
59_W	94_R	1.208	0.67
128_I	233_F	1.204	0.67
48_D	245_L	1.199	0.67
61_S	81_Y	1.193	0.66
94_R	132_L	1.192	0.66
88_V	103_P	1.188	0.66
237_P	242_L	1.180	0.66
247_W	250_A	1.173	0.65
233_F	271_K	1.173	0.65
239_Q	255_L	1.172	0.65
68_D	73_R	1.163	0.64
129_L	157_P	1.161	0.64
3_E	10_E	1.159	0.64
50_S	115_A	1.158	0.64
103_P	162_L	1.157	0.64
214_W	255_L	1.155	0.64
42_G	51_Y	1.154	0.64
213_E	233_F	1.146	0.63
186_R	197_S	1.136	0.63
165_W	205_W	1.135	0.62
93_V	115_A	1.123	0.62
165_W	226_L	1.123	0.62
164_P	202_L	1.121	0.61
53_V	56_L	1.120	0.61
149_D	182_R	1.114	0.61
264_L	267_E	1.111	0.61
70_S	74_R	1.107	0.60
230_L	248_V	1.098	0.60
211_P	215_D	1.091	0.59
158_I	204_P	1.091	0.59
124_I	133_I	1.091	0.59
197_S	201_G	1.084	0.59
225_K	268_F	1.080	0.59
10_E	17_E	1.070	0.58
182_R	209_F	1.067	0.58
6_L	14_K	1.060	0.57
31_L	163_F	1.060	0.57
9_E	15_Y	1.057	0.57
81_Y	85_L	1.056	0.57
8_F	130_D	1.044	0.56
90_L	126_D	1.016	0.54
147_L	188_A	1.014	0.54
44_D	47_E	1.013	0.54
4_I	10_E	1.009	0.53
67_Q	70_S	1.006	0.53
223_L	255_L	1.004	0.53
76_K	145_D	1.003	0.53
213_E	216_K	0.996	0.52
97_I	218_L	0.993	0.52
123_F	245_L	0.992	0.52
59_W	134_L	0.988	0.52
110_L	213_E	0.986	0.52
169_L	269_F	0.982	0.51
17_E	20_K	0.979	0.51
226_L	230_L	0.979	0.51
86_W	123_F	0.973	0.51
225_K	247_W	0.968	0.50
163_F	178_Y	0.964	0.50
29_V	116_W	0.957	0.49
63_L	141_V	0.953	0.49
128_I	236_N	0.951	0.49
149_D	197_S	0.951	0.49
62_L	193_H	0.948	0.49
160_T	178_Y	0.943	0.48
197_S	204_P	0.938	0.48
90_L	113_L	0.937	0.48
92_K	97_I	0.935	0.48
17_E	83_S	0.933	0.48
188_A	194_P	0.932	0.48
164_P	205_W	0.930	0.47
269_F	272_W	0.925	0.47
11_L	199_L	0.919	0.47
262_E	266_K	0.914	0.46
240_Q	276_L	0.900	0.45
98_N	139_A	0.899	0.45
163_F	197_S	0.897	0.45
151_V	189_L	0.895	0.45
203_S	253_G	0.894	0.45
158_I	181_I	0.894	0.45
189_L	268_F	0.892	0.45
22_Y	29_V	0.887	0.44
42_G	255_L	0.886	0.44
134_L	167_P	0.885	0.44
42_G	85_L	0.885	0.44
256_P	260_L	0.885	0.44
65_L	206_K	0.883	0.44
254_L	258_S	0.881	0.44
6_L	10_E	0.879	0.44
178_Y	181_I	0.877	0.44
163_F	201_G	0.876	0.43
63_L	109_M	0.874	0.43
198_A	204_P	0.870	0.43
44_D	112_L	0.869	0.43
264_L	269_F	0.856	0.42
90_L	249_L	0.855	0.42
25_S	28_A	0.850	0.42
14_K	235_I	0.849	0.42
65_L	69_L	0.847	0.41
226_L	268_F	0.847	0.41
119_L	207_D	0.843	0.41
164_P	226_L	0.841	0.41
146_P	184_K	0.840	0.41
78_M	162_L	0.839	0.41
147_L	190_D	0.839	0.41
45_P	263_L	0.838	0.41
66_D	69_L	0.837	0.41
35_L	129_L	0.832	0.40
141_V	252_K	0.824	0.40
29_V	201_G	0.824	0.40
209_F	265_E	0.821	0.40
158_I	161_W	0.820	0.39
38_R	47_E	0.813	0.39
183_R	231_R	0.811	0.39
49_P	224_P	0.809	0.39
164_P	217_L	0.808	0.39
170_G	173_R	0.804	0.38
86_W	90_L	0.804	0.38
133_I	137_L	0.804	0.38
65_L	198_A	0.802	0.38
229_F	232_E	0.802	0.38
40_L	249_L	0.800	0.38
80_P	84_L	0.793	0.38
113_L	136_K	0.792	0.37
233_F	240_Q	0.792	0.37
54_E	257_P	0.791	0.37
57_K	211_P	0.789	0.37
15_Y	18_E	0.787	0.37
158_I	244_P	0.785	0.37
40_L	134_L	0.784	0.37
242_L	276_L	0.784	0.37
146_P	161_W	0.783	0.37
161_W	181_I	0.783	0.37
85_L	89_W	0.781	0.37
192_W	225_K	0.780	0.37
128_I	133_I	0.777	0.36
125_L	128_I	0.777	0.36
108_P	140_A	0.776	0.36
99_N	231_R	0.770	0.36
50_S	133_I	0.761	0.35
80_P	222_I	0.758	0.35
89_W	132_L	0.757	0.35
112_L	118_P	0.757	0.35
30_A	90_L	0.751	0.35
81_Y	121_P	0.747	0.34
44_D	100_E	0.746	0.34
132_L	217_L	0.746	0.34
84_L	103_P	0.745	0.34
38_R	122_P	0.740	0.34
114_E	164_P	0.739	0.34
8_F	19_Y	0.738	0.34
37_R	245_L	0.733	0.33
252_K	255_L	0.732	0.33
32_L	37_R	0.731	0.33
68_D	72_S	0.727	0.33
22_Y	215_D	0.726	0.33
45_P	141_V	0.725	0.33
84_L	87_E	0.725	0.33
81_Y	118_P	0.722	0.33
181_I	199_L	0.722	0.33
118_P	206_K	0.720	0.33
151_V	197_S	0.717	0.32
40_L	88_V	0.716	0.32
207_D	211_P	0.713	0.32
75_Q	211_P	0.711	0.32
130_D	209_F	0.710	0.32
51_Y	208_V	0.708	0.32
10_E	13_E	0.708	0.32
94_R	135_P	0.707	0.32
19_Y	119_L	0.705	0.32
61_S	77_S	0.704	0.32
240_Q	248_V	0.703	0.31
137_L	161_W	0.703	0.31
52_G	56_L	0.701	0.31
6_L	85_L	0.701	0.31
52_G	60_K	0.699	0.31
149_D	225_K	0.697	0.31
161_W	185_L	0.696	0.31
234_E	271_K	0.690	0.31
138_T	188_A	0.689	0.31
98_N	262_E	0.689	0.31
56_L	273_L	0.688	0.31
20_K	113_L	0.685	0.30
169_L	262_E	0.685	0.30
240_Q	271_K	0.685	0.30
43_W	46_L	0.684	0.30
159_H	164_P	0.683	0.30
167_P	195_S	0.680	0.30
186_R	262_E	0.678	0.30
101_W	106_P	0.677	0.30
65_L	275_V	0.673	0.30
180_D	267_E	0.673	0.30
93_V	136_K	0.672	0.30
11_L	22_Y	0.671	0.29
206_K	245_L	0.670	0.29
37_R	41_A	0.668	0.29
119_L	130_D	0.667	0.29
24_L	213_E	0.662	0.29
248_V	271_K	0.662	0.29
141_V	144_W	0.661	0.29
188_A	216_K	0.661	0.29
23_G	38_R	0.655	0.28
124_I	148_S	0.654	0.28
8_F	12_Q	0.646	0.28
181_I	197_S	0.646	0.28
84_L	187_S	0.645	0.28
61_S	206_K	0.644	0.28
53_V	197_S	0.644	0.28
218_L	229_F	0.644	0.28
74_R	77_S	0.643	0.28
206_K	214_W	0.642	0.28
27_L	147_L	0.641	0.28
91_P	94_R	0.641	0.28
233_F	237_P	0.632	0.27
91_P	165_W	0.631	0.27
145_D	188_A	0.627	0.27
98_N	238_R	0.626	0.27
133_I	248_V	0.625	0.27
14_K	38_R	0.624	0.27
23_G	114_E	0.623	0.27
30_A	145_D	0.622	0.27
32_L	229_F	0.621	0.26
13_E	102_D	0.619	0.26
5_L	12_Q	0.618	0.26
23_G	228_K	0.616	0.26
35_L	45_P	0.615	0.26
28_A	250_A	0.613	0.26
127_N	173_R	0.612	0.26
101_W	165_W	0.608	0.26
13_E	16_P	0.608	0.26
52_G	275_V	0.606	0.26
63_L	85_L	0.605	0.26
41_A	133_I	0.604	0.25
237_P	276_L	0.601	0.25
204_P	256_P	0.601	0.25
115_A	176_P	0.599	0.25
184_K	237_P	0.599	0.25
151_V	200_A	0.599	0.25
99_N	136_K	0.597	0.25
43_W	121_P	0.595	0.25
143_S	182_R	0.590	0.25
19_Y	86_W	0.588	0.25
163_F	256_P	0.585	0.24
2_D	150_T	0.583	0.24
86_W	188_A	0.583	0.24
4_I	7_K	0.583	0.24
27_L	207_D	0.580	0.24
11_L	91_P	0.578	0.24
230_L	263_L	0.570	0.24
5_L	112_L	0.569	0.24
88_V	207_D	0.567	0.23
192_W	202_L	0.566	0.23
40_L	95_S	0.564	0.23
28_A	149_D	0.563	0.23
80_P	121_P	0.561	0.23
121_P	192_W	0.560	0.23
195_S	243_D	0.558	0.23
122_P	148_S	0.557	0.23
36_L	74_R	0.557	0.23
86_W	199_L	0.556	0.23
166_L	240_Q	0.555	0.23
92_K	250_A	0.555	0.23
15_Y	50_S	0.554	0.23
89_W	127_N	0.552	0.23
61_S	68_D	0.550	0.23
167_P	209_F	0.550	0.23
128_I	230_L	0.550	0.23
57_K	62_L	0.549	0.23
36_L	219_V	0.549	0.23
62_L	100_E	0.548	0.22
35_L	109_M	0.546	0.22
68_D	207_D	0.545	0.22
29_V	223_L	0.545	0.22
167_P	215_D	0.544	0.22
165_W	222_I	0.543	0.22
16_P	208_V	0.543	0.22
20_K	70_S	0.542	0.22
116_W	266_K	0.541	0.22
235_I	271_K	0.539	0.22
4_I	28_A	0.539	0.22
60_K	81_Y	0.536	0.22
227_A	266_K	0.536	0.22
24_L	131_Q	0.535	0.22
166_L	224_P	0.535	0.22
210_D	213_E	0.533	0.22
194_P	229_F	0.533	0.22
118_P	207_D	0.532	0.22
161_W	165_W	0.530	0.22
207_D	235_I	0.530	0.22
20_K	180_D	0.529	0.21
51_Y	206_K	0.528	0.21
84_L	165_W	0.527	0.21
71_S	97_I	0.527	0.21
89_W	123_F	0.525	0.21
145_D	184_K	0.525	0.21
103_P	218_L	0.523	0.21
163_F	182_R	0.522	0.21
135_P	263_L	0.520	0.21
109_M	116_W	0.518	0.21
53_V	162_L	0.517	0.21
4_I	214_W	0.516	0.21
110_L	168_L	0.512	0.21
102_D	113_L	0.512	0.21
30_A	213_E	0.511	0.21
9_E	12_Q	0.508	0.20
234_E	241_D	0.506	0.20
168_L	175_E	0.506	0.20
133_I	162_L	0.506	0.20
41_A	162_L	0.504	0.20
100_E	257_P	0.504	0.20
149_D	158_I	0.503	0.20
94_R	240_Q	0.502	0.20
163_F	221_H	0.502	0.20
94_R	226_L	0.501	0.20
63_L	157_P	0.501	0.20
168_L	173_R	0.501	0.20
36_L	264_L	0.500	0.20
159_H	251_W	0.500	0.20

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
1ibrB	1	0.8768	12.3	0.961	Contact Map
4qmiA	1	0.4746	7.4	0.964	Contact Map
3hr0A	2	0.7138	6.9	0.965	Contact Map
1svdM	3	0.1486	5.4	0.967	Contact Map
4rs6A	1	0.2174	4.9	0.967	Contact Map
4qmhA	1	0.7971	4.5	0.968	Contact Map
4a5pA	3	0.6087	4.5	0.968	Contact Map
2qk2A	1	0.8188	4.4	0.968	Contact Map
4wzxE	1	0.0471	4	0.969	Contact Map
2qk1A	1	0.8478	3.8	0.969	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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